Citrus Sinensis ID: 006580

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640
Protein Sequence
MSSYLKKAHVNKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCVYLECDKLDVEGR
Secondary Structure (PSIPRED)
cHHHHHHccccccccccHHHHHHHHHccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccHHHHHHHHccccccccHHHHHHHHHcccccHHHHHHHHccccccccccHHHHHHHHHcccccHHHHHHHHHHHHcccccccEEHHHHHHHHHcHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccEEcHHHHHHHHHcccccHHHHHHHHHHHHccccccHHHHHHHHHHHcHHcHHHHHHHHHHHHHHccccccEEHHHHHHHHHccccHHHHHHHHccccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHHcHHHccccccccHHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHccccccccEEEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHcccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHcHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEcccccccHHHHHHHHHHHHHHHHHcccccccEEEEEcccc
Coil and Loop (DISEMBL)
mssylkkahvnkASLSYCSQLIDRClsfksfdfAKTIHGHlfklgfnahtylgnrcldlysrfgtsddvlqlfdeipqknciswniclrgllksdnlDTALKvfdeipepdvvswnsMISGYASCGYSDYALEMFSKmqlqgvrpsgfTFSILLSTVSsachgkqihgsmirSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISgcfnsgygelaLDQFYSmrysgyspdeyTISIVINACTklrnldkgkQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLredirpteftlscvlssipippvehgsqfhsMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLeeglppdrITLAAVLLACNYGGFVDKGMLVFSAMKeeygvmpgeeHYACIIDLLCQagqlgkaiditstmpfqpgcsiWESILRASAIYGDVKLTENVAERMmdlqlpsplpyslLTQAYAMRGRWEAIVRVKKVMRknginkvtgcswigiknriytfnagelqhhggQKIYLVLRLLTWEmedegcvylecdkldvegr
Flexible Loop (DISEMBL)
mssylkkahvnkASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFdeipepdvvswNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTgsidssteiFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKvmrknginkvtgcswigIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCVYLECDKLDVEGR
Low Complexity Region (SEG)
MSSYLKKAHVNKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRsglslsnvvlgnslIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDlqlpsplpysllTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCVYLECDKLDVEGR
Disordered region (IsUnstruct)
*********VNKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMI**********************GVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCVYLECDKL*****
Disordered Region (DISOPRED)
MSSY***AHVNKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCVYLECDKLDV***
Disordered Region (DISEMBL)
***********KASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCVYLECDKLDVEGR
Disordered Region (DISPRO)
MSSYLKKAHVNKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCVYLECDKLDVE**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSSYLKKAHVNKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCVYLECDKLDVEGR
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	640	2.2.26 [Sep-21-2011]
Q9LP03	633	Pentatricopeptide repeat-	yes	no	0.976	0.987	0.492	1e-180
Q9SIT7	697	Pentatricopeptide repeat-	no	no	0.946	0.869	0.346	1e-108
Q9SHZ8	786	Pentatricopeptide repeat-	no	no	0.956	0.778	0.319	8e-97
Q9CAA8	743	Putative pentatricopeptid	no	no	0.953	0.820	0.306	7e-93
Q9FRI5	790	Pentatricopeptide repeat-	no	no	0.931	0.754	0.307	2e-91
Q9M2Y7	721	Pentatricopeptide repeat-	no	no	0.926	0.822	0.333	1e-90
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.887	0.652	0.312	2e-88
Q9SVP7	1064	Pentatricopeptide repeat-	no	no	0.879	0.529	0.300	2e-87
Q9LFL5	850	Pentatricopeptide repeat-	no	no	0.889	0.669	0.326	3e-87
Q9LFI1	768	Pentatricopeptide repeat-	no	no	0.895	0.746	0.309	2e-86

>sp|Q9LP03|PPR73_ARATH Pentatricopeptide repeat-containing protein At1g43980, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E58 PE=2 SV=1

 Score =  632 bits (1631), Expect = e-180,   Method: Compositional matrix adjust.
 Identities = 309/627 (49%), Positives = 429/627 (68%), Gaps = 2/627 (0%)

Query: 1   MSSYLKKAH-VNKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDL 59
           M   L++AH +   S  Y S+L++R L  KS   AK +H  L + GF   TY GNRCL L
Sbjct: 1   MFQLLRRAHGLCMPSSLYFSRLVNRSLLSKSPTLAKIVHAQLLEAGFVRTTYWGNRCLQL 60

Query: 60  YSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMI 119
           Y + G+  + LQLFD+IP KN I+WN+CL+GL K+  L+ AL +FDE+PE DVVSWN+MI
Sbjct: 61  YFKSGSVINALQLFDDIPDKNTITWNVCLKGLFKNGYLNNALDLFDEMPERDVVSWNTMI 120

Query: 120 SGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSN 179
           SG  SCG+ +Y + +F  MQ   +RP+ FTFSIL S V+   HG+QIHG+ I SG+S  N
Sbjct: 121 SGLVSCGFHEYGIRVFFDMQRWEIRPTEFTFSILASLVTCVRHGEQIHGNAICSGVSRYN 180

Query: 180 VVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRY 239
           +V+ NS++DMY +LGV  YA  VFL ME+ D++SWN LI  C +SG  E+ALDQF+ MR 
Sbjct: 181 LVVWNSVMDMYRRLGVFDYALSVFLTMEDRDVVSWNCLILSCSDSGNKEVALDQFWLMRE 240

Query: 240 SGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLED 299
               PDEYT+S+V++ C+ LR L KGKQ  AL +K+GFLSNSIVL A ID+FSKCNRL+D
Sbjct: 241 MEIQPDEYTVSMVVSICSDLRELSKGKQALALCIKMGFLSNSIVLGAGIDMFSKCNRLDD 300

Query: 300 SVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI 359
           SV+LF +L++WD  + N MI +Y  +  GE AL LF L + + +RP +FT S VLSS+  
Sbjct: 301 SVKLFRELEKWDSVLCNSMIGSYSWHCCGEDALRLFILAMTQSVRPDKFTFSSVLSSMNA 360

Query: 360 PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIM 419
             ++HG+  HS+ IK GFD +  VA+SLMEMY KTGS+D +  +F K D +DL+ WNT++
Sbjct: 361 VMLDHGADVHSLVIKLGFDLDTAVATSLMEMYFKTGSVDLAMGVFAKTDGKDLIFWNTVI 420

Query: 420 MGLTQNGRAAETLDVFEELL-EEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYG 478
           MGL +N RA E+L +F +LL  + L PDR+TL  +L+AC Y GFV++G+ +FS+M++ +G
Sbjct: 421 MGLARNSRAVESLAIFNQLLMNQSLKPDRVTLMGILVACCYAGFVNEGIQIFSSMEKAHG 480

Query: 479 VMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVA 538
           V PG EHYACII+LLC+ G + +A DI   +PF+P   IWE IL AS   GD +L E VA
Sbjct: 481 VNPGNEHYACIIELLCRVGMINEAKDIADKIPFEPSSHIWEPILCASLDLGDTRLAETVA 540

Query: 539 ERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTF 598
           + M++ +  S  PY +L + Y M  RWE  V+++  M ++ +    G S I I++ +++F
Sbjct: 541 KTMLESEPKSSFPYLVLIKIYEMTWRWENSVKLRYAMNEHKLKSAQGSSKISIESSVFSF 600

Query: 599 NAGELQHHGGQKIYLVLRLLTWEMEDE 625
            A +LQ HGG     +L LL+W+  D+
Sbjct: 601 EADQLQIHGGHDTCALLDLLSWDSFDQ 627

Arabidopsis thaliana (taxid: 3702)

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

 Score =  394 bits (1011), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 225/650 (34%), Positives = 363/650 (55%), Gaps = 44/650 (6%)

Query: 19  SQLIDRCLSFK-SFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIP 77
           ++L+D C+  K S  + + +H  + K GF+   ++ NR +D YS+ G+ +D  Q+FD++P
Sbjct: 23  AKLLDSCIKSKLSAIYVRYVHASVIKSGFSNEIFIQNRLIDAYSKCGSLEDGRQVFDKMP 82

Query: 78  QKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSK 137
           Q+N  +WN  + GL K   LD A  +F  +PE D  +WNSM+SG+A     + AL  F+ 
Sbjct: 83  QRNIYTWNSVVTGLTKLGFLDEADSLFRSMPERDQCTWNSMVSGFAQHDRCEEALCYFAM 142

Query: 138 MQLQGVRPSGFTFSILLSTVS---SACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLG 194
           M  +G   + ++F+ +LS  S       G Q+H S+I     LS+V +G++L+DMY K G
Sbjct: 143 MHKEGFVLNEYSFASVLSACSGLNDMNKGVQVH-SLIAKSPFLSDVYIGSALVDMYSKCG 201

Query: 195 VLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVIN 254
            +  A  VF  M + +++SWNSLI+    +G    ALD F  M  S   PDE T++ VI+
Sbjct: 202 NVNDAQRVFDEMGDRNVVSWNSLITCFEQNGPAVEALDVFQMMLESRVEPDEVTLASVIS 261

Query: 255 ACTKLRNLDKGKQVFALSVKVGFLSNSIVLS-ATIDLFSKCNRLEDS--------VR--- 302
           AC  L  +  G++V    VK   L N I+LS A +D+++KC+R++++        +R   
Sbjct: 262 ACASLSAIKVGQEVHGRVVKNDKLRNDIILSNAFVDMYAKCSRIKEARFIFDSMPIRNVI 321

Query: 303 --------------------LFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLRED 342
                               +F ++   +    N +I+ Y + G  E AL LF L+ RE 
Sbjct: 322 AETSMISGYAMAASTKAARLMFTKMAERNVVSWNALIAGYTQNGENEEALSLFCLLKRES 381

Query: 343 IRPTEFTLSCVLSSIP-IPPVEHGSQFHSMAIKSGF------DSNAVVASSLMEMYAKTG 395
           + PT ++ + +L +   +  +  G Q H   +K GF      + +  V +SL++MY K G
Sbjct: 382 VCPTHYSFANILKACADLAELHLGMQAHVHVLKHGFKFQSGEEDDIFVGNSLIDMYVKCG 441

Query: 396 SIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLL 455
            ++    +F K+ +RD VSWN +++G  QNG   E L++F E+LE G  PD IT+  VL 
Sbjct: 442 CVEEGYLVFRKMMERDCVSWNAMIIGFAQNGYGNEALELFREMLESGEKPDHITMIGVLS 501

Query: 456 ACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGC 515
           AC + GFV++G   FS+M  ++GV P  +HY C++DLL +AG L +A  +   MP QP  
Sbjct: 502 ACGHAGFVEEGRHYFSSMTRDFGVAPLRDHYTCMVDLLGRAGFLEEAKSMIEEMPMQPDS 561

Query: 516 SIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVM 575
            IW S+L A  ++ ++ L + VAE++++++  +  PY LL+  YA  G+WE ++ V+K M
Sbjct: 562 VIWGSLLAACKVHRNITLGKYVAEKLLEVEPSNSGPYVLLSNMYAELGKWEDVMNVRKSM 621

Query: 576 RKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDE 625
           RK G+ K  GCSWI I+   + F   +  H   ++I+ +L +L  EM  E
Sbjct: 622 RKEGVTKQPGCSWIKIQGHDHVFMVKDKSHPRKKQIHSLLDILIAEMRPE 671

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SHZ8|PP168_ARATH Pentatricopeptide repeat-containing protein At2g22070 OS=Arabidopsis thaliana GN=PCMP-H41 PE=3 SV=1

 Score =  355 bits (910), Expect = 8e-97,   Method: Compositional matrix adjust.
 Identities = 219/686 (31%), Positives = 353/686 (51%), Gaps = 74/686 (10%)

Query: 15  LSYCSQLIDRCLSFKSFDF-AKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLF 73
           L  C+ L+ + ++  +  F A+ +H  + K G     YL N  +++YS+ G +    +LF
Sbjct: 13  LELCTNLLQKSVNKSNGRFTAQLVHCRVIKSGLMFSVYLMNNLMNVYSKTGYALHARKLF 72

Query: 74  DEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALE 133
           DE+P +   SWN  L    K  ++D+  + FD++P+ D VSW +MI GY + G    A+ 
Sbjct: 73  DEMPLRTAFSWNTVLSAYSKRGDMDSTCEFFDQLPQRDSVSWTTMIVGYKNIGQYHKAIR 132

Query: 134 MFSKMQLQGVRPSGFTFSILLSTVSSA-C--HGKQIHGSMIRSGLSLSNVVLGNSLIDMY 190
           +   M  +G+ P+ FT + +L++V++  C   GK++H  +++ GL   NV + NSL++MY
Sbjct: 133 VMGDMVKEGIEPTQFTLTNVLASVAATRCMETGKKVHSFIVKLGLR-GNVSVSNSLLNMY 191

Query: 191 GK-------------------------------LGVLYYAFGVFLNMEELDIISWNSLIS 219
            K                               +G +  A   F  M E DI++WNS+IS
Sbjct: 192 AKCGDPMMAKFVFDRMVVRDISSWNAMIALHMQVGQMDLAMAQFEQMAERDIVTWNSMIS 251

Query: 220 GCFNSGYGELALDQFYSM-RYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFL 278
           G    GY   ALD F  M R S  SPD +T++ V++AC  L  L  GKQ+ +  V  GF 
Sbjct: 252 GFNQRGYDLRALDIFSKMLRDSLLSPDRFTLASVLSACANLEKLCIGKQIHSHIVTTGFD 311

Query: 279 SNSIVLSATIDLFSKCNRLEDSVRLFEQ-------------------------------- 306
            + IVL+A I ++S+C  +E + RL EQ                                
Sbjct: 312 ISGIVLNALISMYSRCGGVETARRLIEQRGTKDLKIEGFTALLDGYIKLGDMNQAKNIFV 371

Query: 307 -LDRWDYAVINVMISTYGRYG-FGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVE- 363
            L   D      MI  Y ++G +GE A+ LF+ M+    RP  +TL+ +LS         
Sbjct: 372 SLKDRDVVAWTAMIVGYEQHGSYGE-AINLFRSMVGGGQRPNSYTLAAMLSVASSLASLS 430

Query: 364 HGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD-KRDLVSWNTIMMGL 422
           HG Q H  A+KSG   +  V+++L+ MYAK G+I S++  F  +  +RD VSW ++++ L
Sbjct: 431 HGKQIHGSAVKSGEIYSVSVSNALITMYAKAGNITSASRAFDLIRCERDTVSWTSMIIAL 490

Query: 423 TQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG 482
            Q+G A E L++FE +L EGL PD IT   V  AC + G V++G   F  MK+   ++P 
Sbjct: 491 AQHGHAEEALELFETMLMEGLRPDHITYVGVFSACTHAGLVNQGRQYFDMMKDVDKIIPT 550

Query: 483 EEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMM 542
             HYAC++DL  +AG L +A +    MP +P    W S+L A  ++ ++ L +  AER++
Sbjct: 551 LSHYACMVDLFGRAGLLQEAQEFIEKMPIEPDVVTWGSLLSACRVHKNIDLGKVAAERLL 610

Query: 543 DLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGE 602
            L+  +   YS L   Y+  G+WE   +++K M+   + K  G SWI +K++++ F   +
Sbjct: 611 LLEPENSGAYSALANLYSACGKWEEAAKIRKSMKDGRVKKEQGFSWIEVKHKVHVFGVED 670

Query: 603 LQHHGGQKIYLVLRLLTWEMEDEGCV 628
             H    +IY+ ++ +  E++  G V
Sbjct: 671 GTHPEKNEIYMTMKKIWDEIKKMGYV 696

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAA8|PP108_ARATH Putative pentatricopeptide repeat-containing protein At1g68930 OS=Arabidopsis thaliana GN=PCMP-H22 PE=3 SV=1

 Score =  342 bits (876), Expect = 7e-93,   Method: Compositional matrix adjust.
 Identities = 199/649 (30%), Positives = 339/649 (52%), Gaps = 39/649 (6%)

Query: 16  SYCSQLIDRCLSFKSFD---FAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQL 72
           +Y S  I +C+   + +   + K IHG++ +      T+L N  +  Y+   +S    ++
Sbjct: 4   NYYSVQIKQCIGLGARNQSRYVKMIHGNIIRALPYPETFLYNNIVHAYALMKSSTYARRV 63

Query: 73  FDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYAL 132
           FD IPQ N  SWN  L    K+  +      F+++P+ D V+WN +I GY+  G    A+
Sbjct: 64  FDRIPQPNLFSWNNLLLAYSKAGLISEMESTFEKLPDRDGVTWNVLIEGYSLSGLVGAAV 123

Query: 133 EMFSKMQLQ-GVRPSGFTFSILLSTVSSACH---GKQIHGSMIRSGLSLSNVVLGNSLID 188
           + ++ M        +  T   +L   SS  H   GKQIHG +I+ G   S +++G+ L+ 
Sbjct: 124 KAYNTMMRDFSANLTRVTLMTMLKLSSSNGHVSLGKQIHGQVIKLGFE-SYLLVGSPLLY 182

Query: 189 MYGKLGVLYYAFGVFLNME------------------------------ELDIISWNSLI 218
           MY  +G +  A  VF  ++                              E D +SW ++I
Sbjct: 183 MYANVGCISDAKKVFYGLDDRNTVMYNSLMGGLLACGMIEDALQLFRGMEKDSVSWAAMI 242

Query: 219 SGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFL 278
            G   +G  + A++ F  M+  G   D+Y    V+ AC  L  +++GKQ+ A  ++  F 
Sbjct: 243 KGLAQNGLAKEAIECFREMKVQGLKMDQYPFGSVLPACGGLGAINEGKQIHACIIRTNFQ 302

Query: 279 SNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLM 338
            +  V SA ID++ KC  L  +  +F+++ + +      M+  YG+ G  E A+++F  M
Sbjct: 303 DHIYVGSALIDMYCKCKCLHYAKTVFDRMKQKNVVSWTAMVVGYGQTGRAEEAVKIFLDM 362

Query: 339 LREDIRPTEFTLSCVLSSIP-IPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSI 397
            R  I P  +TL   +S+   +  +E GSQFH  AI SG      V++SL+ +Y K G I
Sbjct: 363 QRSGIDPDHYTLGQAISACANVSSLEEGSQFHGKAITSGLIHYVTVSNSLVTLYGKCGDI 422

Query: 398 DSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLAC 457
           D ST +F +++ RD VSW  ++    Q GRA ET+ +F+++++ GL PD +TL  V+ AC
Sbjct: 423 DDSTRLFNEMNVRDAVSWTAMVSAYAQFGRAVETIQLFDKMVQHGLKPDGVTLTGVISAC 482

Query: 458 NYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSI 517
           +  G V+KG   F  M  EYG++P   HY+C+IDL  ++G+L +A+   + MPF P    
Sbjct: 483 SRAGLVEKGQRYFKLMTSEYGIVPSIGHYSCMIDLFSRSGRLEEAMRFINGMPFPPDAIG 542

Query: 518 WESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRK 577
           W ++L A    G++++ +  AE +++L    P  Y+LL+  YA +G+W+++ ++++ MR+
Sbjct: 543 WTTLLSACRNKGNLEIGKWAAESLIELDPHHPAGYTLLSSIYASKGKWDSVAQLRRGMRE 602

Query: 578 NGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEG 626
             + K  G SWI  K ++++F+A +       +IY  L  L  ++ D G
Sbjct: 603 KNVKKEPGQSWIKWKGKLHSFSADDESSPYLDQIYAKLEELNNKIIDNG 651

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FRI5|PPR57_ARATH Pentatricopeptide repeat-containing protein At1g25360 OS=Arabidopsis thaliana GN=PCMP-H74 PE=2 SV=1

 Score =  337 bits (863), Expect = 2e-91,   Method: Compositional matrix adjust.
 Identities = 211/686 (30%), Positives = 344/686 (50%), Gaps = 90/686 (13%)

Query: 25  CLSFK--SFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCI 82
           CL  +  S   A+ +HG++   GF    ++ NR +D+Y +    +   QLFDEI + + I
Sbjct: 22  CLPLRRTSLQLARAVHGNIITFGFQPRAHILNRLIDVYCKSSELNYARQLFDEISEPDKI 81

Query: 83  SWNICLRGLLKSDNLDTALKVFDEIP--EPDVVSWNSMISGYA--SCGYSDYALEMFSKM 138
           +    + G   S ++  A  VF++ P    D V +N+MI+G++  + GYS  A+ +F KM
Sbjct: 82  ARTTMVSGYCASGDITLARGVFEKAPVCMRDTVMYNAMITGFSHNNDGYS--AINLFCKM 139

Query: 139 QLQGVRPSGFTFSILLSTVSSACHGK----QIHGSMIRSGLSLSNVVLGNSLIDMYGKLG 194
           + +G +P  FTF+ +L+ ++     +    Q H + ++SG      V  N+L+ +Y K  
Sbjct: 140 KHEGFKPDNFTFASVLAGLALVADDEKQCVQFHAAALKSGAGYITSV-SNALVSVYSKCA 198

Query: 195 ----VLYYAFGVFLNMEELDIISW--------------------------------NSLI 218
               +L+ A  VF  + E D  SW                                N++I
Sbjct: 199 SSPSLLHSARKVFDEILEKDERSWTTMMTGYVKNGYFDLGEELLEGMDDNMKLVAYNAMI 258

Query: 219 SGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFL 278
           SG  N G+ + AL+    M  SG   DE+T   VI AC     L  GKQV A  ++    
Sbjct: 259 SGYVNRGFYQEALEMVRRMVSSGIELDEFTYPSVIRACATAGLLQLGKQVHAYVLRREDF 318

Query: 279 S----NSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVIN------------------ 316
           S    NS+V      L+ KC + +++  +FE++   D    N                  
Sbjct: 319 SFHFDNSLV-----SLYYKCGKFDEARAIFEKMPAKDLVSWNALLSGYVSSGHIGEAKLI 373

Query: 317 -------------VMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVE 363
                        +MIS     GFGE  L+LF  M RE   P ++  S  + S  +    
Sbjct: 374 FKEMKEKNILSWMIMISGLAENGFGEEGLKLFSCMKREGFEPCDYAFSGAIKSCAVLGAY 433

Query: 364 -HGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGL 422
            +G Q+H+  +K GFDS+    ++L+ MYAK G ++ + ++F  +   D VSWN ++  L
Sbjct: 434 CNGQQYHAQLLKIGFDSSLSAGNALITMYAKCGVVEEARQVFRTMPCLDSVSWNALIAAL 493

Query: 423 TQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG 482
            Q+G  AE +DV+EE+L++G+ PDRITL  VL AC++ G VD+G   F +M+  Y + PG
Sbjct: 494 GQHGHGAEAVDVYEEMLKKGIRPDRITLLTVLTACSHAGLVDQGRKYFDSMETVYRIPPG 553

Query: 483 EEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMM 542
            +HYA +IDLLC++G+   A  +  ++PF+P   IWE++L    ++G+++L    A+++ 
Sbjct: 554 ADHYARLIDLLCRSGKFSDAESVIESLPFKPTAEIWEALLSGCRVHGNMELGIIAADKLF 613

Query: 543 DLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGE 602
            L       Y LL+  +A  G+WE + RV+K+MR  G+ K   CSWI ++ +++TF   +
Sbjct: 614 GLIPEHDGTYMLLSNMHAATGQWEEVARVRKLMRDRGVKKEVACSWIEMETQVHTFLVDD 673

Query: 603 LQHHGGQKIYLVLRLLTWEMEDEGCV 628
             H   + +Y+ L+ L  EM   G V
Sbjct: 674 TSHPEAEAVYIYLQDLGKEMRRLGYV 699

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M2Y7|PP274_ARATH Pentatricopeptide repeat-containing protein At3g49710 OS=Arabidopsis thaliana GN=PCMP-H79 PE=2 SV=1

 Score =  334 bits (857), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 201/602 (33%), Positives = 321/602 (53%), Gaps = 9/602 (1%)

Query: 35  KTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKS 94
           K++H    K    + TYL N  ++LYS+ G        F    + N  S+N+ ++   K 
Sbjct: 28  KSLHALYVKSIVASSTYLSNHFVNLYSKCGRLSYARAAFYSTEEPNVFSYNVIVKAYAKD 87

Query: 95  DNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILL 154
             +  A ++FDEIP+PD VS+N++ISGYA    +  A+ +F +M+  G    GFT S L+
Sbjct: 88  SKIHIARQLFDEIPQPDTVSYNTLISGYADARETFAAMVLFKRMRKLGFEVDGFTLSGLI 147

Query: 155 STVSSACH-GKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEEL-DII 212
           +         KQ+H   +  G   S   + N+ +  Y K G+L  A  VF  M+EL D +
Sbjct: 148 AACCDRVDLIKQLHCFSVSGGFD-SYSSVNNAFVTYYSKGGLLREAVSVFYGMDELRDEV 206

Query: 213 SWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALS 272
           SWNS+I        G  AL  +  M + G+  D +T++ V+NA T L +L  G+Q     
Sbjct: 207 SWNSMIVAYGQHKEGAKALALYKEMIFKGFKIDMFTLASVLNALTSLDHLIGGRQFHGKL 266

Query: 273 VKVGFLSNSIVLSATIDLFSKC---NRLEDSVRLFEQLDRWDYAVINVMISTYG-RYGFG 328
           +K GF  NS V S  ID +SKC   + + DS ++F+++   D  V N MIS Y       
Sbjct: 267 IKAGFHQNSHVGSGLIDFYSKCGGCDGMYDSEKVFQEILSPDLVVWNTMISGYSMNEELS 326

Query: 329 EVALELFQLMLREDIRPTEFTLSCVLSSIP-IPPVEHGSQFHSMAIKSGFDSNAV-VASS 386
           E A++ F+ M R   RP + +  CV S+   +       Q H +AIKS   SN + V ++
Sbjct: 327 EEAVKSFRQMQRIGHRPDDCSFVCVTSACSNLSSPSQCKQIHGLAIKSHIPSNRISVNNA 386

Query: 387 LMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD 446
           L+ +Y K+G++  +  +F ++ + + VS+N ++ G  Q+G   E L +++ +L+ G+ P+
Sbjct: 387 LISLYYKSGNLQDARWVFDRMPELNAVSFNCMIKGYAQHGHGTEALLLYQRMLDSGIAPN 446

Query: 447 RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDIT 506
           +IT  AVL AC + G VD+G   F+ MKE + + P  EHY+C+IDLL +AG+L +A    
Sbjct: 447 KITFVAVLSACAHCGKVDEGQEYFNTMKETFKIEPEAEHYSCMIDLLGRAGKLEEAERFI 506

Query: 507 STMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWE 566
             MP++PG   W ++L A   + ++ L E  A  +M +Q  +  PY +L   YA   +WE
Sbjct: 507 DAMPYKPGSVAWAALLGACRKHKNMALAERAANELMVMQPLAATPYVMLANMYADARKWE 566

Query: 567 AIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEG 626
            +  V+K MR   I K  GCSWI +K + + F A +  H   +++   L  +  +M+  G
Sbjct: 567 EMASVRKSMRGKRIRKKPGCSWIEVKKKKHVFVAEDWSHPMIREVNEYLEEMMKKMKKVG 626

Query: 627 CV 628
            V
Sbjct: 627 YV 628

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SN39|PP320_ARATH Pentatricopeptide repeat-containing protein At4g18750, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H45 PE=2 SV=1

 Score =  327 bits (837), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 189/605 (31%), Positives = 315/605 (52%), Gaps = 37/605 (6%)

Query: 27  SFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNI 86
           S +S    + +HG + K GF     +GN  +  Y                          
Sbjct: 207 SLRSVHGGEQLHGFILKSGFGERNSVGNSLVAFY-------------------------- 240

Query: 87  CLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPS 146
                LK+  +D+A KVFDE+ E DV+SWNS+I+GY S G ++  L +F +M + G+   
Sbjct: 241 -----LKNQRVDSARKVFDEMTERDVISWNSIINGYVSNGLAEKGLSVFVQMLVSGIEID 295

Query: 147 GFTFSILLSTVSSA---CHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVF 203
             T   + +  + +     G+ +H   +++  S  +    N+L+DMY K G L  A  VF
Sbjct: 296 LATIVSVFAGCADSRLISLGRAVHSIGVKACFSREDRFC-NTLLDMYSKCGDLDSAKAVF 354

Query: 204 LNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLD 263
             M +  ++S+ S+I+G    G    A+  F  M   G SPD YT++ V+N C + R LD
Sbjct: 355 REMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGISPDVYTVTAVLNCCARYRLLD 414

Query: 264 KGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYG 323
           +GK+V     +     +  V +A +D+++KC  ++++  +F ++   D    N +I  Y 
Sbjct: 415 EGKRVHEWIKENDLGFDIFVSNALMDMYAKCGSMQEAELVFSEMRVKDIISWNTIIGGYS 474

Query: 324 RYGFGEVALELFQLMLRED-IRPTEFTLSCVLSSIP-IPPVEHGSQFHSMAIKSGFDSNA 381
           +  +   AL LF L+L E    P E T++CVL +   +   + G + H   +++G+ S+ 
Sbjct: 475 KNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSAFDKGREIHGYIMRNGYFSDR 534

Query: 382 VVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEE 441
            VA+SL++MYAK G++  +  +F  +  +DLVSW  ++ G   +G   E + +F ++ + 
Sbjct: 535 HVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMIAGYGMHGFGKEAIALFNQMRQA 594

Query: 442 GLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGK 501
           G+  D I+  ++L AC++ G VD+G   F+ M+ E  + P  EHYACI+D+L + G L K
Sbjct: 595 GIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHYACIVDMLARTGDLIK 654

Query: 502 AIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAM 561
           A      MP  P  +IW ++L    I+ DVKL E VAE++ +L+  +   Y L+   YA 
Sbjct: 655 AYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEKVAEKVFELEPENTGYYVLMANIYAE 714

Query: 562 RGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWE 621
             +WE + R++K + + G+ K  GCSWI IK R+  F AG+  +   + I   LR +   
Sbjct: 715 AEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRVNIFVAGDSSNPETENIEAFLRKVRAR 774

Query: 622 MEDEG 626
           M +EG
Sbjct: 775 MIEEG 779

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SVP7|PP307_ARATH Pentatricopeptide repeat-containing protein At4g13650 OS=Arabidopsis thaliana GN=PCMP-H42 PE=2 SV=2

 Score =  323 bits (829), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 180/599 (30%), Positives = 315/599 (52%), Gaps = 36/599 (6%)

Query: 34  AKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLK 93
            + +H +  KLGF ++  +    L+LY+                               K
Sbjct: 408 GQQLHAYTTKLGFASNNKIEGALLNLYA-------------------------------K 436

Query: 94  SDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSIL 153
             +++TAL  F E    +VV WN M+  Y        +  +F +MQ++ + P+ +T+  +
Sbjct: 437 CADIETALDYFLETEVENVVLWNVMLVAYGLLDDLRNSFRIFRQMQIEEIVPNQYTYPSI 496

Query: 154 LST---VSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELD 210
           L T   +     G+QIH  +I++   L N  + + LIDMY KLG L  A+ + +     D
Sbjct: 497 LKTCIRLGDLELGEQIHSQIIKTNFQL-NAYVCSVLIDMYAKLGKLDTAWDILIRFAGKD 555

Query: 211 IISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFA 270
           ++SW ++I+G     + + AL  F  M   G   DE  ++  ++AC  L+ L +G+Q+ A
Sbjct: 556 VVSWTTMIAGYTQYNFDDKALTTFRQMLDRGIRSDEVGLTNAVSACAGLQALKEGQQIHA 615

Query: 271 LSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEV 330
            +   GF S+    +A + L+S+C ++E+S   FEQ +  D    N ++S + + G  E 
Sbjct: 616 QACVSGFSSDLPFQNALVTLYSRCGKIEESYLAFEQTEAGDNIAWNALVSGFQQSGNNEE 675

Query: 331 ALELFQLMLREDIRPTEFTL-SCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLME 389
           AL +F  M RE I    FT  S V ++     ++ G Q H++  K+G+DS   V ++L+ 
Sbjct: 676 ALRVFVRMNREGIDNNNFTFGSAVKAASETANMKQGKQVHAVITKTGYDSETEVCNALIS 735

Query: 390 MYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRIT 449
           MYAK GSI  + + F+++  ++ VSWN I+   +++G  +E LD F++++   + P+ +T
Sbjct: 736 MYAKCGSISDAEKQFLEVSTKNEVSWNAIINAYSKHGFGSEALDSFDQMIHSNVRPNHVT 795

Query: 450 LAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTM 509
           L  VL AC++ G VDKG+  F +M  EYG+ P  EHY C++D+L +AG L +A +    M
Sbjct: 796 LVGVLSACSHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVDMLTRAGLLSRAKEFIQEM 855

Query: 510 PFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIV 569
           P +P   +W ++L A  ++ ++++ E  A  +++L+      Y LL+  YA+  +W+A  
Sbjct: 856 PIKPDALVWRTLLSACVVHKNMEIGEFAAHHLLELEPEDSATYVLLSNLYAVSKKWDARD 915

Query: 570 RVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCV 628
             ++ M++ G+ K  G SWI +KN I++F  G+  H    +I+   + LT    + G V
Sbjct: 916 LTRQKMKEKGVKKEPGQSWIEVKNSIHSFYVGDQNHPLADEIHEYFQDLTKRASEIGYV 974

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFL5|PP390_ARATH Pentatricopeptide repeat-containing protein At5g16860 OS=Arabidopsis thaliana GN=PCMP-H92 PE=2 SV=1

 Score =  323 bits (827), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 215/659 (32%), Positives = 327/659 (49%), Gaps = 90/659 (13%)

Query: 25  CLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISW 84
           C    S    ++ H      GF ++ ++GN  + +YSR                  C S 
Sbjct: 137 CGEISSVRCGESAHALSLVTGFISNVFVGNALVAMYSR------------------CRS- 177

Query: 85  NICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQ-GV 143
                       L  A KVFDE+   DVVSWNS+I  YA  G    ALEMFS+M  + G 
Sbjct: 178 ------------LSDARKVFDEMSVWDVVSWNSIIESYAKLGKPKVALEMFSRMTNEFGC 225

Query: 144 RPSGFTF-SILLSTVSSACH--GKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAF 200
           RP   T  ++L    S   H  GKQ+H   + S + + N+ +GN L+DMY K G++  A 
Sbjct: 226 RPDNITLVNVLPPCASLGTHSLGKQLHCFAVTSEM-IQNMFVGNCLVDMYAKCGMMDEAN 284

Query: 201 GVFLNMEELDIISWNSL-----------------------------------ISGCFNSG 225
            VF NM   D++SWN++                                   ISG    G
Sbjct: 285 TVFSNMSVKDVVSWNAMVAGYSQIGRFEDAVRLFEKMQEEKIKMDVVTWSAAISGYAQRG 344

Query: 226 YGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKV-------GFL 278
            G  AL     M  SG  P+E T+  V++ C  +  L  GK++   ++K        G  
Sbjct: 345 LGYEALGVCRQMLSSGIKPNEVTLISVLSGCASVGALMHGKEIHCYAIKYPIDLRKNGHG 404

Query: 279 SNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVIN--VMISTYGRYGFGEVALELFQ 336
             ++V++  ID+++KC +++ +  +F+ L   +  V+   VMI  Y ++G    ALEL  
Sbjct: 405 DENMVINQLIDMYAKCKKVDTARAMFDSLSPKERDVVTWTVMIGGYSQHGDANKALELLS 464

Query: 337 LMLRED--IRPTEFTLSCVL-SSIPIPPVEHGSQFHSMAIKSGFDSNAV---VASSLMEM 390
            M  ED   RP  FT+SC L +   +  +  G Q H+ A+++    NAV   V++ L++M
Sbjct: 465 EMFEEDCQTRPNAFTISCALVACASLAALRIGKQIHAYALRN--QQNAVPLFVSNCLIDM 522

Query: 391 YAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITL 450
           YAK GSI  +  +F  +  ++ V+W ++M G   +G   E L +F+E+   G   D +TL
Sbjct: 523 YAKCGSISDARLVFDNMMAKNEVTWTSLMTGYGMHGYGEEALGIFDEMRRIGFKLDGVTL 582

Query: 451 AAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP 510
             VL AC++ G +D+GM  F+ MK  +GV PG EHYAC++DLL +AG+L  A+ +   MP
Sbjct: 583 LVVLYACSHSGMIDQGMEYFNRMKTVFGVSPGPEHYACLVDLLGRAGRLNAALRLIEEMP 642

Query: 511 FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVR 570
            +P   +W + L    I+G V+L E  AE++ +L       Y+LL+  YA  GRW+ + R
Sbjct: 643 MEPPPVVWVAFLSCCRIHGKVELGEYAAEKITELASNHDGSYTLLSNLYANAGRWKDVTR 702

Query: 571 VKKVMRKNGINKVTGCSWI-GIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCV 628
           ++ +MR  G+ K  GCSW+ GIK    TF  G+  H   ++IY VL      ++D G V
Sbjct: 703 IRSLMRHKGVKKRPGCSWVEGIKGTT-TFFVGDKTHPHAKEIYQVLLDHMQRIKDIGYV 760

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFI1|PP280_ARATH Pentatricopeptide repeat-containing protein At3g53360, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E86 PE=2 SV=1

 Score =  320 bits (820), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 189/611 (30%), Positives = 317/611 (51%), Gaps = 38/611 (6%)

Query: 21  LIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKN 80
           +I  C S       K +H  + KL  ++H    N  + +Y RF    D            
Sbjct: 174 IIKACASSSDVGLGKQLHAQVIKLESSSHLIAQNALIAMYVRFNQMSD------------ 221

Query: 81  CISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQL 140
                              A +VF  IP  D++SW+S+I+G++  G+   AL    +M  
Sbjct: 222 -------------------ASRVFYGIPMKDLISWSSIIAGFSQLGFEFEALSHLKEMLS 262

Query: 141 QGV-RPSGFTFSILLSTVSSAC---HGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVL 196
            GV  P+ + F   L   SS     +G QIHG  I+S L+  N + G SL DMY + G L
Sbjct: 263 FGVFHPNEYIFGSSLKACSSLLRPDYGSQIHGLCIKSELA-GNAIAGCSLCDMYARCGFL 321

Query: 197 YYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINAC 256
             A  VF  +E  D  SWN +I+G  N+GY + A+  F  MR SG+ PD  ++  ++ A 
Sbjct: 322 NSARRVFDQIERPDTASWNVIIAGLANNGYADEAVSVFSQMRSSGFIPDAISLRSLLCAQ 381

Query: 257 TKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQL-DRWDYAVI 315
           TK   L +G Q+ +  +K GFL++  V ++ + +++ C+ L     LFE   +  D    
Sbjct: 382 TKPMALSQGMQIHSYIIKWGFLADLTVCNSLLTMYTFCSDLYCCFNLFEDFRNNADSVSW 441

Query: 316 NVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSS-IPIPPVEHGSQFHSMAIK 374
           N +++   ++      L LF+LML  +  P   T+  +L   + I  ++ GSQ H  ++K
Sbjct: 442 NTILTACLQHEQPVEMLRLFKLMLVSECEPDHITMGNLLRGCVEISSLKLGSQVHCYSLK 501

Query: 375 SGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDV 434
           +G      + + L++MYAK GS+  +  IF  +D RD+VSW+T+++G  Q+G   E L +
Sbjct: 502 TGLAPEQFIKNGLIDMYAKCGSLGQARRIFDSMDNRDVVSWSTLIVGYAQSGFGEEALIL 561

Query: 435 FEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLC 494
           F+E+   G+ P+ +T   VL AC++ G V++G+ +++ M+ E+G+ P +EH +C++DLL 
Sbjct: 562 FKEMKSAGIEPNHVTFVGVLTACSHVGLVEEGLKLYATMQTEHGISPTKEHCSCVVDLLA 621

Query: 495 QAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSL 554
           +AG+L +A      M  +P   +W+++L A    G+V L +  AE ++ +   +   + L
Sbjct: 622 RAGRLNEAERFIDEMKLEPDVVVWKTLLSACKTQGNVHLAQKAAENILKIDPFNSTAHVL 681

Query: 555 LTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLV 614
           L   +A  G WE    ++  M+K+ + K+ G SWI I+++I+ F A ++ H     IY V
Sbjct: 682 LCSMHASSGNWENAALLRSSMKKHDVKKIPGQSWIEIEDKIHIFFAEDIFHPERDDIYTV 741

Query: 615 LRLLTWEMEDE 625
           L  +  +M DE
Sbjct: 742 LHNIWSQMLDE 752

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	640
224082372	630	predicted protein [Populus trichocarpa]	0.978	0.993	0.628	0.0
359492768	665	PREDICTED: pentatricopeptide repeat-cont	0.998	0.960	0.589	0.0
147833409	1796	hypothetical protein VITISV_018083 [Viti	0.935	0.333	0.596	0.0
356507618	630	PREDICTED: pentatricopeptide repeat-cont	0.981	0.996	0.580	0.0
255558478	524	pentatricopeptide repeat-containing prot	0.760	0.929	0.624	0.0
449453105	638	PREDICTED: pentatricopeptide repeat-cont	0.957	0.960	0.521	0.0
449517072	638	PREDICTED: pentatricopeptide repeat-cont	0.957	0.960	0.519	0.0
75175328	633	RecName: Full=Pentatricopeptide repeat-c	0.976	0.987	0.492	1e-178
334183080	621	pentatricopeptide repeat-containing prot	0.951	0.980	0.498	1e-178
297852182	599	F9C16.15 [Arabidopsis lyrata subsp. lyra	0.925	0.988	0.515	1e-177

>gi|224082372|ref|XP_002306667.1| predicted protein [Populus trichocarpa] gi|222856116|gb|EEE93663.1| predicted protein [Populus trichocarpa]

 Score =  822 bits (2122), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 394/627 (62%), Positives = 485/627 (77%), Gaps = 1/627 (0%)

Query: 1   MSSYLKKAH-VNKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDL 59
           M   +K+ H V++ SLSY S LID C S KS  FA+  H  L K+G N HT+LGNRCLDL
Sbjct: 1   MYPLIKQCHRVSRTSLSYYSYLIDHCFSLKSLSFARITHAQLIKVGLNRHTFLGNRCLDL 60

Query: 60  YSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMI 119
           YS+FG  +D L++FD+I  KN +SWNICL+GLLK DNL  A  VFD++PE DVVSWNSMI
Sbjct: 61  YSQFGNVNDALKVFDDISSKNIVSWNICLKGLLKFDNLSLACSVFDDMPERDVVSWNSMI 120

Query: 120 SGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSN 179
           SGYAS GY D ALE F +MQ  GVRPS FT+SIL+S V    HGK+IHGS++RSGL   N
Sbjct: 121 SGYASRGYFDCALETFWEMQKLGVRPSEFTYSILMSVVFGVRHGKEIHGSIVRSGLGALN 180

Query: 180 VVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRY 239
           VVLGNSLIDMYGK   L YA GVFL MEELD+ISWNSLIS C  SGY ELALD+F  MR 
Sbjct: 181 VVLGNSLIDMYGKFSSLDYALGVFLTMEELDVISWNSLISVCCQSGYPELALDKFCIMRS 240

Query: 240 SGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLED 299
            GYSPDE+++S+VI +C  LRNL+KGKQ+FAL VKVGFL N+I+ SATIDLFSKCNRLED
Sbjct: 241 LGYSPDEFSVSVVITSCLNLRNLEKGKQIFALCVKVGFLCNTIISSATIDLFSKCNRLED 300

Query: 300 SVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI 359
           SVRLFE+ D+WD AV N MIS+Y R GF E  L LF L L++DIRPTEFTLS VL S  I
Sbjct: 301 SVRLFEEQDQWDSAVCNSMISSYARCGFREDGLRLFVLTLKKDIRPTEFTLSSVLHSTSI 360

Query: 360 PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIM 419
             +E G+QFHS+A+KSG + +A+VASSL+EMY+K G ID S +IF K+  RDL++WNT++
Sbjct: 361 LKLEQGTQFHSLAVKSGLELDAIVASSLVEMYSKFGFIDCSIKIFNKMVARDLIAWNTMI 420

Query: 420 MGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGV 479
           MGLT NGR  E L  F+EL+  GLPPDRITLA VLLAC++GGF+ +GM VFS+M+E YGV
Sbjct: 421 MGLTHNGRVFEALQTFKELIRTGLPPDRITLAGVLLACSFGGFISEGMTVFSSMEERYGV 480

Query: 480 MPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAE 539
            P  EHYAC +DLLCQAG+L +A+ +  +MP++P   IWESIL A  I+GD+KL+E VAE
Sbjct: 481 KPSNEHYACFVDLLCQAGRLDEALYVAESMPYEPVSLIWESILHACLIHGDLKLSERVAE 540

Query: 540 RMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFN 599
           R+M+L+  S LPY +L + + +RG+WE +VRVKK M++  + KV GCSWIG+KN++YTF 
Sbjct: 541 RLMELEPQSSLPYLVLARMFEIRGQWEGVVRVKKAMKRGKVEKVIGCSWIGVKNQVYTFT 600

Query: 600 AGELQHHGGQKIYLVLRLLTWEMEDEG 626
           A +LQHH G++IYLVLRLL WE E +G
Sbjct: 601 ADQLQHHRGKEIYLVLRLLNWETEAKG 627

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359492768|ref|XP_002279149.2| PREDICTED: pentatricopeptide repeat-containing protein At1g43980, mitochondrial-like [Vitis vinifera]

 Score =  786 bits (2030), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 378/641 (58%), Positives = 485/641 (75%), Gaps = 2/641 (0%)

Query: 1   MSSYLKKAHVNKA-SLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDL 59
           M  +LKKAH   A SLSY S LI+ C   KS D+AK +H  L K+GFN HT+LGNRCLDL
Sbjct: 22  MQPFLKKAHGPLATSLSYYSNLIEHCFLLKSLDYAKFVHAQLIKVGFNTHTFLGNRCLDL 81

Query: 60  YSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMI 119
           YS+ GT +D L++F++I  KN ISWNI L+  ++   L+ A  VFDE+P+ DVVSWN+MI
Sbjct: 82  YSQLGTGNDSLRVFEDIIDKNLISWNIFLKAFVRFGELERARDVFDEMPKRDVVSWNTMI 141

Query: 120 SGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSN 179
           SGY S G  D A   FS+MQ  G+RPSGFT+S LLS VSSAC GKQIH SMIR+G+ LSN
Sbjct: 142 SGYVSFGLFDDAFRFFSEMQKAGIRPSGFTYSTLLSFVSSACRGKQIHASMIRNGVDLSN 201

Query: 180 VVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRY 239
           VV+GNSLI MYGK GV+ YAFGVF+ MEELDI SWNSLI  C  SGY  LAL QF  MR 
Sbjct: 202 VVVGNSLIGMYGKFGVVDYAFGVFITMEELDITSWNSLIWSCGKSGYQNLALRQFVLMRS 261

Query: 240 SGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLED 299
            GYSPD++T+S VI  C+ L++L+KG+Q+FAL ++VGFLSNSIV SA+IDLFSKCNRLED
Sbjct: 262 VGYSPDQFTVSTVITVCSNLQDLEKGEQIFALCIRVGFLSNSIVSSASIDLFSKCNRLED 321

Query: 300 SVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI 359
           SVR+FE++ +WD  + N MIS+Y  +GFGE AL+LF L LRE++RPTEFTLS VLS++ I
Sbjct: 322 SVRVFEEIYQWDSVLCNAMISSYAWHGFGENALQLFVLTLRENLRPTEFTLSIVLSAVSI 381

Query: 360 -PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTI 418
             PV+ GSQ HS+ +KSG +S+ +VASSL+EMYAK G IDS+ + F K+  RDL+SWNT+
Sbjct: 382 LLPVDQGSQIHSLVVKSGLESDVIVASSLVEMYAKFGLIDSAMKTFAKIGARDLISWNTM 441

Query: 419 MMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYG 478
           +MGL  NGR ++ L++F+ELL  G PPD ITLA VLLACN GG VD+G+ +FS+M++EYG
Sbjct: 442 IMGLAYNGRVSKALEIFKELLIGGPPPDEITLAGVLLACNVGGLVDEGLSIFSSMEKEYG 501

Query: 479 VMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVA 538
           V+P  EHYACI+D++ + G+L +A+DI   MP +P   IW S+L A  IYGD++ TE VA
Sbjct: 502 VIPAIEHYACIVDMMSRGGKLKEAMDIVELMPHEPSGLIWGSLLCACEIYGDLRFTERVA 561

Query: 539 ERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTF 598
           ER+M+L+  S LPY +L QAY MRGRWE++VRV++ M++ G+ KV GCSWIGIKN ++ F
Sbjct: 562 ERVMELEPQSSLPYLVLAQAYEMRGRWESLVRVRRAMKEKGVRKVIGCSWIGIKNHVFVF 621

Query: 599 NAGELQHHGGQKIYLVLRLLTWEMEDEGCVYLECDKLDVEG 639
              +L H GG+ IY +LRLL  E+ED+G    + DK+   G
Sbjct: 622 KENQLLHIGGKDIYFILRLLIQEIEDDGYASQQYDKVRAVG 662

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147833409|emb|CAN68525.1| hypothetical protein VITISV_018083 [Vitis vinifera]

 Score =  748 bits (1931), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 358/600 (59%), Positives = 460/600 (76%), Gaps = 1/600 (0%)

Query: 41   LFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTA 100
            L K+GFN HT+LGNRCLDLYS+ GT +D L++F++I  KN ISWNI L+  ++   L+ A
Sbjct: 736  LIKVGFNTHTFLGNRCLDLYSQLGTGNDSLRVFEDIIDKNLISWNIFLKAFVRFGELERA 795

Query: 101  LKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSA 160
              VFDE+P+ DVVSWN+MISGY S G  D A   FS+MQ  G+RPSGFT+S LLS VSSA
Sbjct: 796  RDVFDEMPKRDVVSWNTMISGYVSFGLFDDAFRFFSEMQKAGIRPSGFTYSTLLSFVSSA 855

Query: 161  CHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISG 220
            C GKQIH SMIR+G+ LSNVV+GNSLI MYGK GV+ YAFGVF+ MEELDIISWNSLI  
Sbjct: 856  CRGKQIHASMIRNGVDLSNVVVGNSLIGMYGKFGVVDYAFGVFITMEELDIISWNSLIWS 915

Query: 221  CFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSN 280
            C  SGY  LAL QF  MR  GYSPD++T+S VI  C+ L++L+KG+Q+FAL ++VGFLSN
Sbjct: 916  CGKSGYQNLALRQFVLMRSVGYSPDQFTVSTVITVCSNLQDLEKGEQIFALCIRVGFLSN 975

Query: 281  SIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLR 340
            SIV SA+IDLFSKCNRLEDSVR+FE++ +WD  + N MIS+Y  +GFGE AL+LF L LR
Sbjct: 976  SIVSSASIDLFSKCNRLEDSVRVFEEIYQWDSVLCNAMISSYAWHGFGENALQLFVLTLR 1035

Query: 341  EDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDS 399
            E++RPTEFTLS VLS++ I  PV+ GSQ HS+ +KSG +S+ +VASSL+EMYAK G IDS
Sbjct: 1036 ENLRPTEFTLSIVLSAVSILLPVDQGSQIHSLVVKSGLESDVIVASSLVEMYAKFGLIDS 1095

Query: 400  STEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNY 459
            + + F K+  RDL+SWNT++MGL  NGR ++ L++F+ELL  G PPD ITLA VLLACN 
Sbjct: 1096 AMKTFAKIGARDLISWNTMIMGLAYNGRVSKALEIFKELLIGGPPPDEITLAGVLLACNV 1155

Query: 460  GGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWE 519
            GG VD+G+ +FS+M++EYGV+P  EHYACI+D++ + G+L +A+DI   MP +P   IW 
Sbjct: 1156 GGLVDEGLSIFSSMEKEYGVIPAIEHYACIVDMMSRGGKLKEAMDIVELMPHEPSGLIWG 1215

Query: 520  SILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG 579
            S+L A  IYGD++ TE VAER+M+L+  S LPY +L QAY MRGRWE++VRV + M++ G
Sbjct: 1216 SLLCACEIYGDLRFTERVAERVMELEPQSSLPYLVLAQAYEMRGRWESLVRVXRAMKEKG 1275

Query: 580  INKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCVYLECDKLDVEG 639
            + KV GCSWIGIKN ++ F   +L H GG+ IY +LRLL  E+ED+G    + DK+   G
Sbjct: 1276 VRKVIGCSWIGIKNHVFVFKENQLLHIGGKDIYFILRLLIQEIEDDGYASQQYDKVRAVG 1335

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356507618|ref|XP_003522561.1| PREDICTED: pentatricopeptide repeat-containing protein At1g43980, mitochondrial-like [Glycine max]

 Score =  731 bits (1886), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 366/630 (58%), Positives = 473/630 (75%), Gaps = 2/630 (0%)

Query: 1   MSSYLKKAHVNKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLY 60
           M   LK+A    +SLSYCS L++ CLS KS +F K +H H  KLG N +TYLGNRCLDLY
Sbjct: 1   MYPLLKQAQGPYSSLSYCSLLLNHCLSKKSLNFVKIVHAHFLKLGLNTYTYLGNRCLDLY 60

Query: 61  SRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMIS 120
           S FG  +D  ++FD+I  KN  SWNICL+ LLKS     A  +FD +P  DVV+WNSMIS
Sbjct: 61  SEFGHLNDAPKVFDDISHKNSTSWNICLKWLLKSGQFGKACHLFDAMPVRDVVTWNSMIS 120

Query: 121 GYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNV 180
           GYASCGY  +ALE+F +MQ  GVRPSGFTFSIL+S VSS  H KQIH  MIRSG+ L NV
Sbjct: 121 GYASCGYFSHALELFVEMQGTGVRPSGFTFSILMSLVSSPSHAKQIHSRMIRSGVDLDNV 180

Query: 181 VLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYS 240
           VLGNSLI MYG+LG++ Y+FGV + M++ D+ISWNSLI  C  +G+ ELAL+QFY MR +
Sbjct: 181 VLGNSLITMYGRLGLVEYSFGVIMTMKQFDVISWNSLIWACHRAGHHELALEQFYWMRGA 240

Query: 241 GYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDS 300
            + PD++T S++++ C+ LR+LDKGKQVFA   K+GF+ NSIV SA IDLFSKCNRLEDS
Sbjct: 241 EFLPDQFTCSVLMSVCSNLRDLDKGKQVFAFCFKMGFVYNSIVSSAAIDLFSKCNRLEDS 300

Query: 301 VRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI- 359
           VRLF++ D+WD A+ N MIS+Y R+  GE  L+LF L LR++IRPTE+ +S +LSS+ I 
Sbjct: 301 VRLFKEQDQWDSALCNSMISSYARHYLGEDTLQLFVLTLRKNIRPTEYMVSSLLSSVSIF 360

Query: 360 PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIM 419
            PVE G+Q HS+  K GF+S+AVVA+SL+ MYAK G I+ +  IF ++  +DLVSWNTIM
Sbjct: 361 LPVEVGNQIHSLVPKLGFESDAVVANSLVHMYAKFGFINDALNIFNEMKIKDLVSWNTIM 420

Query: 420 MGLTQNGRAAETLDVFEELL-EEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYG 478
           MGLT  GR + T+D+F ELL  EG+ PDRITL AVLLACNYG  VD+G+ +FS+M+ E+ 
Sbjct: 421 MGLTYYGRVSLTMDLFRELLTREGMLPDRITLTAVLLACNYGLLVDEGIEIFSSMEMEFR 480

Query: 479 VMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVA 538
           V PGEEHYAC++++LC+AG+L +AIDI  TMP++    IW SI  A AIYGD+++ E VA
Sbjct: 481 VKPGEEHYACVVEMLCKAGKLKEAIDIIETMPYRTTSDIWRSIFSACAIYGDLQIIEGVA 540

Query: 539 ERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTF 598
           +++MD++    LPY +L QAY MRGRW+++VR++K     G  +  G SWIGIKN +YTF
Sbjct: 541 KKIMDMESLISLPYLVLAQAYQMRGRWDSMVRMRKAAENRGSKEFIGHSWIGIKNNVYTF 600

Query: 599 NAGELQHHGGQKIYLVLRLLTWEMEDEGCV 628
            + +LQH+GG+ +YLVL LL WEME EG V
Sbjct: 601 ASNQLQHYGGKDLYLVLNLLVWEMETEGYV 630

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255558478|ref|XP_002520264.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223540483|gb|EEF42050.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  674 bits (1739), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 326/522 (62%), Positives = 401/522 (76%)

Query: 107 IPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQI 166
           +PE DVVSWNSMISG+AS GY D AL +F +MQ  GVRPS FT+SI++S V  A HGK++
Sbjct: 1   MPERDVVSWNSMISGFASYGYFDSALGIFGEMQNMGVRPSAFTYSIMVSIVFDALHGKEL 60

Query: 167 HGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGY 226
           HGSMIRSG +  NVVLGNSLIDMYGK G + YAFGVF  MEE+D+I+WNSLI GC  SGY
Sbjct: 61  HGSMIRSGFNTLNVVLGNSLIDMYGKFGCVDYAFGVFFTMEEVDVITWNSLIIGCCKSGY 120

Query: 227 GELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSA 286
           GELAL QF  MR SGYSPDE+T S VI +C+ LRNLDKGKQ+FA  +KVGFLSN+IV SA
Sbjct: 121 GELALHQFCLMRSSGYSPDEFTCSAVITSCSNLRNLDKGKQIFAFCLKVGFLSNTIVSSA 180

Query: 287 TIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPT 346
            IDLFSKCNRLEDSV+LFE+LD+ + A+ N MIS+Y  +GFGE AL+LF L LRE+IRPT
Sbjct: 181 AIDLFSKCNRLEDSVQLFEELDQLNSALCNSMISSYAGHGFGENALQLFVLALRENIRPT 240

Query: 347 EFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVK 406
           EFT+S VLS I I P E G+QFHS  +K GF+ +A+VASSL++MY K G ID + +IF  
Sbjct: 241 EFTISSVLSFISIFPPEQGTQFHSSVVKLGFELDAIVASSLVQMYTKFGFIDYAMDIFKS 300

Query: 407 LDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKG 466
           +  RDL+SWNT++MGLTQNGR  E LD F++LL  G PPDRITLA VLLAC+YGGF+++G
Sbjct: 301 MTVRDLISWNTMIMGLTQNGRVIEALDAFKKLLNRGPPPDRITLAGVLLACSYGGFIEEG 360

Query: 467 MLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASA 526
           M +FS+M+  YG++P  EHYA I++LLCQAG L +A+ +   MP +P      SIL A A
Sbjct: 361 MTIFSSMQGSYGIIPSNEHYASIVNLLCQAGWLDEAMSMIEAMPSEPNSMTCRSILHACA 420

Query: 527 IYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGC 586
           I GD+KL E VAER++D+   S LPY +L + Y MRG+WEA+VRVKK M +     V GC
Sbjct: 421 IRGDLKLMEGVAERLVDIGSLSSLPYLVLARMYEMRGQWEAVVRVKKTMERTKAKTVDGC 480

Query: 587 SWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCV 628
           SWIGIKN + TF   +LQHHG + IY +LRL+ WEMEDEGC+
Sbjct: 481 SWIGIKNNVRTFKEDQLQHHGCKDIYSLLRLMNWEMEDEGCL 522

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449453105|ref|XP_004144299.1| PREDICTED: pentatricopeptide repeat-containing protein At1g43980, mitochondrial-like [Cucumis sativus]

 Score =  649 bits (1673), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 320/614 (52%), Positives = 438/614 (71%), Gaps = 1/614 (0%)

Query: 11  NKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVL 70
           +KA LS+ S LI RCL   S   AKTIHG L KLG +++T+L NRCL LY+ FG   DVL
Sbjct: 12  HKALLSHYSSLIRRCLVLGSVHNAKTIHGQLLKLGLDSNTFLANRCLQLYALFGPVHDVL 71

Query: 71  QLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDY 130
           ++FD I  KN ISWNICL+G+ +  ++D A  +FD +PE D+VSWN+MISGY S G+ + 
Sbjct: 72  KVFDGIKDKNIISWNICLKGMFRFGDVDGARHLFDVMPERDIVSWNTMISGYVSSGFGNS 131

Query: 131 ALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMY 190
           A+ +  +MQ  G RPS +TFSILLS VSSA HGKQ+HGSMIRSG+ +S++VLGNSLIDMY
Sbjct: 132 AMGVSLEMQNAGFRPSEYTFSILLSLVSSAFHGKQVHGSMIRSGVDVSSMVLGNSLIDMY 191

Query: 191 GKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTIS 250
           GK+G++ Y F +F +ME++D+ISWNSLI GC  SG+  LAL+QF+ MR + +SPD++TIS
Sbjct: 192 GKVGLVDYMFVIFSSMEKVDVISWNSLILGCHRSGFRVLALNQFFLMRTTEHSPDQFTIS 251

Query: 251 IVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRW 310
           +VI+ C  L+ L+ GKQ+FA   K+GF SNSIVLSATIDLFSKC+ L+ +V+LFE  ++W
Sbjct: 252 MVISICCCLQELELGKQIFAFCFKMGFTSNSIVLSATIDLFSKCDSLKVAVQLFEDTNQW 311

Query: 311 DYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFT-LSCVLSSIPIPPVEHGSQFH 369
           D  + NVMIS++  +G    ++ LF   LRE++ P + T  S + S     PVE GSQ H
Sbjct: 312 DPVLCNVMISSFAWHGHWRDSMWLFVYTLRENLGPIDTTLSSVLSSISVFTPVELGSQIH 371

Query: 370 SMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAA 429
           ++ +K GF S+ +V SSL++MYAK GSID + ++F+ +  RDL+SWNT++MGL  NG+  
Sbjct: 372 NLVLKLGFQSDVIVTSSLVDMYAKVGSIDDAMKVFIDMPFRDLISWNTMIMGLVDNGKYF 431

Query: 430 ETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACI 489
           E L  F +L+ EG+ PDRITLA VLLAC+Y G V++G+++FS M  E+GV+P  EHY+C+
Sbjct: 432 EALHTFNKLVMEGVLPDRITLAGVLLACSYAGLVEEGLVIFSKMTYEHGVVPRNEHYSCV 491

Query: 490 IDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSP 549
           ++LL +AG+  +A++I  T  +QP  + W S+L   AI+GD+K+ E VAE MM L+  S 
Sbjct: 492 VNLLSRAGKFEEAVNIIKTTLYQPTSTFWTSLLGVCAIHGDLKIIEKVAEWMMKLEPQSS 551

Query: 550 LPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQ 609
           LPYS+L QAYAMR +WE++VRVKK        KV  CSWI  K+  Y F   +LQ    +
Sbjct: 552 LPYSVLAQAYAMRCQWESMVRVKKTWENIATQKVKACSWIVTKDYAYAFQDDQLQLLSRE 611

Query: 610 KIYLVLRLLTWEME 623
            I  VL L+ WE+E
Sbjct: 612 NIISVLELIIWEIE 625

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449517072|ref|XP_004165570.1| PREDICTED: pentatricopeptide repeat-containing protein At1g43980, mitochondrial-like [Cucumis sativus]

 Score =  646 bits (1667), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 319/614 (51%), Positives = 437/614 (71%), Gaps = 1/614 (0%)

Query: 11  NKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVL 70
           +KA LS+ S LI RCL   S   AKTIHG L KLG +++T+L NRCL LY+ FG   DVL
Sbjct: 12  HKALLSHYSSLIRRCLVLGSVHNAKTIHGQLLKLGLDSNTFLANRCLQLYALFGPVHDVL 71

Query: 71  QLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDY 130
           ++FD I  KN ISWNICL+G+ +  ++D A  +FD +PE D+VSWN+MISGY S G+ + 
Sbjct: 72  KVFDGIKDKNIISWNICLKGMFRFGDVDGARHLFDVMPERDIVSWNTMISGYVSSGFVNS 131

Query: 131 ALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMY 190
           A+ +  +MQ  G RPS +TFSILLS V SA HGKQ+HGSMIRSG+ +S++VLGNSLIDMY
Sbjct: 132 AMGVSLEMQNAGFRPSEYTFSILLSLVPSAFHGKQVHGSMIRSGVDVSSMVLGNSLIDMY 191

Query: 191 GKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTIS 250
           GK+G++ Y F +F +ME++D+ISWNSLI GC  SG+  LAL+QF+ MR + +SPD++TIS
Sbjct: 192 GKVGLVDYMFVIFSSMEKVDVISWNSLILGCHRSGFRVLALNQFFLMRTTEHSPDQFTIS 251

Query: 251 IVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRW 310
           +VI+ C  L+ L+ GKQ+FA   K+GF SNSIVLSATIDLFSKC+ L+ +V+LFE  ++W
Sbjct: 252 MVISICCCLQELELGKQIFAFCFKMGFTSNSIVLSATIDLFSKCDSLKVAVQLFEDTNQW 311

Query: 311 DYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFT-LSCVLSSIPIPPVEHGSQFH 369
           D  + NVMIS++  +G    ++ LF   LRE++ P + T  S + S     PVE GSQ H
Sbjct: 312 DPVLCNVMISSFAWHGHWRDSMWLFVYTLRENLGPIDTTLSSVLSSISVFTPVELGSQIH 371

Query: 370 SMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAA 429
           ++ +K GF S+ +V SSL++MYAK GSID + ++F+ +  RDL+SWNT++MGL  NG+  
Sbjct: 372 NLVLKLGFQSDVIVTSSLVDMYAKVGSIDDAMKVFIDMPFRDLISWNTMIMGLVDNGKYF 431

Query: 430 ETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACI 489
           E L  F +L+ EG+ PDRITLA VLLAC+Y G V++G+++FS M  E+GV+P  EHY+C+
Sbjct: 432 EALHTFNKLVMEGVLPDRITLAGVLLACSYAGLVEEGLVIFSKMTYEHGVVPRNEHYSCV 491

Query: 490 IDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSP 549
           ++LL +AG+  +A++I  T  +QP  + W S+L   AI+GD+K+ E VAE MM L+  S 
Sbjct: 492 VNLLSRAGKFEEAVNIIKTTLYQPTSTFWTSLLGVCAIHGDLKIIEKVAEWMMKLEPQSS 551

Query: 550 LPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQ 609
           LPYS+L QAYAMR +WE++VRVKK        KV  CSWI  K+  Y F   +LQ    +
Sbjct: 552 LPYSVLAQAYAMRCQWESMVRVKKTWENIATQKVKACSWIVTKDYAYAFQDDQLQLLSRE 611

Query: 610 KIYLVLRLLTWEME 623
            I  VL L+ WE+E
Sbjct: 612 NIISVLELIIWEIE 625

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|75175328|sp|Q9LP03.1|PPR73_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At1g43980, mitochondrial; Flags: Precursor gi|8778677|gb|AAF79685.1|AC022314_26 F9C16.15 [Arabidopsis thaliana]

 Score =  632 bits (1631), Expect = e-178,   Method: Compositional matrix adjust.
 Identities = 309/627 (49%), Positives = 429/627 (68%), Gaps = 2/627 (0%)

Query: 1   MSSYLKKAH-VNKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDL 59
           M   L++AH +   S  Y S+L++R L  KS   AK +H  L + GF   TY GNRCL L
Sbjct: 1   MFQLLRRAHGLCMPSSLYFSRLVNRSLLSKSPTLAKIVHAQLLEAGFVRTTYWGNRCLQL 60

Query: 60  YSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMI 119
           Y + G+  + LQLFD+IP KN I+WN+CL+GL K+  L+ AL +FDE+PE DVVSWN+MI
Sbjct: 61  YFKSGSVINALQLFDDIPDKNTITWNVCLKGLFKNGYLNNALDLFDEMPERDVVSWNTMI 120

Query: 120 SGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSN 179
           SG  SCG+ +Y + +F  MQ   +RP+ FTFSIL S V+   HG+QIHG+ I SG+S  N
Sbjct: 121 SGLVSCGFHEYGIRVFFDMQRWEIRPTEFTFSILASLVTCVRHGEQIHGNAICSGVSRYN 180

Query: 180 VVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRY 239
           +V+ NS++DMY +LGV  YA  VFL ME+ D++SWN LI  C +SG  E+ALDQF+ MR 
Sbjct: 181 LVVWNSVMDMYRRLGVFDYALSVFLTMEDRDVVSWNCLILSCSDSGNKEVALDQFWLMRE 240

Query: 240 SGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLED 299
               PDEYT+S+V++ C+ LR L KGKQ  AL +K+GFLSNSIVL A ID+FSKCNRL+D
Sbjct: 241 MEIQPDEYTVSMVVSICSDLRELSKGKQALALCIKMGFLSNSIVLGAGIDMFSKCNRLDD 300

Query: 300 SVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI 359
           SV+LF +L++WD  + N MI +Y  +  GE AL LF L + + +RP +FT S VLSS+  
Sbjct: 301 SVKLFRELEKWDSVLCNSMIGSYSWHCCGEDALRLFILAMTQSVRPDKFTFSSVLSSMNA 360

Query: 360 PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIM 419
             ++HG+  HS+ IK GFD +  VA+SLMEMY KTGS+D +  +F K D +DL+ WNT++
Sbjct: 361 VMLDHGADVHSLVIKLGFDLDTAVATSLMEMYFKTGSVDLAMGVFAKTDGKDLIFWNTVI 420

Query: 420 MGLTQNGRAAETLDVFEELL-EEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYG 478
           MGL +N RA E+L +F +LL  + L PDR+TL  +L+AC Y GFV++G+ +FS+M++ +G
Sbjct: 421 MGLARNSRAVESLAIFNQLLMNQSLKPDRVTLMGILVACCYAGFVNEGIQIFSSMEKAHG 480

Query: 479 VMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVA 538
           V PG EHYACII+LLC+ G + +A DI   +PF+P   IWE IL AS   GD +L E VA
Sbjct: 481 VNPGNEHYACIIELLCRVGMINEAKDIADKIPFEPSSHIWEPILCASLDLGDTRLAETVA 540

Query: 539 ERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTF 598
           + M++ +  S  PY +L + Y M  RWE  V+++  M ++ +    G S I I++ +++F
Sbjct: 541 KTMLESEPKSSFPYLVLIKIYEMTWRWENSVKLRYAMNEHKLKSAQGSSKISIESSVFSF 600

Query: 599 NAGELQHHGGQKIYLVLRLLTWEMEDE 625
            A +LQ HGG     +L LL+W+  D+
Sbjct: 601 EADQLQIHGGHDTCALLDLLSWDSFDQ 627

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334183080|ref|NP_175064.2| pentatricopeptide repeat-containing protein-like protein [Arabidopsis thaliana] gi|332193889|gb|AEE32010.1| pentatricopeptide repeat-containing protein-like protein [Arabidopsis thaliana]

 Score =  631 bits (1627), Expect = e-178,   Method: Compositional matrix adjust.
 Identities = 304/610 (49%), Positives = 421/610 (69%), Gaps = 1/610 (0%)

Query: 17  YCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEI 76
           Y S+L++R L  KS   AK +H  L + GF   TY GNRCL LY + G+  + LQLFD+I
Sbjct: 6   YFSRLVNRSLLSKSPTLAKIVHAQLLEAGFVRTTYWGNRCLQLYFKSGSVINALQLFDDI 65

Query: 77  PQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFS 136
           P KN I+WN+CL+GL K+  L+ AL +FDE+PE DVVSWN+MISG  SCG+ +Y + +F 
Sbjct: 66  PDKNTITWNVCLKGLFKNGYLNNALDLFDEMPERDVVSWNTMISGLVSCGFHEYGIRVFF 125

Query: 137 KMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVL 196
            MQ   +RP+ FTFSIL S V+   HG+QIHG+ I SG+S  N+V+ NS++DMY +LGV 
Sbjct: 126 DMQRWEIRPTEFTFSILASLVTCVRHGEQIHGNAICSGVSRYNLVVWNSVMDMYRRLGVF 185

Query: 197 YYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINAC 256
            YA  VFL ME+ D++SWN LI  C +SG  E+ALDQF+ MR     PDEYT+S+V++ C
Sbjct: 186 DYALSVFLTMEDRDVVSWNCLILSCSDSGNKEVALDQFWLMREMEIQPDEYTVSMVVSIC 245

Query: 257 TKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVIN 316
           + LR L KGKQ  AL +K+GFLSNSIVL A ID+FSKCNRL+DSV+LF +L++WD  + N
Sbjct: 246 SDLRELSKGKQALALCIKMGFLSNSIVLGAGIDMFSKCNRLDDSVKLFRELEKWDSVLCN 305

Query: 317 VMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSG 376
            MI +Y  +  GE AL LF L + + +RP +FT S VLSS+    ++HG+  HS+ IK G
Sbjct: 306 SMIGSYSWHCCGEDALRLFILAMTQSVRPDKFTFSSVLSSMNAVMLDHGADVHSLVIKLG 365

Query: 377 FDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFE 436
           FD +  VA+SLMEMY KTGS+D +  +F K D +DL+ WNT++MGL +N RA E+L +F 
Sbjct: 366 FDLDTAVATSLMEMYFKTGSVDLAMGVFAKTDGKDLIFWNTVIMGLARNSRAVESLAIFN 425

Query: 437 ELL-EEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQ 495
           +LL  + L PDR+TL  +L+AC Y GFV++G+ +FS+M++ +GV PG EHYACII+LLC+
Sbjct: 426 QLLMNQSLKPDRVTLMGILVACCYAGFVNEGIQIFSSMEKAHGVNPGNEHYACIIELLCR 485

Query: 496 AGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLL 555
            G + +A DI   +PF+P   IWE IL AS   GD +L E VA+ M++ +  S  PY +L
Sbjct: 486 VGMINEAKDIADKIPFEPSSHIWEPILCASLDLGDTRLAETVAKTMLESEPKSSFPYLVL 545

Query: 556 TQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVL 615
            + Y M  RWE  V+++  M ++ +    G S I I++ +++F A +LQ HGG     +L
Sbjct: 546 IKIYEMTWRWENSVKLRYAMNEHKLKSAQGSSKISIESSVFSFEADQLQIHGGHDTCALL 605

Query: 616 RLLTWEMEDE 625
            LL+W+  D+
Sbjct: 606 DLLSWDSFDQ 615

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297852182|ref|XP_002893972.1| F9C16.15 [Arabidopsis lyrata subsp. lyrata] gi|297339814|gb|EFH70231.1| F9C16.15 [Arabidopsis lyrata subsp. lyrata]

 Score =  627 bits (1616), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 306/594 (51%), Positives = 414/594 (69%), Gaps = 2/594 (0%)

Query: 17  YCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEI 76
           Y S+L+DR L  K     + +H  L K GF   TY GNRCL LY + G   D  +LFD+I
Sbjct: 6   YFSRLVDRYLLSKCPTLTRIVHAQLLKAGFIRTTYWGNRCLQLYFKSGAVIDAFRLFDDI 65

Query: 77  PQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFS 136
           P KN ISWN+CL+GL K+  L+ AL +FDE+PE DVVSWN+MISG+ SCG+ +YA+ +F 
Sbjct: 66  PDKNTISWNVCLKGLFKNGFLNNALDLFDEMPERDVVSWNTMISGFVSCGFPEYAIRVFF 125

Query: 137 KMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVL 196
            MQ   +RP+ FTFSIL S VS   HG+QIHG+ I SG+S SN+V+ NSL+DMY ++GV 
Sbjct: 126 DMQRWVIRPTEFTFSILASLVSCVRHGEQIHGNAICSGVSKSNLVVWNSLMDMYRRIGVF 185

Query: 197 YYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINAC 256
            YA  VFL MEE D+ISWN LI  C +SG  E+ALDQF+ MR     PDEYT+S+V++ C
Sbjct: 186 DYAISVFLTMEERDVISWNCLILCCSDSGNKEVALDQFWLMREMENKPDEYTVSMVVSIC 245

Query: 257 TKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVIN 316
           + L++L KGKQ  AL +K+GFL N+IVL + ID+FSKCNRL+DSV+LF QL++WD  + N
Sbjct: 246 SDLQDLCKGKQAIALCIKMGFLFNNIVLGSGIDMFSKCNRLDDSVKLFRQLEKWDSVLCN 305

Query: 317 VMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSG 376
            MI +Y  +  GE  L LF + +R+ I P +FT S VLSS+    + HG+Q H++A K G
Sbjct: 306 SMIGSYSWHCCGEDTLTLFIVAMRQSISPDKFTFSSVLSSMNAVMLGHGAQVHALATKLG 365

Query: 377 FDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFE 436
           FDS+  VA+SLMEMY KTGS+DS+  +F   D++DL+ WNT++MGL +N RA E+L VF 
Sbjct: 366 FDSDTTVATSLMEMYFKTGSVDSAMGVFAITDEKDLIFWNTVIMGLARNSRAVESLSVFN 425

Query: 437 ELL--EEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLC 494
           +LL  E GL PDR+T   +L+AC Y GFV+KG+ +FS+M++ + V PG EHYACII+LLC
Sbjct: 426 QLLMDERGLKPDRVTFMGILVACCYAGFVNKGIQIFSSMEKTHDVDPGNEHYACIIELLC 485

Query: 495 QAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSL 554
           +AG + +A DI   +PF+P   IWE IL AS   GD +L E+VA+ M++ +  S  PY +
Sbjct: 486 RAGMINEAKDIADKIPFEPSSHIWEPILCASVDVGDTRLAESVAKIMIESEPKSSFPYLV 545

Query: 555 LTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGG 608
           L + Y M  RWE  V+++  M ++ +    G S IGIK+ +Y+F A +LQ HGG
Sbjct: 546 LIKLYEMTWRWENSVKLRYTMNEHKLKSTQGSSKIGIKSSVYSFEAEQLQIHGG 599

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	640
TAIR|locus:2205425	743	AT1G68930 "AT1G68930" [Arabido	0.675	0.581	0.322	3e-89
TAIR|locus:2082886	850	EMB2261 "embryo defective 2261	0.846	0.637	0.309	9.3e-84
TAIR|locus:2057630	727	AT2G33680 "AT2G33680" [Arabido	0.835	0.735	0.311	6.5e-83
TAIR|locus:2202074	809	CRR22 "CHLORORESPIRATORY REDUC	0.835	0.661	0.301	6.5e-83
TAIR|locus:2038603	868	AT2G27610 "AT2G27610" [Arabido	0.828	0.610	0.321	2.5e-81
TAIR|locus:2096414	882	AT3G03580 [Arabidopsis thalian	0.823	0.597	0.290	5.1e-81
TAIR|locus:2097365	721	AT3G49710 "AT3G49710" [Arabido	0.926	0.822	0.322	4.7e-80
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.853	0.626	0.324	1.2e-79
TAIR|locus:2119440	1064	AT4G13650 [Arabidopsis thalian	0.845	0.508	0.305	2.7e-77
TAIR|locus:2027589	611	PGN "AT1G56570" [Arabidopsis t	0.868	0.909	0.314	3.4e-77

TAIR|locus:2205425 AT1G68930 "AT1G68930" [Arabidopsis thaliana (taxid:3702)]

 Score = 678 (243.7 bits), Expect = 3.0e-89, Sum P(2) = 3.0e-89
 Identities = 140/434 (32%), Positives = 242/434 (55%)

Query:   194 GVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVI 253
             G++  A  +F  ME+ D +SW ++I G   +G  + A++ F  M+  G   D+Y    V+
Sbjct:   219 GMIEDALQLFRGMEK-DSVSWAAMIKGLAQNGLAKEAIECFREMKVQGLKMDQYPFGSVL 277

Query:   254 NACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYA 313
              AC  L  +++GKQ+ A  ++  F  +  V SA ID++ KC  L  +  +F+++ + +  
Sbjct:   278 PACGGLGAINEGKQIHACIIRTNFQDHIYVGSALIDMYCKCKCLHYAKTVFDRMKQKNVV 337

Query:   314 VINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIP-IPPVEHGSQFHSMA 372
                 M+  YG+ G  E A+++F  M R  I P  +TL   +S+   +  +E GSQFH  A
Sbjct:   338 SWTAMVVGYGQTGRAEEAVKIFLDMQRSGIDPDHYTLGQAISACANVSSLEEGSQFHGKA 397

Query:   373 IKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETL 432
             I SG      V++SL+ +Y K G ID ST +F +++ RD VSW  ++    Q GRA ET+
Sbjct:   398 ITSGLIHYVTVSNSLVTLYGKCGDIDDSTRLFNEMNVRDAVSWTAMVSAYAQFGRAVETI 457

Query:   433 DVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDL 492
              +F+++++ GL PD +TL  V+ AC+  G V+KG   F  M  EYG++P   HY+C+IDL
Sbjct:   458 QLFDKMVQHGLKPDGVTLTGVISACSRAGLVEKGQRYFKLMTSEYGIVPSIGHYSCMIDL 517

Query:   493 LCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDXXXXXXXXX 552
               ++G+L +A+   + MPF P    W ++L A    G++++ +  AE +++         
Sbjct:   518 FSRSGRLEEAMRFINGMPFPPDAIGWTTLLSACRNKGNLEIGKWAAESLIELDPHHPAGY 577

Query:   553 XXXTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIY 612
                +  YA +G+W+++ ++++ MR+  + K  G SWI  K ++++F+A +       +IY
Sbjct:   578 TLLSSIYASKGKWDSVAQLRRGMREKNVKKEPGQSWIKWKGKLHSFSADDESSPYLDQIY 637

Query:   613 LVLRLLTWEMEDEG 626
               L  L  ++ D G
Sbjct:   638 AKLEELNNKIIDNG 651

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2082886 EMB2261 "embryo defective 2261" [Arabidopsis thaliana (taxid:3702)]

 Score = 758 (271.9 bits), Expect = 9.3e-84, Sum P(2) = 9.3e-84
 Identities = 174/562 (30%), Positives = 292/562 (51%)

Query:    81 CISWNICLRGLLKSDN-LDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQ 139
             C+  ++ +   +K +N  + A KVFD++ E +VV+W  MI+     G+   A+  F  M 
Sbjct:   203 CVGCSL-IDMFVKGENSFENAYKVFDKMSELNVVTWTLMITRCMQMGFPREAIRFFLDMV 261

Query:   140 LQGVRPSGFTFSILLST---VSSACHGKQIHGSMIRXXXXXXXXXXXXXXIDMYGKL--- 193
             L G     FT S + S    + +   GKQ+H   IR              +DMY K    
Sbjct:   262 LSGFESDKFTLSSVFSACAELENLSLGKQLHSWAIRSGLVDDVECSL---VDMYAKCSAD 318

Query:   194 GVLYYAFGVFLNMEELDIISWNSLISGCF-NSGYGELALDQFYSMRYSGY-SPDEYTISI 251
             G +     VF  ME+  ++SW +LI+G   N      A++ F  M   G+  P+ +T S 
Sbjct:   319 GSVDDCRKVFDRMEDHSVMSWTALITGYMKNCNLATEAINLFSEMITQGHVEPNHFTFSS 378

Query:   252 VINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWD 311
                AC  L +   GKQV   + K G  SNS V ++ I +F K +R+ED+ R FE L   +
Sbjct:   379 AFKACGNLSDPRVGKQVLGQAFKRGLASNSSVANSVISMFVKSDRMEDAQRAFESLSEKN 438

Query:   312 YAVINVMIS-TYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIP-IPPVEHGSQFH 369
                 N  +  T     F E A +L   +   ++  + FT + +LS +  +  +  G Q H
Sbjct:   439 LVSYNTFLDGTCRNLNF-EQAFKLLSEITERELGVSAFTFASLLSGVANVGSIRKGEQIH 497

Query:   370 SMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAA 429
             S  +K G   N  V ++L+ MY+K GSID+++ +F  ++ R+++SW +++ G  ++G A 
Sbjct:   498 SQVVKLGLSCNQPVCNALISMYSKCGSIDTASRVFNFMENRNVISWTSMITGFAKHGFAI 557

Query:   430 ETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACI 489
               L+ F +++EEG+ P+ +T  A+L AC++ G V +G   F++M E++ + P  EHYAC+
Sbjct:   558 RVLETFNQMIEEGVKPNEVTYVAILSACSHVGLVSEGWRHFNSMYEDHKIKPKMEHYACM 617

Query:   490 IDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDXXXXXX 549
             +DLLC+AG L  A +  +TMPFQ    +W + L A  ++ + +L +  A ++++      
Sbjct:   618 VDLLCRAGLLTDAFEFINTMPFQADVLVWRTFLGACRVHSNTELGKLAARKILELDPNEP 677

Query:   550 XXXXXXTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQ 609
                   +  YA  G+WE    +++ M++  + K  GCSWI + ++I+ F  G+  H    
Sbjct:   678 AAYIQLSNIYACAGKWEESTEMRRKMKERNLVKEGGCSWIEVGDKIHKFYVGDTAHPNAH 737

Query:   610 KIYLVL-RLLTWEMEDEGCVYL 630
             +IY  L RL+T   E + C Y+
Sbjct:   738 QIYDELDRLIT---EIKRCGYV 756

GO:0009507 "chloroplast" evidence=ISM

GO:0009793 "embryo development ending in seed dormancy" evidence=IMP;NAS

TAIR|locus:2057630 AT2G33680 "AT2G33680" [Arabidopsis thaliana (taxid:3702)]

 Score = 759 (272.2 bits), Expect = 6.5e-83, Sum P(2) = 6.5e-83
 Identities = 169/542 (31%), Positives = 296/542 (54%)

Query:    93 KSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKM--QLQGVRPSGFTF 150
             K+  ++  LKVF  +PE +  +W++M+SGYA+ G  + A+++F+    + +    S + F
Sbjct:   165 KAGLVEDGLKVFAYMPERNTYTWSTMVSGYATRGRVEEAIKVFNLFLREKEEGSDSDYVF 224

Query:   151 SILLSTVSSACH---GKQIHGSMIRXXXXXXXXXXXXXXIDMYGKLGVLYYAFGVFLNME 207
             + +LS++++  +   G+QIH   I+              + MY K   L  A  +F +  
Sbjct:   225 TAVLSSLAATIYVGLGRQIHCITIKNGLLGFVALSNAL-VTMYSKCESLNEACKMFDSSG 283

Query:   208 ELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQ 267
             + + I+W+++++G   +G    A+  F  M  +G  P EYTI  V+NAC+ +  L++GKQ
Sbjct:   284 DRNSITWSAMVTGYSQNGESLEAVKLFSRMFSAGIKPSEYTIVGVLNACSDICYLEEGKQ 343

Query:   268 VFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGF 327
             + +  +K+GF  +    +A +D+++K   L D+ + F+ L   D A+   +IS Y +   
Sbjct:   344 LHSFLLKLGFERHLFATTALVDMYAKAGCLADARKGFDCLQERDVALWTSLISGYVQNSD 403

Query:   328 GEVALELFQLMLREDIRPTEFTLSCVLSSIP-IPPVEHGSQFHSMAIKSGFDSNAVVASS 386
              E AL L++ M    I P + T++ VL +   +  +E G Q H   IK GF     + S+
Sbjct:   404 NEEALILYRRMKTAGIIPNDPTMASVLKACSSLATLELGKQVHGHTIKHGFGLEVPIGSA 463

Query:   387 LMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD 446
             L  MY+K GS++    +F +   +D+VSWN ++ GL+ NG+  E L++FEE+L EG+ PD
Sbjct:   464 LSTMYSKCGSLEDGNLVFRRTPNKDVVSWNAMISGLSHNGQGDEALELFEEMLAEGMEPD 523

Query:   447 RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDIT 506
              +T   ++ AC++ GFV++G   F+ M ++ G+ P  +HYAC++DLL +AGQL +A +  
Sbjct:   524 DVTFVNIISACSHKGFVERGWFYFNMMSDQIGLDPKVDHYACMVDLLSRAGQLKEAKEFI 583

Query:   507 STMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDXXXXXXXXXXXXTQAYAMRGRWE 566
              +     G  +W  +L A   +G  +L     E++M             +  Y   GR  
Sbjct:   584 ESANIDHGLCLWRILLSACKNHGKCELGVYAGEKLMALGSRESSTYVQLSGIYTALGRMR 643

Query:   567 AIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEG 626
              + RV K MR NG++K  GCSWI +KN+ + F  G+  H   ++   ++ L++ +M +EG
Sbjct:   644 DVERVWKHMRANGVSKEVGCSWIELKNQYHVFVVGDTMHPMIEETKDLVCLVSRQMIEEG 703

Query:   627 CV 628
              V
Sbjct:   704 FV 705

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2202074 CRR22 "CHLORORESPIRATORY REDUCTION22" [Arabidopsis thaliana (taxid:3702)]

 Score = 738 (264.8 bits), Expect = 6.5e-83, Sum P(2) = 6.5e-83
 Identities = 163/540 (30%), Positives = 282/540 (52%)

Query:    93 KSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSI 152
             K   ++ A KVFD +PE D+VSWN++++GY+  G +  ALEM   M  + ++PS  T   
Sbjct:   182 KCRQVNEARKVFDRMPERDLVSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFITIVS 241

Query:   153 LLSTVSSA---CHGKQIHGSMIRXXXXXXXXXXXXXXIDMYGKLGVLYYAFGVFLNMEEL 209
             +L  VS+      GK+IHG  +R              +DMY K G L  A  +F  M E 
Sbjct:   242 VLPAVSALRLISVGKEIHGYAMRSGFDSLVNISTAL-VDMYAKCGSLETARQLFDGMLER 300

Query:   210 DIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVF 269
             +++SWNS+I     +   + A+  F  M   G  P + ++   ++AC  L +L++G+ + 
Sbjct:   301 NVVSWNSMIDAYVQNENPKEAMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIH 360

Query:   270 ALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGE 329
              LSV++G   N  V+++ I ++ KC  ++ +  +F +L        N MI  + + G   
Sbjct:   361 KLSVELGLDRNVSVVNSLISMYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGRPI 420

Query:   330 VALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQF-HSMAIKSGFDSNAVVASSLM 388
              AL  F  M    ++P  FT   V+++I    + H +++ H + ++S  D N  V ++L+
Sbjct:   421 DALNYFSQMRSRTVKPDTFTYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTALV 480

Query:   389 EMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI 448
             +MYAK G+I  +  IF  + +R + +WN ++ G   +G     L++FEE+ +  + P+ +
Sbjct:   481 DMYAKCGAIMIARLIFDMMSERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGV 540

Query:   449 TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITST 508
             T  +V+ AC++ G V+ G+  F  MKE Y +    +HY  ++DLL +AG+L +A D    
Sbjct:   541 TFLSVISACSHSGLVEAGLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQ 600

Query:   509 MPFQPGCSIWESILRASAIYGDVKLTENVAERMMDXXXXXXXXXXXXTQAYAMRGRWEAI 568
             MP +P  +++ ++L A  I+ +V   E  AER+ +               Y     WE +
Sbjct:   601 MPVKPAVNVYGAMLGACQIHKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWEKV 660

Query:   569 VRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCV 628
              +V+  M + G+ K  GCS + IKN +++F +G   H   +KIY  L  L   +++ G V
Sbjct:   661 GQVRVSMLRQGLRKTPGCSMVEIKNEVHSFFSGSTAHPDSKKIYAFLEKLICHIKEAGYV 720

GO:0005739 "mitochondrion" evidence=ISM

GO:0004519 "endonuclease activity" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0016556 "mRNA modification" evidence=RCA;IMP

TAIR|locus:2038603 AT2G27610 "AT2G27610" [Arabidopsis thaliana (taxid:3702)]

 Score = 767 (275.1 bits), Expect = 2.5e-81, Sum P(2) = 2.5e-81
 Identities = 174/541 (32%), Positives = 293/541 (54%)

Query:    92 LKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTF- 150
             LK  N+  A  +FD+     VV+WNSMISGYA+ G    AL MF  M+L  VR S  +F 
Sbjct:   240 LKCGNVRKARILFDKTEVKSVVTWNSMISGYAANGLDLEALGMFYSMRLNYVRLSESSFA 299

Query:   151 SI--LLSTVSSACHGKQIHGSMIRXXXXXXXXXXXXXXIDMYGKLGVLYYAFGVFLNMEE 208
             S+  L + +      +Q+H S+++              +  Y K   +  A  +F  +  
Sbjct:   300 SVIKLCANLKELRFTEQLHCSVVKYGFLFDQNIRTALMV-AYSKCTAMLDALRLFKEIGC 358

Query:   209 L-DIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQ 267
             + +++SW ++ISG   +   E A+D F  M+  G  P+E+T S+++ A   +       +
Sbjct:   359 VGNVVSWTAMISGFLQNDGKEEAVDLFSEMKRKGVRPNEFTYSVILTALPVI----SPSE 414

Query:   268 VFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGF 327
             V A  VK  +  +S V +A +D + K  ++E++ ++F  +D  D    + M++ Y + G 
Sbjct:   415 VHAQVVKTNYERSSTVGTALLDAYVKLGKVEEAAKVFSGIDDKDIVAWSAMLAGYAQTGE 474

Query:   328 GEVALELFQLMLREDIRPTEFTLSCVLS--SIPIPPVEHGSQFHSMAIKSGFDSNAVVAS 385
              E A+++F  + +  I+P EFT S +L+  +     +  G QFH  AIKS  DS+  V+S
Sbjct:   475 TEAAIKMFGELTKGGIKPNEFTFSSILNVCAATNASMGQGKQFHGFAIKSRLDSSLCVSS 534

Query:   386 SLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPP 445
             +L+ MYAK G+I+S+ E+F +  ++DLVSWN+++ G  Q+G+A + LDVF+E+ +  +  
Sbjct:   535 ALLTMYAKKGNIESAEEVFKRQREKDLVSWNSMISGYAQHGQAMKALDVFKEMKKRKVKM 594

Query:   446 DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDI 505
             D +T   V  AC + G V++G   F  M  +  + P +EH +C++DL  +AGQL KA+ +
Sbjct:   595 DGVTFIGVFAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCMVDLYSRAGQLEKAMKV 654

Query:   506 TSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDXXXXXXXXXXXXTQAYAMRGRW 565
                MP   G +IW +IL A  ++   +L    AE+++             +  YA  G W
Sbjct:   655 IENMPNPAGSTIWRTILAACRVHKKTELGRLAAEKIIAMKPEDSAAYVLLSNMYAESGDW 714

Query:   566 EAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDE 625
             +   +V+K+M +  + K  G SWI +KN+ Y+F AG+  H    +IY+ L  L+  ++D 
Sbjct:   715 QERAKVRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKDQIYMKLEDLSTRLKDL 774

Query:   626 G 626
             G
Sbjct:   775 G 775

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2096414 AT3G03580 [Arabidopsis thaliana (taxid:3702)]

 Score = 692 (248.7 bits), Expect = 5.1e-81, Sum P(2) = 5.1e-81
 Identities = 155/533 (29%), Positives = 269/533 (50%)

Query:   100 ALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLST--- 156
             A +VFDE+   D VS+N+MI GY      + ++ MF +  L   +P   T S +L     
Sbjct:   261 ARRVFDEMDVRDSVSYNTMICGYLKLEMVEESVRMFLE-NLDQFKPDLLTVSSVLRACGH 319

Query:   157 VSSACHGKQIHGSMIRXXXXXXXXXXXXXXIDMYGKLGVLYYAFGVFLNMEELDIISWNS 216
             +      K I+  M++              ID+Y K G +  A  VF +ME  D +SWNS
Sbjct:   320 LRDLSLAKYIYNYMLKAGFVLESTVRNIL-IDVYAKCGDMITARDVFNSMECKDTVSWNS 378

Query:   217 LISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVG 276
             +ISG   SG    A+  F  M       D  T  ++I+  T+L +L  GK + +  +K G
Sbjct:   379 IISGYIQSGDLMEAMKLFKMMMIMEEQADHITYLMLISVSTRLADLKFGKGLHSNGIKSG 438

Query:   277 FLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQ 336
                +  V +A ID+++KC  + DS+++F  +   D    N +IS   R+G     L++  
Sbjct:   439 ICIDLSVSNALIDMYAKCGEVGDSLKIFSSMGTGDTVTWNTVISACVRFGDFATGLQVTT 498

Query:   337 LMLREDIRPTEFTLSCVLSSIPIPPVEH-GSQFHSMAIKSGFDSNAVVASSLMEMYAKTG 395
              M + ++ P   T    L        +  G + H   ++ G++S   + ++L+EMY+K G
Sbjct:   499 QMRKSEVVPDMATFLVTLPMCASLAAKRLGKEIHCCLLRFGYESELQIGNALIEMYSKCG 558

Query:   396 SIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLL 455
              +++S+ +F ++ +RD+V+W  ++      G   + L+ F ++ + G+ PD +   A++ 
Sbjct:   559 CLENSSRVFERMSRRDVVTWTGMIYAYGMYGEGEKALETFADMEKSGIVPDSVVFIAIIY 618

Query:   456 ACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGC 515
             AC++ G VD+G+  F  MK  Y + P  EHYAC++DLL ++ ++ KA +    MP +P  
Sbjct:   619 ACSHSGLVDEGLACFEKMKTHYKIDPMIEHYACVVDLLSRSQKISKAEEFIQAMPIKPDA 678

Query:   516 SIWESILRASAIYGDVKLTENVAERMMDXXXXXXXXXXXXTQAYAMRGRWEAIVRVKKVM 575
             SIW S+LRA    GD++  E V+ R+++            + AYA   +W+ +  ++K +
Sbjct:   679 SIWASVLRACRTSGDMETAERVSRRIIELNPDDPGYSILASNAYAALRKWDKVSLIRKSL 738

Query:   576 RKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCV 628
             +   I K  G SWI +   ++ F++G+      + IY  L +L   M  EG +
Sbjct:   739 KDKHITKNPGYSWIEVGKNVHVFSSGDDSAPQSEAIYKSLEILYSLMAKEGYI 791

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2097365 AT3G49710 "AT3G49710" [Arabidopsis thaliana (taxid:3702)]

 Score = 804 (288.1 bits), Expect = 4.7e-80, P = 4.7e-80
 Identities = 194/602 (32%), Positives = 308/602 (51%)

Query:    35 KTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKS 94
             K++H    K    + TYL N  ++LYS+ G        F    + N  S+N+ ++   K 
Sbjct:    28 KSLHALYVKSIVASSTYLSNHFVNLYSKCGRLSYARAAFYSTEEPNVFSYNVIVKAYAKD 87

Query:    95 DNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILL 154
               +  A ++FDEIP+PD VS+N++ISGYA    +  A+ +F +M+  G    GFT S L+
Sbjct:    88 SKIHIARQLFDEIPQPDTVSYNTLISGYADARETFAAMVLFKRMRKLGFEVDGFTLSGLI 147

Query:   155 STVSSACHG-KQIHGSMIRXXXXXXXXXXXXXXIDMYGKLGVLYYAFGVFLNMEEL-DII 212
             +         KQ+H   +               +  Y K G+L  A  VF  M+EL D +
Sbjct:   148 AACCDRVDLIKQLHCFSV-SGGFDSYSSVNNAFVTYYSKGGLLREAVSVFYGMDELRDEV 206

Query:   213 SWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALS 272
             SWNS+I        G  AL  +  M + G+  D +T++ V+NA T L +L  G+Q     
Sbjct:   207 SWNSMIVAYGQHKEGAKALALYKEMIFKGFKIDMFTLASVLNALTSLDHLIGGRQFHGKL 266

Query:   273 VKVGFLSNSIVLSATIDLFSKCNRLE---DSVRLFEQLDRWDYAVINVMISTYG-RYGFG 328
             +K GF  NS V S  ID +SKC   +   DS ++F+++   D  V N MIS Y       
Sbjct:   267 IKAGFHQNSHVGSGLIDFYSKCGGCDGMYDSEKVFQEILSPDLVVWNTMISGYSMNEELS 326

Query:   329 EVALELFQLMLREDIRPTEFTLSCVLSSIP-IPPVEHGSQFHSMAIKSGFDSNAV-VASS 386
             E A++ F+ M R   RP + +  CV S+   +       Q H +AIKS   SN + V ++
Sbjct:   327 EEAVKSFRQMQRIGHRPDDCSFVCVTSACSNLSSPSQCKQIHGLAIKSHIPSNRISVNNA 386

Query:   387 LMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD 446
             L+ +Y K+G++  +  +F ++ + + VS+N ++ G  Q+G   E L +++ +L+ G+ P+
Sbjct:   387 LISLYYKSGNLQDARWVFDRMPELNAVSFNCMIKGYAQHGHGTEALLLYQRMLDSGIAPN 446

Query:   447 RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDIT 506
             +IT  AVL AC + G VD+G   F+ MKE + + P  EHY+C+IDLL +AG+L +A    
Sbjct:   447 KITFVAVLSACAHCGKVDEGQEYFNTMKETFKIEPEAEHYSCMIDLLGRAGKLEEAERFI 506

Query:   507 STMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDXXXXXXXXXXXXTQAYAMRGRWE 566
               MP++PG   W ++L A   + ++ L E  A  +M                YA   +WE
Sbjct:   507 DAMPYKPGSVAWAALLGACRKHKNMALAERAANELMVMQPLAATPYVMLANMYADARKWE 566

Query:   567 AIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEG 626
              +  V+K MR   I K  GCSWI +K + + F A +  H   +++   L  +  +M+  G
Sbjct:   567 EMASVRKSMRGKRIRKKPGCSWIEVKKKKHVFVAEDWSHPMIREVNEYLEEMMKKMKKVG 626

Query:   627 CV 628
              V
Sbjct:   627 YV 628

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2124137 DOT4 "DEFECTIVELY ORGANIZED TRIBUTARIES 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 800 (286.7 bits), Expect = 1.2e-79, P = 1.2e-79
 Identities = 180/555 (32%), Positives = 294/555 (52%)

Query:    78 QKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSK 137
             ++N +  N  +   LK+  +D+A KVFDE+ E DV+SWNS+I+GY S G ++  L +F +
Sbjct:   228 ERNSVG-NSLVAFYLKNQRVDSARKVFDEMTERDVISWNSIINGYVSNGLAEKGLSVFVQ 286

Query:   138 MQLQGVRPSGFTF-SILLSTVSSACH--GKQIHGSMIRXXXXXXXXXXXXXXIDMYGKLG 194
             M + G+     T  S+      S     G+ +H   ++              +DMY K G
Sbjct:   287 MLVSGIEIDLATIVSVFAGCADSRLISLGRAVHSIGVKACFSREDRFCNTL-LDMYSKCG 345

Query:   195 VLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVIN 254
              L  A  VF  M +  ++S+ S+I+G    G    A+  F  M   G SPD YT++ V+N
Sbjct:   346 DLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGISPDVYTVTAVLN 405

Query:   255 ACTKLRNLDKGKQVFALSVKVGFLSNSIVLS-ATIDLFSKCNRLEDSVRLFEQLDRWDYA 313
              C + R LD+GK+V    +K   L   I +S A +D+++KC  ++++  +F ++   D  
Sbjct:   406 CCARYRLLDEGKRVHEW-IKENDLGFDIFVSNALMDMYAKCGSMQEAELVFSEMRVKDII 464

Query:   314 VINVMISTYGRYGFGEVALELFQLMLRED-IRPTEFTLSCVLSSIP-IPPVEHGSQFHSM 371
               N +I  Y +  +   AL LF L+L E    P E T++CVL +   +   + G + H  
Sbjct:   465 SWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSAFDKGREIHGY 524

Query:   372 AIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAET 431
              +++G+ S+  VA+SL++MYAK G++  +  +F  +  +DLVSW  ++ G   +G   E 
Sbjct:   525 IMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMIAGYGMHGFGKEA 584

Query:   432 LDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIID 491
             + +F ++ + G+  D I+  ++L AC++ G VD+G   F+ M+ E  + P  EHYACI+D
Sbjct:   585 IALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHYACIVD 644

Query:   492 LLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDXXXXXXXX 551
             +L + G L KA      MP  P  +IW ++L    I+ DVKL E VAE++ +        
Sbjct:   645 MLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEKVAEKVFELEPENTGY 704

Query:   552 XXXXTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKI 611
                    YA   +WE + R++K + + G+ K  GCSWI IK R+  F AG+  +   + I
Sbjct:   705 YVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRVNIFVAGDSSNPETENI 764

Query:   612 YLVLRLLTWEMEDEG 626
                LR +   M +EG
Sbjct:   765 EAFLRKVRARMIEEG 779

GO:0009507 "chloroplast" evidence=ISM

GO:0010087 "phloem or xylem histogenesis" evidence=IMP

GO:0010305 "leaf vascular tissue pattern formation" evidence=IMP

GO:0010588 "cotyledon vascular tissue pattern formation" evidence=IMP

GO:0048366 "leaf development" evidence=IMP

TAIR|locus:2119440 AT4G13650 [Arabidopsis thaliana (taxid:3702)]

 Score = 778 (278.9 bits), Expect = 2.7e-77, P = 2.7e-77
 Identities = 167/547 (30%), Positives = 291/547 (53%)

Query:    93 KSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSI 152
             K  +++TAL  F E    +VV WN M+  Y        +  +F +MQ++ + P+ +T+  
Sbjct:   436 KCADIETALDYFLETEVENVVLWNVMLVAYGLLDDLRNSFRIFRQMQIEEIVPNQYTYPS 495

Query:   153 LLST---VSSACHGKQIHGSMIRXXXXXXXXXXXXXXIDMYGKLGVLYYAFGVFLNMEEL 209
             +L T   +     G+QIH  +I+              IDMY KLG L  A+ + +     
Sbjct:   496 ILKTCIRLGDLELGEQIHSQIIKTNFQLNAYVCSVL-IDMYAKLGKLDTAWDILIRFAGK 554

Query:   210 DIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVF 269
             D++SW ++I+G     + + AL  F  M   G   DE  ++  ++AC  L+ L +G+Q+ 
Sbjct:   555 DVVSWTTMIAGYTQYNFDDKALTTFRQMLDRGIRSDEVGLTNAVSACAGLQALKEGQQIH 614

Query:   270 ALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGE 329
             A +   GF S+    +A + L+S+C ++E+S   FEQ +  D    N ++S + + G  E
Sbjct:   615 AQACVSGFSSDLPFQNALVTLYSRCGKIEESYLAFEQTEAGDNIAWNALVSGFQQSGNNE 674

Query:   330 VALELFQLMLREDIRPTEFTL-SCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLM 388
              AL +F  M RE I    FT  S V ++     ++ G Q H++  K+G+DS   V ++L+
Sbjct:   675 EALRVFVRMNREGIDNNNFTFGSAVKAASETANMKQGKQVHAVITKTGYDSETEVCNALI 734

Query:   389 EMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI 448
              MYAK GSI  + + F+++  ++ VSWN I+   +++G  +E LD F++++   + P+ +
Sbjct:   735 SMYAKCGSISDAEKQFLEVSTKNEVSWNAIINAYSKHGFGSEALDSFDQMIHSNVRPNHV 794

Query:   449 TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITST 508
             TL  VL AC++ G VDKG+  F +M  EYG+ P  EHY C++D+L +AG L +A +    
Sbjct:   795 TLVGVLSACSHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVDMLTRAGLLSRAKEFIQE 854

Query:   509 MPFQPGCSIWESILRASAIYGDVKLTENVAERMMDXXXXXXXXXXXXTQAYAMRGRWEAI 568
             MP +P   +W ++L A  ++ ++++ E  A  +++            +  YA+  +W+A 
Sbjct:   855 MPIKPDALVWRTLLSACVVHKNMEIGEFAAHHLLELEPEDSATYVLLSNLYAVSKKWDAR 914

Query:   569 VRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCV 628
                ++ M++ G+ K  G SWI +KN I++F  G+  H    +I+   + LT    + G V
Sbjct:   915 DLTRQKMKEKGVKKEPGQSWIEVKNSIHSFYVGDQNHPLADEIHEYFQDLTKRASEIGYV 974

Query:   629 YLECDKL 635
               +C  L
Sbjct:   975 Q-DCFSL 980

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2027589 PGN "AT1G56570" [Arabidopsis thaliana (taxid:3702)]

 Score = 777 (278.6 bits), Expect = 3.4e-77, P = 3.4e-77
 Identities = 178/566 (31%), Positives = 298/566 (52%)

Query:    77 PQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFS 136
             P+K+ I     +    +   ++ A  +FDE+P+ DVV+W +MI+GYAS  Y+  A E F 
Sbjct:    41 PKKHHILATNLIVSYFEKGLVEEARSLFDEMPDRDVVAWTAMITGYASSNYNARAWECFH 100

Query:   137 KMQLQGVRPSGFTFSILLSTVSSA---CHGKQIHGSMIRXXXXXXXXXXXXXXIDMYGKL 193
             +M  QG  P+ FT S +L +  +     +G  +HG +++              ++MY   
Sbjct:   101 EMVKQGTSPNEFTLSSVLKSCRNMKVLAYGALVHGVVVKLGMEGSLYVDNAM-MNMYATC 159

Query:   194 GV-LYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIV 252
              V +  A  +F +++  + ++W +LI+G  + G G   L  +  M         Y I+I 
Sbjct:   160 SVTMEAACLIFRDIKVKNDVTWTTLITGFTHLGDGIGGLKMYKQMLLENAEVTPYCITIA 219

Query:   253 INACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDY 312
             + A   + ++  GKQ+ A  +K GF SN  V+++ +DL+ +C  L ++   F +++  D 
Sbjct:   220 VRASASIDSVTTGKQIHASVIKRGFQSNLPVMNSILDLYCRCGYLSEAKHYFHEMEDKDL 279

Query:   313 AVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTL-SCVLSSIPIPPVEHGSQFHSM 371
                N +IS   R    E AL +FQ    +   P  +T  S V +   I  +  G Q H  
Sbjct:   280 ITWNTLISELERSDSSE-ALLMFQRFESQGFVPNCYTFTSLVAACANIAALNCGQQLHGR 338

Query:   372 AIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKL-DKRDLVSWNTIMMGLTQNGRAAE 430
               + GF+ N  +A++L++MYAK G+I  S  +F ++ D+R+LVSW ++M+G   +G  AE
Sbjct:   339 IFRRGFNKNVELANALIDMYAKCGNIPDSQRVFGEIVDRRNLVSWTSMMIGYGSHGYGAE 398

Query:   431 TLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACII 490
              +++F++++  G+ PDRI   AVL AC + G V+KG+  F+ M+ EYG+ P  + Y C++
Sbjct:   399 AVELFDKMVSSGIRPDRIVFMAVLSACRHAGLVEKGLKYFNVMESEYGINPDRDIYNCVV 458

Query:   491 DLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAER-MMDXXXXXX 549
             DLL +AG++G+A ++   MPF+P  S W +IL A   +    L   +A R +M+      
Sbjct:   459 DLLGRAGKIGEAYELVERMPFKPDESTWGAILGACKAHKHNGLISRLAARKVMELKPKMV 518

Query:   550 XXXXXXTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQ 609
                   +  YA  G+W    RV+K+MR  G  K  G SWI ++N++++F   +       
Sbjct:   519 GTYVMLSYIYAAEGKWVDFARVRKMMRMMGNKKEAGMSWILVENQVFSFAVSDKMCPNAS 578

Query:   610 KIYLVLRLLTWEMEDEGCVYLECDKL 635
              +Y VL LL  E  + G V  E D L
Sbjct:   579 SVYSVLGLLIEETREAGYVP-ELDSL 603

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0009651 "response to salt stress" evidence=IMP

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

GO:0009749 "response to glucose stimulus" evidence=IMP

GO:0050832 "defense response to fungus" evidence=IMP

---

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)
Q9LP03	PPR73_ARATH	No assigned EC number	0.4928	0.9765	0.9873	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

Your Input: fgenesh4_pg.C_LG_V001036 hypothetical protein (630 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	640
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-104
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-82
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-67
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	5e-54
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-50
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-38
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-34
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-25
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-16
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-12
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-06
pfam01535	31	pfam01535, PPR, PPR repeat	2e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-04

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

 Score =  334 bits (857), Expect = e-104
 Identities = 174/552 (31%), Positives = 304/552 (55%), Gaps = 15/552 (2%)

Query: 93  KSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSI 152
           K  ++ +A  VFD +P  D +SWN+MISGY   G     LE+F  M+   V P   T   
Sbjct: 234 KCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMT--- 290

Query: 153 LLSTVSSACH-------GKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLN 205
            +++V SAC        G+++HG ++++G ++ +V + NSLI MY  LG    A  VF  
Sbjct: 291 -ITSVISACELLGDERLGREMHGYVVKTGFAV-DVSVCNSLIQMYLSLGSWGEAEKVFSR 348

Query: 206 MEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKG 265
           ME  D +SW ++ISG   +G  + AL+ +  M     SPDE TI+ V++AC  L +LD G
Sbjct: 349 METKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVG 408

Query: 266 KQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRY 325
            ++  L+ + G +S  +V +A I+++SKC  ++ ++ +F  +   D      +I+     
Sbjct: 409 VKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLN 468

Query: 326 GFGEVALELFQLMLREDIRPTEFTLSCVLSSIP-IPPVEHGSQFHSMAIKSGFDSNAVVA 384
                AL  F+ ML   ++P   TL   LS+   I  +  G + H+  +++G   +  + 
Sbjct: 469 NRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLP 527

Query: 385 SSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLP 444
           ++L+++Y + G ++ +   F    ++D+VSWN ++ G   +G+ +  +++F  ++E G+ 
Sbjct: 528 NALLDLYVRCGRMNYAWNQF-NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVN 586

Query: 445 PDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAID 504
           PD +T  ++L AC+  G V +G+  F +M+E+Y + P  +HYAC++DLL +AG+L +A +
Sbjct: 587 PDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYN 646

Query: 505 ITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGR 564
             + MP  P  ++W ++L A  I+  V+L E  A+ + +L   S   Y LL   YA  G+
Sbjct: 647 FINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGK 706

Query: 565 WEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMED 624
           W+ + RV+K MR+NG+    GCSW+ +K +++ F   +  H   ++I  VL     +M+ 
Sbjct: 707 WDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKA 766

Query: 625 EGCVYLECDKLD 636
            G    E   +D
Sbjct: 767 SGLAGSESSSMD 778

Length = 857

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

 Score =  274 bits (702), Expect = 1e-82
 Identities = 143/529 (27%), Positives = 271/529 (51%), Gaps = 20/529 (3%)

Query: 117 SMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLST---VSSACHG-------KQI 166
           S I    +CG    ALE+F  ++       G  F++  ST   +  AC         K +
Sbjct: 92  SQIEKLVACGRHREALELFEILEA------GCPFTLPASTYDALVEACIALKSIRCVKAV 145

Query: 167 HGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGY 226
           +  +  SG      ++ N ++ M+ K G+L  A  +F  M E ++ SW ++I G  ++G 
Sbjct: 146 YWHVESSGFEPDQYMM-NRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGN 204

Query: 227 GELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSA 286
              A   F  M   G   +  T  +++ A   L +   G+Q+    +K G + ++ V  A
Sbjct: 205 YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCA 264

Query: 287 TIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPT 346
            ID++SKC  +ED+  +F+ +        N M++ Y  +G+ E AL L+  M    +   
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSID 324

Query: 347 EFTLSCVLS-SIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFV 405
           +FT S ++     +  +EH  Q H+  I++GF  + V  ++L+++Y+K G ++ +  +F 
Sbjct: 325 QFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFD 384

Query: 406 KLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDK 465
           ++ +++L+SWN ++ G   +GR  + +++FE ++ EG+ P+ +T  AVL AC Y G  ++
Sbjct: 385 RMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQ 444

Query: 466 GMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRAS 525
           G  +F +M E + + P   HYAC+I+LL + G L +A  +    PF+P  ++W ++L A 
Sbjct: 445 GWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTAC 504

Query: 526 AIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTG 585
            I+ +++L    AE++  +       Y +L   Y   GR     +V + +++ G++    
Sbjct: 505 RIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPA 564

Query: 586 CSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCVYLECDK 634
           C+WI +K + ++F +G+  H   ++IY  L  L  E+ + G  Y+  + 
Sbjct: 565 CTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYG--YVAEEN 611

Length = 697

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

 Score =  236 bits (603), Expect = 2e-67
 Identities = 131/377 (34%), Positives = 208/377 (55%), Gaps = 6/377 (1%)

Query: 85  NICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVR 144
           N  L   ++   L  A  VF ++PE D+ SWN ++ GYA  GY D AL ++ +M   GVR
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVR 184

Query: 145 PSGFTFSILLSTVSSA---CHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFG 201
           P  +TF  +L T         G+++H  ++R G  L   V+ N+LI MY K G +  A  
Sbjct: 185 PDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVV-NALITMYVKCGDVVSARL 243

Query: 202 VFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRN 261
           VF  M   D ISWN++ISG F +G     L+ F++MR     PD  TI+ VI+AC  L +
Sbjct: 244 VFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGD 303

Query: 262 LDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMIST 321
              G+++    VK GF  +  V ++ I ++       ++ ++F +++  D      MIS 
Sbjct: 304 ERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISG 363

Query: 322 YGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIP-IPPVEHGSQFHSMAIKSGFDSN 380
           Y + G  + ALE + LM ++++ P E T++ VLS+   +  ++ G + H +A + G  S 
Sbjct: 364 YEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISY 423

Query: 381 AVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLE 440
            VVA++L+EMY+K   ID + E+F  + ++D++SW +I+ GL  N R  E L  F ++L 
Sbjct: 424 VVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL 483

Query: 441 EGLPPDRITLAAVLLAC 457
             L P+ +TL A L AC
Sbjct: 484 T-LKPNSVTLIAALSAC 499

Length = 857

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

 Score =  198 bits (504), Expect = 5e-54
 Identities = 118/415 (28%), Positives = 205/415 (49%), Gaps = 15/415 (3%)

Query: 116 NSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS---SACHGKQIHGSMIR 172
           NS +    S G  + AL++   MQ   V      +  L        +   G ++    + 
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 173 SGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALD 232
           S  SL  V LGN+++ M+ + G L +A+ VF  M E D+ SWN L+ G   +GY + AL 
Sbjct: 115 SHPSLG-VRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALC 173

Query: 233 QFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFS 292
            ++ M ++G  PD YT   V+  C  + +L +G++V A  V+ GF  +  V++A I ++ 
Sbjct: 174 LYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYV 233

Query: 293 KCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSC 352
           KC  +  +  +F+++ R D    N MIS Y   G     LELF  M    + P   T++ 
Sbjct: 234 KCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITS 293

Query: 353 VLSSIP-IPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRD 411
           V+S+   +     G + H   +K+GF  +  V +SL++MY   GS   + ++F +++ +D
Sbjct: 294 VISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKD 353

Query: 412 LVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFS 471
            VSW  ++ G  +NG   + L+ +  + ++ + PD IT+A+VL AC   G +D G+    
Sbjct: 354 AVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGV---- 409

Query: 472 AMKEEYGVMPGEEHYACI----IDLLCQAGQLGKAIDITSTMPFQPGCSIWESIL 522
               E     G   Y  +    I++  +   + KA+++   +P +   S W SI+
Sbjct: 410 -KLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVIS-WTSII 462

Length = 857

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

 Score =  185 bits (471), Expect = 3e-50
 Identities = 112/383 (29%), Positives = 191/383 (49%), Gaps = 37/383 (9%)

Query: 21  LIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKN 80
           L++ C++ KS    K ++ H+   GF    Y+ NR L ++ + G   D  +LFDE+P++N
Sbjct: 129 LVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERN 188

Query: 81  CISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQL 140
                                          + SW ++I G    G    A  +F +M  
Sbjct: 189 -------------------------------LASWGTIIGGLVDAGNYREAFALFREMWE 217

Query: 141 QGVRPSGFTFSILLSTVS---SACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLY 197
            G      TF ++L   +   SA  G+Q+H  ++++G+ + +  +  +LIDMY K G + 
Sbjct: 218 DGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGV-VGDTFVSCALIDMYSKCGDIE 276

Query: 198 YAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACT 257
            A  VF  M E   ++WNS+++G    GY E AL  +Y MR SG S D++T SI+I   +
Sbjct: 277 DARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFS 336

Query: 258 KLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINV 317
           +L  L+  KQ  A  ++ GF  + +  +A +DL+SK  R+ED+  +F+++ R +    N 
Sbjct: 337 RLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNA 396

Query: 318 MISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPP-VEHGSQ-FHSMAIKS 375
           +I+ YG +G G  A+E+F+ M+ E + P   T   VLS+       E G + F SM+   
Sbjct: 397 LIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENH 456

Query: 376 GFDSNAVVASSLMEMYAKTGSID 398
                A+  + ++E+  + G +D
Sbjct: 457 RIKPRAMHYACMIELLGREGLLD 479

Length = 697

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

 Score =  150 bits (381), Expect = 4e-38
 Identities = 109/401 (27%), Positives = 181/401 (45%), Gaps = 52/401 (12%)

Query: 33  FAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLL 92
             + +HG++ K GF     + N  + +Y   G                  SW        
Sbjct: 306 LGREMHGYVVKTGFAVDVSVCNSLIQMYLSLG------------------SW-------- 339

Query: 93  KSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSI 152
                  A KVF  +   D VSW +MISGY   G  D ALE ++ M+   V P   T + 
Sbjct: 340 -----GEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIAS 394

Query: 153 LLSTVSSACHGK-----QIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNME 207
           +LS  + AC G      ++H    R GL +S VV+ N+LI+MY K   +  A  VF N+ 
Sbjct: 395 VLS--ACACLGDLDVGVKLHELAERKGL-ISYVVVANALIEMYSKCKCIDKALEVFHNIP 451

Query: 208 ELDIISWNSLISG-CFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGK 266
           E D+ISW S+I+G   N+   E AL  F  M  +   P+  T+   ++AC ++  L  GK
Sbjct: 452 EKDVISWTSIIAGLRLNNRCFE-ALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGK 509

Query: 267 QVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYG 326
           ++ A  ++ G   +  + +A +DL+ +C R+  +   F   ++ D    N++++ Y  +G
Sbjct: 510 EIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEK-DVVSWNILLTGYVAHG 568

Query: 327 FGEVALELFQLMLREDIRPTEFTL-----SCVLSSIPIPPVEHGSQFHSMAIKSGFDSNA 381
            G +A+ELF  M+   + P E T      +C  S +    +E+   FHSM  K     N 
Sbjct: 569 KGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEY---FHSMEEKYSITPNL 625

Query: 382 VVASSLMEMYAKTGSIDSSTEIFVKLD-KRDLVSWNTIMMG 421
              + ++++  + G +  +     K+    D   W  ++  
Sbjct: 626 KHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNA 666

Length = 857

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

 Score =  138 bits (348), Expect = 4e-34
 Identities = 79/273 (28%), Positives = 133/273 (48%), Gaps = 36/273 (13%)

Query: 35  KTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKS 94
           + +H  + K G    T++    +D+YS+ G  +D                          
Sbjct: 244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIED-------------------------- 277

Query: 95  DNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILL 154
                A  VFD +PE   V+WNSM++GYA  GYS+ AL ++ +M+  GV    FTFSI++
Sbjct: 278 -----ARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMI 332

Query: 155 ---STVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDI 211
              S ++   H KQ H  +IR+G  L ++V   +L+D+Y K G +  A  VF  M   ++
Sbjct: 333 RIFSRLALLEHAKQAHAGLIRTGFPL-DIVANTALVDLYSKWGRMEDARNVFDRMPRKNL 391

Query: 212 ISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFAL 271
           ISWN+LI+G  N G G  A++ F  M   G +P+  T   V++AC      ++G ++F  
Sbjct: 392 ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQS 451

Query: 272 SVKV-GFLSNSIVLSATIDLFSKCNRLEDSVRL 303
             +       ++  +  I+L  +   L+++  +
Sbjct: 452 MSENHRIKPRAMHYACMIELLGREGLLDEAYAM 484

Length = 697

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

 Score =  109 bits (274), Expect = 9e-25
 Identities = 71/287 (24%), Positives = 129/287 (44%), Gaps = 38/287 (13%)

Query: 25  CLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISW 84
           C      D    +H    + G  ++  + N  +++YS+    D  L++F  IP+K+    
Sbjct: 399 CACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKD---- 454

Query: 85  NICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVR 144
                                      V+SW S+I+G         AL  F +M L  ++
Sbjct: 455 ---------------------------VISWTSIIAGLRLNNRCFEALIFFRQMLLT-LK 486

Query: 145 PSGFTFSILLST---VSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFG 201
           P+  T    LS    + +   GK+IH  ++R+G+      L N+L+D+Y + G + YA+ 
Sbjct: 487 PNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDG-FLPNALLDLYVRCGRMNYAWN 545

Query: 202 VFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRN 261
            F N  E D++SWN L++G    G G +A++ F  M  SG +PDE T   ++ AC++   
Sbjct: 546 QF-NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGM 604

Query: 262 LDKGKQVF-ALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQL 307
           + +G + F ++  K     N    +  +DL  +  +L ++     ++
Sbjct: 605 VTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM 651

Length = 857

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

 Score = 82.2 bits (203), Expect = 4e-16
 Identities = 102/472 (21%), Positives = 191/472 (40%), Gaps = 77/472 (16%)

Query: 57  LDLYSRF---GTSDDVLQLFDEIPQKNCIS---------WNICLRGLLKSDNLDTALKVF 104
           +D Y+R    G   D + L +++ ++  +          +  C     K   +  A +  
Sbjct: 374 IDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACK----KQRAVKEAFRFA 429

Query: 105 DEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGK 164
             I  P + ++N ++S  AS    D AL +   +Q  G++     ++ L+ST + +  GK
Sbjct: 430 KLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKS--GK 487

Query: 165 -----QIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNME----ELDIISWN 215
                ++   M+ +G+  +NV    +LID   + G +  AFG +  M     + D + +N
Sbjct: 488 VDAMFEVFHEMVNAGVE-ANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFN 546

Query: 216 SLISGCFNSGYGELALDQFYSMRYSGY--SPDEYTISIVINACTKLRNLDKGKQVFALSV 273
           +LIS C  SG  + A D    M+   +   PD  T+  ++ AC     +D+ K+V+ +  
Sbjct: 547 ALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIH 606

Query: 274 KVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALE 333
           +        V +  +   + C++  D          WD+                  AL 
Sbjct: 607 EYNIKGTPEVYTIAV---NSCSQKGD----------WDF------------------ALS 635

Query: 334 LFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQ----FHSMAI--KSGFDSNAVVASSL 387
           ++  M ++ ++P E   S +     +    H       F  +    K G     V  SSL
Sbjct: 636 IYDDMKKKGVKPDEVFFSAL-----VDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSL 690

Query: 388 MEMYAKTGSIDSSTEIFVKLDKRDL---VS-WNTIMMGLTQNGRAAETLDVFEELLEEGL 443
           M   +   +   + E++  +    L   VS  N ++  L +  +  + L+V  E+   GL
Sbjct: 691 MGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGL 750

Query: 444 PPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQ 495
            P+ IT + +L+A       D G+ + S  KE+ G+ P      CI  L  +
Sbjct: 751 CPNTITYSILLVASERKDDADVGLDLLSQAKED-GIKPNLVMCRCITGLCLR 801

Length = 1060

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

 Score = 70.3 bits (172), Expect = 1e-12
 Identities = 62/238 (26%), Positives = 99/238 (41%), Gaps = 62/238 (26%)

Query: 19  SQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCL-DLYSRFGTSDDVLQLFDEIP 77
           S +I         + AK  H  L + GF     + N  L DLYS++G  +D   +FD +P
Sbjct: 329 SIMIRIFSRLALLEHAKQAHAGLIRTGFPLDI-VANTALVDLYSKWGRMEDARNVFDRMP 387

Query: 78  QKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSK 137
           +KN                               ++SWN++I+GY + G    A+EMF +
Sbjct: 388 RKN-------------------------------LISWNALIAGYGNHGRGTKAVEMFER 416

Query: 138 MQLQGVRPSGFTFSILLSTVSSAC-------HGKQIHGSMIRSGLSLSNVVLGNSLIDMY 190
           M  +GV P+  TF  +L    SAC        G +I  SM  +       +    +I++ 
Sbjct: 417 MIAEGVAPNHVTFLAVL----SACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELL 472

Query: 191 GKLGVLYYAFGVF--------LNMEELDIISWNSLISGCF---NSGYGELALDQFYSM 237
           G+ G+L  A+ +         +NM       W +L++ C    N   G LA ++ Y M
Sbjct: 473 GREGLLDEAYAMIRRAPFKPTVNM-------WAALLTACRIHKNLELGRLAAEKLYGM 523

Length = 697

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

 Score = 66.8 bits (163), Expect = 2e-11
 Identities = 58/239 (24%), Positives = 88/239 (36%), Gaps = 56/239 (23%)

Query: 7   KAHVNKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTS 66
              +   S++  + L   C    +    K IH H+ + G     +L N  LDLY R G  
Sbjct: 482 LLTLKPNSVTLIAAL-SACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCG-- 538

Query: 67  DDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCG 126
                                         ++ A   F+   E DVVSWN +++GY + G
Sbjct: 539 -----------------------------RMNYAWNQFN-SHEKDVVSWNILLTGYVAHG 568

Query: 127 YSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSL--------- 177
               A+E+F++M   GV P   TF  LL   S           M+  GL           
Sbjct: 569 KGSMAVELFNRMVESGVNPDEVTFISLLCACS--------RSGMVTQGLEYFHSMEEKYS 620

Query: 178 --SNVVLGNSLIDMYGKLGVLYYAFGVFLNME-ELDIISWNSLISGC---FNSGYGELA 230
              N+     ++D+ G+ G L  A+     M    D   W +L++ C    +   GELA
Sbjct: 621 ITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELA 679

Length = 857

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

 Score = 59.0 bits (144), Expect = 2e-11
 Identities = 19/46 (41%), Positives = 36/46 (78%)

Query: 110 PDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLS 155
           PDVV++N++I GY   G  + AL++F++M+ +G++P+ +T+SIL+ 
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 = 50.5 bits (122), Expect = 2e-08
 Identities = 19/49 (38%), Positives = 28/49 (57%)

Query: 210 DIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTK 258
           D++++N+LI G    G  E AL  F  M+  G  P+ YT SI+I+   K
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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 45.1 bits (108), Expect = 1e-06
 Identities = 12/49 (24%), Positives = 28/49 (57%), Gaps = 4/49 (8%)

Query: 79  KNCISWNICLRGLLKSDNLDTALKVFDEIPE----PDVVSWNSMISGYA 123
            + +++N  + G  K   ++ ALK+F+E+ +    P+V +++ +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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 43.5 bits (104), Expect = 5e-06
 Identities = 13/39 (33%), Positives = 25/39 (64%)

Query: 411 DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRIT 449
           D+V++NT++ G  + G+  E L +F E+ + G+ P+  T
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYT 40

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 = 41.3 bits (98), Expect = 2e-05
 Identities = 15/31 (48%), Positives = 23/31 (74%)

Query: 113 VSWNSMISGYASCGYSDYALEMFSKMQLQGV 143
           V++NS+ISGY   G  + ALE+F +M+ +GV
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 40.8 bits (97), Expect = 3e-05
 Identities = 12/31 (38%), Positives = 21/31 (67%)

Query: 109 EPDVVSWNSMISGYASCGYSDYALEMFSKMQ 139
           +PDVV++N++I G    G  D A+E+  +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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 44.9 bits (106), Expect = 1e-04
 Identities = 57/328 (17%), Positives = 125/328 (38%), Gaps = 55/328 (16%)

Query: 199 AFGVFLNMEE----LDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVIN 254
           A  V   ++E     D   + +LIS C  SG  +   + F+ M  +G   + +T   +I+
Sbjct: 456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALID 515

Query: 255 ACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRW---- 310
            C +   + K    + +        + +V +A   L S C +     R F+ L       
Sbjct: 516 GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNA---LISACGQSGAVDRAFDVLAEMKAET 572

Query: 311 -----DYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHG 365
                D+  +  ++      G  + A E++Q++   +I+ T             P V   
Sbjct: 573 HPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGT-------------PEV--- 616

Query: 366 SQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLT-- 423
              +++A+ S                ++ G  D +  I+  + K+ +         L   
Sbjct: 617 ---YTIAVNS---------------CSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDV 658

Query: 424 --QNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMP 481
               G   +  ++ ++  ++G+    ++ ++++ AC+      K + ++  +K    + P
Sbjct: 659 AGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKS-IKLRP 717

Query: 482 GEEHYACIIDLLCQAGQLGKAIDITSTM 509
                  +I  LC+  QL KA+++ S M
Sbjct: 718 TVSTMNALITALCEGNQLPKALEVLSEM 745

Length = 1060

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

 Score = 39.4 bits (93), Expect = 1e-04
 Identities = 12/34 (35%), Positives = 22/34 (64%)

Query: 113 VSWNSMISGYASCGYSDYALEMFSKMQLQGVRPS 146
           V++N++I G    G  + ALE+F +M+ +G+ 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 37.1 bits (87), Expect = 6e-04
 Identities = 15/34 (44%), Positives = 25/34 (73%)

Query: 413 VSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD 446
           V++NT++ GL + GR  E L++F+E+ E 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	640
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	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	99.97
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.96
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.94
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.92
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.91
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.88
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.87
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.87
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.86
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.84
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.84
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.83
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.83
PRK14574	822	hmsH outer membrane protein; Provisional	99.82
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.81
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.81
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.81
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.81
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.79
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.78
KOG2003	840	consensus TPR repeat-containing protein [General f	99.78
PRK14574	822	hmsH outer membrane protein; Provisional	99.75
KOG2076	895	consensus RNA polymerase III transcription factor	99.74
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.73
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.69
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.65
KOG2076	895	consensus RNA polymerase III transcription factor	99.64
KOG2003	840	consensus TPR repeat-containing protein [General f	99.64
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.57
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.55
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.55
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.54
KOG1126	638	consensus DNA-binding cell division cycle control	99.53
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.52
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.51
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.5
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.49
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.49
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.48
KOG1126	638	consensus DNA-binding cell division cycle control	99.47
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.47
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.46
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.46
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.45
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.44
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.44
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.39
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.39
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.38
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.35
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.35
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.31
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.3
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.3
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.28
PF13041	50	PPR_2: PPR repeat family	99.28
PF13041	50	PPR_2: PPR repeat family	99.24
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.23
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.2
PRK12370	553	invasion protein regulator; Provisional	99.19
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.18
PRK12370	553	invasion protein regulator; Provisional	99.17
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.17
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.17
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.17
KOG1129	478	consensus TPR repeat-containing protein [General f	99.16
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.15
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.12
PRK11189	296	lipoprotein NlpI; Provisional	99.11
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.11
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.1
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.09
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.05
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.02
KOG1129	478	consensus TPR repeat-containing protein [General f	99.02
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.99
PRK11189	296	lipoprotein NlpI; Provisional	98.99
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.98
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.97
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.97
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.96
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.95
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.94
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.94
KOG1125	579	consensus TPR repeat-containing protein [General f	98.93
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.92
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.91
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.87
PRK04841	903	transcriptional regulator MalT; Provisional	98.86
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.83
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.81
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.8
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.78
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.76
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.74
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.74
PRK15359	144	type III secretion system chaperone protein SscB;	98.71
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.7
PRK15359	144	type III secretion system chaperone protein SscB;	98.67
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.65
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.63
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.58
PRK04841	903	transcriptional regulator MalT; Provisional	98.55
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.55
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.54
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.54
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.53
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.53
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.52
PF12854	34	PPR_1: PPR repeat	98.51
PLN02789	320	farnesyltranstransferase	98.51
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.5
PF12854	34	PPR_1: PPR repeat	98.5
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.49
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.45
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.44
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.4
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.4
KOG1125	579	consensus TPR repeat-containing protein [General f	98.39
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.37
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.37
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.36
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.34
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.33
PLN02789	320	farnesyltranstransferase	98.32
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.31
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.3
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.25
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.23
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.2
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.14
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.14
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.12
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.09
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.08
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.07
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.06
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.03
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.02
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.01
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.0
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.98
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.98
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.97
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.96
KOG0553	304	consensus TPR repeat-containing protein [General f	97.94
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.89
KOG0553	304	consensus TPR repeat-containing protein [General f	97.87
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.79
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.77
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.74
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.72
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.72
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.71
PRK15331	165	chaperone protein SicA; Provisional	97.7
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.7
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.67
PF13371	73	TPR_9: Tetratricopeptide repeat	97.67
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.65
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.65
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.65
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.64
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.63
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.52
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.5
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.5
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.46
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.45
PF13431	34	TPR_17: Tetratricopeptide repeat	97.44
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.41
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.39
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.39
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.38
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.38
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.38
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.37
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.36
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.35
PF12688	120	TPR_5: Tetratrico peptide repeat	97.3
PF12688	120	TPR_5: Tetratrico peptide repeat	97.24
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.24
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.22
PRK10803	263	tol-pal system protein YbgF; Provisional	97.22
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.17
PF13428	44	TPR_14: Tetratricopeptide repeat	97.15
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.14
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.12
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.11
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.1
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.1
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.07
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.06
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.05
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.02
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.97
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.96
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.96
PF13371	73	TPR_9: Tetratricopeptide repeat	96.94
PRK10803	263	tol-pal system protein YbgF; Provisional	96.92
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.91
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.9
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.81
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.74
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.69
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.67
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.64
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.61
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.57
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.45
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.45
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.45
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.41
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.37
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.3
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.29
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.27
KOG4555	175	consensus TPR repeat-containing protein [Function	96.27
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.14
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.11
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.98
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.95
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.9
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.88
KOG1258	577	consensus mRNA processing protein [RNA processing	95.88
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.8
PF13512	142	TPR_18: Tetratricopeptide repeat	95.76
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.73
PRK11906	458	transcriptional regulator; Provisional	95.61
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.58
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.49
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.37
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.24
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.21
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.19
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.18
PRK11906	458	transcriptional regulator; Provisional	95.17
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.17
KOG1585	308	consensus Protein required for fusion of vesicles	95.16
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.06
PRK15331	165	chaperone protein SicA; Provisional	95.02
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	95.02
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.01
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.0
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.67
KOG3941	406	consensus Intermediate in Toll signal transduction	94.65
KOG4555	175	consensus TPR repeat-containing protein [Function	94.62
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.57
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.56
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.4
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.39
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.28
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.23
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.05
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.01
KOG3364	149	consensus Membrane protein involved in organellar	93.98
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.71
COG4105	254	ComL DNA uptake lipoprotein [General function pred	93.7
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.59
KOG4234	271	consensus TPR repeat-containing protein [General f	93.58
PF13512	142	TPR_18: Tetratricopeptide repeat	93.56
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.5
COG0457	291	NrfG FOG: TPR repeat [General function prediction	93.34
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.71
PRK11619	644	lytic murein transglycosylase; Provisional	92.71
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	92.7
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	92.67
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.63
PF13428	44	TPR_14: Tetratricopeptide repeat	92.49
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	92.44
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	92.43
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	92.21
KOG3941	406	consensus Intermediate in Toll signal transduction	92.12
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	92.07
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	91.98
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.84
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	91.78
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	91.61
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.29
KOG4234	271	consensus TPR repeat-containing protein [General f	91.28
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.2
PRK09687	280	putative lyase; Provisional	91.18
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.14
KOG4648	536	consensus Uncharacterized conserved protein, conta	91.12
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	91.09
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.08
COG3947	361	Response regulator containing CheY-like receiver a	90.8
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	90.54
PRK09687	280	putative lyase; Provisional	90.51
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	90.32
KOG4648	536	consensus Uncharacterized conserved protein, conta	90.17
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	90.16
PRK11619	644	lytic murein transglycosylase; Provisional	90.15
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	90.07
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.78
KOG1585	308	consensus Protein required for fusion of vesicles	89.71
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	89.54
COG1747	711	Uncharacterized N-terminal domain of the transcrip	89.4
PRK10941	269	hypothetical protein; Provisional	89.34
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	89.11
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	88.84
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	88.67
PF13431	34	TPR_17: Tetratricopeptide repeat	88.6
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	88.57
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	88.54
COG3629	280	DnrI DNA-binding transcriptional activator of the	88.41
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	88.41
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	88.3
KOG1941	518	consensus Acetylcholine receptor-associated protei	88.12
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.11
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	87.98
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	87.98
KOG4570	418	consensus Uncharacterized conserved protein [Funct	87.82
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	87.55
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	87.28
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	86.72
KOG1258	577	consensus mRNA processing protein [RNA processing	86.43
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	86.38
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	86.31
KOG1586	288	consensus Protein required for fusion of vesicles	85.62
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	84.85
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	84.69
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	84.55
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	84.04
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	83.9
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	83.34
KOG1550	552	consensus Extracellular protein SEL-1 and related	83.25
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	82.98
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	82.68
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	82.33
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	82.1
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	81.58
COG4455	273	ImpE Protein of avirulence locus involved in tempe	81.55
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	81.48
PF04910	360	Tcf25: Transcriptional repressor TCF25; InterPro:	81.15
PRK12798	421	chemotaxis protein; Reviewed	80.81
KOG4507	886	consensus Uncharacterized conserved protein, conta	80.55
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	80.13
PF13929	292	mRNA_stabil: mRNA stabilisation	80.11

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=8e-96  Score=799.83  Aligned_cols=623  Identities=29%  Similarity=0.500  Sum_probs=607.1

Q ss_pred             CCChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCC----CChhhHHHH
Q 006580           12 KASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ----KNCISWNIC   87 (640)
Q Consensus        12 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l   87 (640)
                      .||..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.++++.+++..+.+++..+.+    +|+.+||.+
T Consensus       149 ~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~L  228 (857)
T PLN03077        149 ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNAL  228 (857)
T ss_pred             CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHH
Confidence            5788899999999999999999999999999999999999999999999999999999998888764    788999999


Q ss_pred             HHHHhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh---chhHHH
Q 006580           88 LRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS---SACHGK  164 (640)
Q Consensus        88 l~~~~~~~~~~~A~~~~~~~~~~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~---~~~~a~  164 (640)
                      +.+|++.|++++|.++|++|++||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+   +.+.+.
T Consensus       229 i~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~  308 (857)
T PLN03077        229 ITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGR  308 (857)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999   899999


Q ss_pred             HHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCC
Q 006580          165 QIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSP  244 (640)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  244 (640)
                      +++..+.+.| +.||..+|++|+.+|++.|++++|.++|++|..||..+||++|.+|++.|++++|+++|++|.+.|+.|
T Consensus       309 ~l~~~~~~~g-~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~P  387 (857)
T PLN03077        309 EMHGYVVKTG-FAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSP  387 (857)
T ss_pred             HHHHHHHHhC-CccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCC
Confidence            9999999999 999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHh
Q 006580          245 DEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGR  324 (640)
Q Consensus       245 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~  324 (640)
                      |..||+.++.+|++.|+++.+.++++.+.+.|+.|+..+++.|+++|+++|++++|.++|++|.++|+.+||++|.+|++
T Consensus       388 d~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~  467 (857)
T PLN03077        388 DEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRL  467 (857)
T ss_pred             CceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHH
Q 006580          325 YGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEI  403 (640)
Q Consensus       325 ~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  403 (640)
                      .|+.++|+.+|++|.. ++.||..||+.+|.+|++ |+++.+.+++..+.+.|+.++..++++|+++|+++|++++|.++
T Consensus       468 ~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~  546 (857)
T PLN03077        468 NNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQ  546 (857)
T ss_pred             CCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHH
Confidence            9999999999999986 599999999999999999 99999999999999999999999999999999999999999999


Q ss_pred             HHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCCh
Q 006580          404 FVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGE  483 (640)
Q Consensus       404 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~  483 (640)
                      |+.+ .+|+.+||++|.+|+++|+.++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.+.+|+.|+.
T Consensus       547 f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~  625 (857)
T PLN03077        547 FNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNL  625 (857)
T ss_pred             HHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCch
Confidence            9999 999999999999999999999999999999999999999999999999999999999999999999767999999


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcC
Q 006580          484 EHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRG  563 (640)
Q Consensus       484 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  563 (640)
                      .+|++++++|++.|++++|.+++++|+.+||..+|++|+.+|..+|+.+.++...+++++++|+++..|..|+++|+..|
T Consensus       626 ~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g  705 (857)
T PLN03077        626 KHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAG  705 (857)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHhCCCccCCceeeEEecCEEEEEecCCCCCCChHHHHHHHHHHHHHHHHcCccCCCcccccc
Q 006580          564 RWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCVYLECDKLDV  637 (640)
Q Consensus       564 ~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~p~~~~~~~~  637 (640)
                      +|++|.++.+.|+++|++++||+|||++++.+|.|.+++.+||+.++|+..++++.++|++.||.||+...++.
T Consensus       706 ~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~~~~~~  779 (857)
T PLN03077        706 KWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSMDE  779 (857)
T ss_pred             ChHHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCCcchhccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999998765543

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

Probab=100.00  E-value=7.9e-81  Score=665.54  Aligned_cols=526  Identities=27%  Similarity=0.489  Sum_probs=512.3

Q ss_pred             CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCC-CCCChhhHHHHHHHHh---chhHHHHHHHHHHHhCCCCCchhHHH
Q 006580          109 EPDVVSWNSMISGYASCGYSDYALEMFSKMQLQG-VRPSGFTFSILLSTVS---SACHGKQIHGSMIRSGLSLSNVVLGN  184 (640)
Q Consensus       109 ~~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~t~~~ll~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~  184 (640)
                      .++..+|+.+|.++.+.|++++|+++|+.|...+ ..||..||+.++.+|+   +.+.+.+++..|.+.| +.||..+|+
T Consensus        84 ~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g-~~~~~~~~n  162 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSG-FEPDQYMMN  162 (697)
T ss_pred             CCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CCcchHHHH
Confidence            3566789999999999999999999999998764 7899999999999998   7788999999999999 889999999


Q ss_pred             HHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchH
Q 006580          185 SLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDK  264 (640)
Q Consensus       185 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~  264 (640)
                      .|+.+|++.|++++|.++|++|.+||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+..|+.+.
T Consensus       163 ~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~  242 (697)
T PLN03081        163 RVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARA  242 (697)
T ss_pred             HHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCC
Q 006580          265 GKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIR  344 (640)
Q Consensus       265 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  344 (640)
                      +.+++..+.+.|+.||..++++|+++|+++|++++|.++|++|.++|+.+||+||.+|++.|++++|+++|++|.+.|+.
T Consensus       243 ~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~  322 (697)
T PLN03081        243 GQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVS  322 (697)
T ss_pred             HHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHH
Q 006580          345 PTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLT  423 (640)
Q Consensus       345 p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~  423 (640)
                      ||..||+.++.+|++ |.++.|.+++..+.+.|++||..++++|+++|+++|++++|.++|++|.+||+.+||+||.+|+
T Consensus       323 pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~  402 (697)
T PLN03081        323 IDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYG  402 (697)
T ss_pred             CCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHH
Confidence            999999999999999 9999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHH
Q 006580          424 QNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAI  503 (640)
Q Consensus       424 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  503 (640)
                      ++|+.++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.+.+|+.|+..+|++++++|++.|++++|.
T Consensus       403 ~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~  482 (697)
T PLN03081        403 NHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAY  482 (697)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHH
Confidence            99999999999999999999999999999999999999999999999999987799999999999999999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCccC
Q 006580          504 DITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKV  583 (640)
Q Consensus       504 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  583 (640)
                      +++++++..|+..+|++|+.+|..+|+++.|..+++++.+.+|++...|..|+.+|++.|+|++|.++++.|+++|+++.
T Consensus       483 ~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~  562 (697)
T PLN03081        483 AMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMH  562 (697)
T ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CceeeEEecCEEEEEecCCCCCCChHHHHHHHHHHHHHHHHcCccCCCcccc
Q 006580          584 TGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCVYLECDKL  635 (640)
Q Consensus       584 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~p~~~~~~  635 (640)
                      ||+||+++.+.+|.|++++..||...+++..+.++.++|++.||.||+...+
T Consensus       563 ~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~~~~  614 (697)
T PLN03081        563 PACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELL  614 (697)
T ss_pred             CCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcchhh
Confidence            9999999999999999999999999999999999999999999999987654

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.9e-80  Score=678.75  Aligned_cols=570  Identities=27%  Similarity=0.407  Sum_probs=552.8

Q ss_pred             CCCCChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCC----CChhhHH
Q 006580           10 VNKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ----KNCISWN   85 (640)
Q Consensus        10 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~   85 (640)
                      ..+|+..+++.++.++.+.|++++|..+++.|.+.|++|+..+|..++..+.+.+.++.+.+++..+.+    ++...+|
T Consensus        46 ~~~~~~~~~n~~i~~l~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n  125 (857)
T PLN03077         46 SSSSSTHDSNSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGN  125 (857)
T ss_pred             hcccchhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHH
Confidence            345678899999999999999999999999999999999999999999999999999999999987653    6788999


Q ss_pred             HHHHHHhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh---chhH
Q 006580           86 ICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS---SACH  162 (640)
Q Consensus        86 ~ll~~~~~~~~~~~A~~~~~~~~~~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~---~~~~  162 (640)
                      .++.+|++.|+++.|.++|++|++||..+||++|.+|++.|++++|+++|++|...|+.||..||+.++.+|+   +...
T Consensus       126 ~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~  205 (857)
T PLN03077        126 AMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLAR  205 (857)
T ss_pred             HHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhh
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999998   7889


Q ss_pred             HHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCC
Q 006580          163 GKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGY  242 (640)
Q Consensus       163 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~  242 (640)
                      +.+++..+.+.| +.+|..++++|+.+|++.|++++|.++|++|.++|.++||++|.+|++.|++++|+++|++|...|+
T Consensus       206 ~~~~~~~~~~~g-~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~  284 (857)
T PLN03077        206 GREVHAHVVRFG-FELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSV  284 (857)
T ss_pred             HHHHHHHHHHcC-CCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            999999999999 9999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHH
Q 006580          243 SPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTY  322 (640)
Q Consensus       243 ~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~  322 (640)
                      .||..||+.++.+|++.|+++.+.+++..+.+.|+.||..+|+.|+.+|++.|++++|.++|++|..+|+.+||++|.+|
T Consensus       285 ~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~  364 (857)
T PLN03077        285 DPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGY  364 (857)
T ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHH
Q 006580          323 GRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSST  401 (640)
Q Consensus       323 ~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  401 (640)
                      ++.|++++|+++|++|.+.|+.||..||+.++.+|+. |+++.|.++++.+.+.|+.|+..++++|+++|+++|++++|.
T Consensus       365 ~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~  444 (857)
T PLN03077        365 EKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKAL  444 (857)
T ss_pred             HhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999999999999999999999999999 999999999999999999999999999999999999999999


Q ss_pred             HHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCC
Q 006580          402 EIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMP  481 (640)
Q Consensus       402 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p  481 (640)
                      ++|++|.++|+.+|+++|.+|++.|+.++|+.+|++|.. +++||..||+.++.+|++.|+.+.+.+++..+.+. |+.+
T Consensus       445 ~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~-g~~~  522 (857)
T PLN03077        445 EVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRT-GIGF  522 (857)
T ss_pred             HHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHh-CCCc
Confidence            999999999999999999999999999999999999986 59999999999999999999999999999999988 9999


Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCChhHHHHHHHHHH
Q 006580          482 GEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQ-LPSPLPYSLLTQAYA  560 (640)
Q Consensus       482 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~  560 (640)
                      +..++++|+++|+++|++++|.++|+++  .||..+|++++.+|+++|+.++|.++|++|.+.+ .||..+|..++.+|.
T Consensus       523 ~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~  600 (857)
T PLN03077        523 DGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS  600 (857)
T ss_pred             cceechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHh
Confidence            9999999999999999999999999998  8999999999999999999999999999999885 478899999999999


Q ss_pred             hcCChHHHHHHHHHHH-hCCCccCC
Q 006580          561 MRGRWEAIVRVKKVMR-KNGINKVT  584 (640)
Q Consensus       561 ~~g~~~~a~~~~~~m~-~~~~~~~~  584 (640)
                      +.|++++|.++|+.|. +.|+.|+.
T Consensus       601 ~~g~v~ea~~~f~~M~~~~gi~P~~  625 (857)
T PLN03077        601 RSGMVTQGLEYFHSMEEKYSITPNL  625 (857)
T ss_pred             hcChHHHHHHHHHHHHHHhCCCCch
Confidence            9999999999999998 67887764

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.1e-66  Score=555.45  Aligned_cols=503  Identities=19%  Similarity=0.268  Sum_probs=431.1

Q ss_pred             CCchhhHHHHHHHHHccCCchHHHHHHhcCCCCC-----hhhHHHHHHHHhcCCChhHHHHHhccCCCCCcchHHHHHHH
Q 006580           47 NAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKN-----CISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISG  121 (640)
Q Consensus        47 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~y~~li~~  121 (640)
                      .++...|..++..+.+.|++++|.++|++|++++     ...++.++.+|.+.|.+++|.++|+.|..||..+|+.++.+
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            4566677888888888888888888888887644     34566677778888888888888888888888888888888


Q ss_pred             HHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHH
Q 006580          122 YASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFG  201 (640)
Q Consensus       122 ~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  201 (640)
                      |++.|+++.|.++|++|.+.|+.|                                 |..+|+.||.+|++.|++++|.+
T Consensus       447 ~~k~g~~e~A~~lf~~M~~~Gl~p---------------------------------D~~tynsLI~~y~k~G~vd~A~~  493 (1060)
T PLN03218        447 CASSQDIDGALRVLRLVQEAGLKA---------------------------------DCKLYTTLISTCAKSGKVDAMFE  493 (1060)
T ss_pred             HHhCcCHHHHHHHHHHHHHcCCCC---------------------------------CHHHHHHHHHHHHhCcCHHHHHH
Confidence            888888888888888888887555                                 55555777888888888888888


Q ss_pred             HHhccC----CCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHH--h
Q 006580          202 VFLNME----ELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVK--V  275 (640)
Q Consensus       202 ~~~~~~----~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~--~  275 (640)
                      +|++|.    .||..+|+.+|.+|++.|++++|+++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|.+  .
T Consensus       494 vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~  573 (1060)
T PLN03218        494 VFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETH  573 (1060)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcC
Confidence            888887    5788888888999999999999999999998889999999999999999999999999999999876  5


Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC----CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHH
Q 006580          276 GFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR----WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLS  351 (640)
Q Consensus       276 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~  351 (640)
                      |+.||..+|++++.+|++.|++++|.++|+.|.+    ++..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+
T Consensus       574 gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~Tyn  653 (1060)
T PLN03218        574 PIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFS  653 (1060)
T ss_pred             CCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            7888989999999999999999999999988875    456889999999999999999999999999999999999999


Q ss_pred             HHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC----CCChhHHHHHHHHHHhCC
Q 006580          352 CVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD----KRDLVSWNTIMMGLTQNG  426 (640)
Q Consensus       352 ~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g  426 (640)
                      .++.+|.+ |+++.|.++++.|.+.|++|+..+|++||.+|++.|++++|.++|++|.    .||..+|+.||.+|++.|
T Consensus       654 sLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G  733 (1060)
T PLN03218        654 ALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGN  733 (1060)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCC
Confidence            99999988 9999999999999999999999999999999999999999999999885    689999999999999999


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHH----hc------
Q 006580          427 RAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLC----QA------  496 (640)
Q Consensus       427 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~----~~------  496 (640)
                      ++++|+++|++|...|+.||..||+.++.+|++.|++++|.++++.|.+. |+.||..+|++++..|.    ++      
T Consensus       734 ~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~-Gi~pd~~tynsLIglc~~~y~ka~~l~~~  812 (1060)
T PLN03218        734 QLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKED-GIKPNLVMCRCITGLCLRRFEKACALGEP  812 (1060)
T ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHHHHHHhhhhhh
Confidence            99999999999999999999999999999999999999999999999887 99999999999886643    22      


Q ss_pred             -------------CChHHHHHHHHhCC---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-CCCChhHHHHHHHHH
Q 006580          497 -------------GQLGKAIDITSTMP---FQPGCSIWESILRASAIYGDVKLTENVAERMMDL-QLPSPLPYSLLTQAY  559 (640)
Q Consensus       497 -------------g~~~~A~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~p~~~~~~~~l~~~~  559 (640)
                                   +..++|..+|++|.   +.||..+|+.++..++..+..+.+..+++.+... .+++..+|+.|++++
T Consensus       813 v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~  892 (1060)
T PLN03218        813 VVSFDSGRPQIENKWTSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGF  892 (1060)
T ss_pred             hhhhhccccccccchHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhh
Confidence                         22467999999997   8999999999998777888999999998887654 568899999999988


Q ss_pred             HhcCChHHHHHHHHHHHhCCCccCCc
Q 006580          560 AMRGRWEAIVRVKKVMRKNGINKVTG  585 (640)
Q Consensus       560 ~~~g~~~~a~~~~~~m~~~~~~~~~~  585 (640)
                      .+.  .++|..++++|...|+.|+..
T Consensus       893 ~~~--~~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        893 GEY--DPRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             ccC--hHHHHHHHHHHHHcCCCCCcc
Confidence            432  368999999999999988753

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

Probab=100.00  E-value=3.3e-66  Score=553.10  Aligned_cols=466  Identities=25%  Similarity=0.364  Sum_probs=449.5

Q ss_pred             CChhHHHHHHHHhhcCCChHHHHHHHHHHHHhC-CCCchhhHHHHHHHHHccCCchHHHHHHhcCCC----CChhhHHHH
Q 006580           13 ASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLG-FNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ----KNCISWNIC   87 (640)
Q Consensus        13 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l   87 (640)
                      ++..+++.++..+.+.|++++|.++|+.|...+ +.|+..+|+.++.++++.++++.+.+++..|.+    ||..+||.+
T Consensus        85 ~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~L  164 (697)
T PLN03081         85 KSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRV  164 (697)
T ss_pred             CCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHH
Confidence            355689999999999999999999999999865 789999999999999999999999999999864    899999999


Q ss_pred             HHHHhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh---chhHHH
Q 006580           88 LRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS---SACHGK  164 (640)
Q Consensus        88 l~~~~~~~~~~~A~~~~~~~~~~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~---~~~~a~  164 (640)
                      +.+|++.|+++.|.++|++|.+||..+||++|.+|++.|++++|+++|++|.+.|+.|+..||+.++.+|+   ....+.
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~  244 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQ  244 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999   788999


Q ss_pred             HHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCC
Q 006580          165 QIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSP  244 (640)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  244 (640)
                      +++..+.+.| +.+|..++++|+++|+++|++++|.++|++|.++|+++||++|.+|++.|++++|+++|++|.+.|+.|
T Consensus       245 ~l~~~~~~~g-~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~p  323 (697)
T PLN03081        245 QLHCCVLKTG-VVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSI  323 (697)
T ss_pred             HHHHHHHHhC-CCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            9999999999 999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHh
Q 006580          245 DEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGR  324 (640)
Q Consensus       245 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~  324 (640)
                      |..||+.++.+|++.|+++.|.+++..|.+.|+.||..++++|+++|+++|++++|.++|++|.++|+.+||+||.+|++
T Consensus       324 d~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~  403 (697)
T PLN03081        324 DQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGN  403 (697)
T ss_pred             CHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHH-hCCCCchHHHHHHHHHHHhcCChHHHHH
Q 006580          325 YGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIK-SGFDSNAVVASSLMEMYAKTGSIDSSTE  402 (640)
Q Consensus       325 ~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~  402 (640)
                      .|+.++|+++|++|.+.|+.||..||+.++.+|.. |.+++|.++|+.|.+ .|+.|+..+|+.++++|++.|++++|.+
T Consensus       404 ~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~  483 (697)
T PLN03081        404 HGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYA  483 (697)
T ss_pred             cCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHH
Confidence            99999999999999999999999999999999999 999999999999986 6999999999999999999999999999


Q ss_pred             HHHhCC-CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCC
Q 006580          403 IFVKLD-KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD-RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVM  480 (640)
Q Consensus       403 ~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~  480 (640)
                      ++++|. .|+..+|++|+.+|+.+|+.+.|..+++++.+  +.|+ ..+|..+++.|++.|++++|.++++.|.++ |+.
T Consensus       484 ~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~--~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~-g~~  560 (697)
T PLN03081        484 MIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYG--MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRK-GLS  560 (697)
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhC--CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHc-CCc
Confidence            999998 79999999999999999999999999999975  5665 569999999999999999999999999988 875


Q ss_pred             CC
Q 006580          481 PG  482 (640)
Q Consensus       481 p~  482 (640)
                      ..
T Consensus       561 k~  562 (697)
T PLN03081        561 MH  562 (697)
T ss_pred             cC
Confidence            43

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.5e-65  Score=547.24  Aligned_cols=520  Identities=16%  Similarity=0.204  Sum_probs=384.2

Q ss_pred             CCCChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCC-CCchhhHHHHHHHHHccCCchHHHHHHhcCCCCChhhHHHHHH
Q 006580           11 NKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGF-NAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLR   89 (640)
Q Consensus        11 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~   89 (640)
                      .+++...|..++..+.+.|++++|.++|+.|.+.|+ +++..+++.++..|.+.|..++|.++|+.|+.||..+|+.++.
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~  445 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMS  445 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            445678899999999999999999999999999994 6788888999999999999999999999999999999999999


Q ss_pred             HHhcCCChhHHHHHhccCC----CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh---chhH
Q 006580           90 GLLKSDNLDTALKVFDEIP----EPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS---SACH  162 (640)
Q Consensus        90 ~~~~~~~~~~A~~~~~~~~----~~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~---~~~~  162 (640)
                      +|++.|++++|.++|+.|.    .||..+|+.||.+|++.|++++|.++|++|.+.|+.||..||+.++.+++   +.+.
T Consensus       446 a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~ee  525 (1060)
T PLN03218        446 VCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAK  525 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHH
Confidence            9999999999999999997    48999999999999999999999999999999998888888877777776   6667


Q ss_pred             HHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccC------CCCeeeHHHHHHHHHhcCChhHHHHHHHH
Q 006580          163 GKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNME------ELDIISWNSLISGCFNSGYGELALDQFYS  236 (640)
Q Consensus       163 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~------~~~~~~~~~li~~~~~~~~~~~A~~~~~~  236 (640)
                      |.++|+.|.+.| ..||..+|+.||.+|++.|++++|.++|++|.      .||..+|+++|.+|++.|++++|.++|++
T Consensus       526 Al~lf~~M~~~G-v~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~  604 (1060)
T PLN03218        526 AFGAYGIMRSKN-VKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQM  604 (1060)
T ss_pred             HHHHHHHHHHcC-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            777777777776 66777777777777777777777777777663      35666777777777777777777777777


Q ss_pred             hHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC----CCh
Q 006580          237 MRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR----WDY  312 (640)
Q Consensus       237 m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~  312 (640)
                      |.+.|++|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+    +|.
T Consensus       605 M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~  684 (1060)
T PLN03218        605 IHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGT  684 (1060)
T ss_pred             HHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCH
Confidence            7777777777777777777777777777777777777777777777777777777776666666666666653    456


Q ss_pred             hhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHH
Q 006580          313 AVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMY  391 (640)
Q Consensus       313 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  391 (640)
                      .+|++||.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++ |++++|.+++++|.+.|+.||..+|+.++.+|
T Consensus       685 ~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~  764 (1060)
T PLN03218        685 VSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVAS  764 (1060)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            66666666666666666666666666666666666666666666666 66666666666666666666666666666666


Q ss_pred             HhcCChHHHHHHHHhCC----CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHH
Q 006580          392 AKTGSIDSSTEIFVKLD----KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGM  467 (640)
Q Consensus       392 ~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~  467 (640)
                      ++.|+++.|.++|..|.    .||..+|++++..|.+  ++++|.++.+.+..-  .+        .......+..+.|.
T Consensus       765 ~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~--~y~ka~~l~~~v~~f--~~--------g~~~~~n~w~~~Al  832 (1060)
T PLN03218        765 ERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLR--RFEKACALGEPVVSF--DS--------GRPQIENKWTSWAL  832 (1060)
T ss_pred             HHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH--HHHHHhhhhhhhhhh--hc--------cccccccchHHHHH
Confidence            66666666666666665    3566666666543321  233333332222210  00        00001112346788


Q ss_pred             HHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          468 LVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP---FQPGCSIWESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       468 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                      .+|++|.+. |+.||..+|+.++.++++.+..+.+..+++.+.   ..|+..+|++++.++.+.  .++|..++++|.+.
T Consensus       833 ~lf~eM~~~-Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~  909 (1060)
T PLN03218        833 MVYRETISA-GTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASL  909 (1060)
T ss_pred             HHHHHHHHC-CCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHc
Confidence            888888887 888888888888877777888888888888775   556777888888877432  35788888888887


Q ss_pred             CC
Q 006580          545 QL  546 (640)
Q Consensus       545 ~p  546 (640)
                      +.
T Consensus       910 Gi  911 (1060)
T PLN03218        910 GV  911 (1060)
T ss_pred             CC
Confidence            43

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

Probab=100.00  E-value=2.4e-33  Score=315.59  Aligned_cols=549  Identities=11%  Similarity=0.035  Sum_probs=328.7

Q ss_pred             HHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCC---CChhhHHHHHHHHhcCC
Q 006580           19 SQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ---KNCISWNICLRGLLKSD   95 (640)
Q Consensus        19 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~~   95 (640)
                      ..+...+...|+++.|...++.+.+.. +.+...+..+...+.+.|++++|...++.+..   .+...+..+...+.+.|
T Consensus       299 ~~~~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  377 (899)
T TIGR02917       299 LLAGASEYQLGNLEQAYQYLNQILKYA-PNSHQARRLLASIQLRLGRVDEAIATLSPALGLDPDDPAALSLLGEAYLALG  377 (899)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCC
Confidence            334455566777777777777776654 44555666666777777777777777776654   23456666777777777


Q ss_pred             ChhHHHHHhccCCC---CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh---chhHHHHHHHH
Q 006580           96 NLDTALKVFDEIPE---PDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS---SACHGKQIHGS  169 (640)
Q Consensus        96 ~~~~A~~~~~~~~~---~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~---~~~~a~~~~~~  169 (640)
                      ++++|.+.|+++.+   .+...+..+...+...|++++|+..|+.+.+....+.. ....+...+.   +.+.+..+++.
T Consensus       378 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~  456 (899)
T TIGR02917       378 DFEKAAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGR-ADLLLILSYLRSGQFDKALAAAKK  456 (899)
T ss_pred             CHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchh-hHHHHHHHHHhcCCHHHHHHHHHH
Confidence            77777777776553   23445666666667777777777777776654322211 1112222222   56666666666


Q ss_pred             HHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCC---CCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCc
Q 006580          170 MIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEE---LDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDE  246 (640)
Q Consensus       170 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~  246 (640)
                      +...  .|.+..++..+...+...|++++|...|+++.+   .+...+..+...+...|++++|...++++...+ +.+.
T Consensus       457 ~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~  533 (899)
T TIGR02917       457 LEKK--QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNL  533 (899)
T ss_pred             HHHh--CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcH
Confidence            6655  556666666666667777777777766666542   233445556666666666666666666666532 2344


Q ss_pred             chHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHH
Q 006580          247 YTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMISTYG  323 (640)
Q Consensus       247 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~  323 (640)
                      .++..+...+...|+.++|...++.+.+.+ +.+...+..++..|.+.|++++|..+++.+.+   .+...|..+...+.
T Consensus       534 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  612 (899)
T TIGR02917       534 RAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQL  612 (899)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            456666666666666666666666665553 23444555666666666666666666666543   34455666666666


Q ss_pred             hCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHH
Q 006580          324 RYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTE  402 (640)
Q Consensus       324 ~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  402 (640)
                      ..|++++|...|+++.+.. +.+...+..+...+.. |+.+.|...++.+.+.. +.+...+..+...+...|++++|..
T Consensus       613 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  690 (899)
T TIGR02917       613 AAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKK  690 (899)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            6666666666666665532 1223334444444444 66666666666665543 3345555666666666666666666


Q ss_pred             HHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCC
Q 006580          403 IFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGV  479 (640)
Q Consensus       403 ~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~  479 (640)
                      +++.+..   .+...+..+...+...|++++|++.|+++...  .|+..++..+..++.+.|++++|.+.++.+.+  ..
T Consensus       691 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~--~~  766 (899)
T TIGR02917       691 IAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLK--TH  766 (899)
T ss_pred             HHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHH--hC
Confidence            6666652   24445555566666666666666666666653  34445555556666666666666666666655  23


Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHH
Q 006580          480 MPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQ  557 (640)
Q Consensus       480 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  557 (640)
                      +.+...+..+...|.+.|++++|.+.|+++.  .++++.+++.+...+...|+ ++|+..++++++..|.++..+..++.
T Consensus       767 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~  845 (899)
T TIGR02917       767 PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGW  845 (899)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHH
Confidence            3445556666666666666666666666654  23355566666666666666 55666666666666666666666666


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCC
Q 006580          558 AYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       558 ~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      ++...|++++|.++++++.+.+.
T Consensus       846 ~~~~~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       846 LLVEKGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCC
Confidence            66666666666666666665543

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=7.4e-33  Score=311.64  Aligned_cols=547  Identities=11%  Similarity=0.025  Sum_probs=253.1

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCC---CChhhHHHHHHHHhc
Q 006580           17 YCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ---KNCISWNICLRGLLK   93 (640)
Q Consensus        17 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~   93 (640)
                      .+..+...+.+.|++++|...++.+.+.. +.++..+..+...+.+.|++++|.+.|+++.+   .+...+..+...+..
T Consensus       331 ~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  409 (899)
T TIGR02917       331 ARRLLASIQLRLGRVDEAIATLSPALGLD-PDDPAALSLLGEAYLALGDFEKAAEYLAKATELDPENAAARTQLGISKLS  409 (899)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHh
Confidence            33344444445555555555555554433 33344444455555555555555555554432   122334444444445


Q ss_pred             CCChhHHHHHhccCCC---CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh---chhHHHHHH
Q 006580           94 SDNLDTALKVFDEIPE---PDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS---SACHGKQIH  167 (640)
Q Consensus        94 ~~~~~~A~~~~~~~~~---~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~---~~~~a~~~~  167 (640)
                      .|++++|.+.|+.+.+   .+...+..++..+.+.|++++|..+++.+... .+++..++..+...+.   +.+.|.+.+
T Consensus       410 ~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~  488 (899)
T TIGR02917       410 QGDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKK-QPDNASLHNLLGAIYLGKGDLAKAREAF  488 (899)
T ss_pred             CCChHHHHHHHHHHHhhCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHHhCCCHHHHHHHH
Confidence            5555555555544432   11223334444455555555555555554432 1222233333333332   444555555


Q ss_pred             HHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCC---CCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCC
Q 006580          168 GSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEE---LDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSP  244 (640)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  244 (640)
                      +.+++.  .|.+...+..+...+...|++++|.+.|+.+..   .+..++..+...+.+.|+.++|..+++++...+ +.
T Consensus       489 ~~a~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~  565 (899)
T TIGR02917       489 EKALSI--EPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQ  565 (899)
T ss_pred             HHHHhh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cc
Confidence            555444  344444444455555555555555555554431   133344444455555555555555555544322 12


Q ss_pred             CcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHH
Q 006580          245 DEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMIST  321 (640)
Q Consensus       245 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~  321 (640)
                      +...+..+...+...|++++|..+++.+.+.. +.+..++..+..++.+.|++++|...|+.+.+   .+...+..+...
T Consensus       566 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  644 (899)
T TIGR02917       566 EIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADA  644 (899)
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHH
Confidence            23344444445555555555555555544332 22344445555555555555555555544432   233344444555


Q ss_pred             HHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHH
Q 006580          322 YGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSS  400 (640)
Q Consensus       322 ~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  400 (640)
                      +.+.|++++|...|+++.+.. +.+..++..+...+.. |+.+.|..+++.+.+.. +.+...+..+...+.+.|++++|
T Consensus       645 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A  722 (899)
T TIGR02917       645 YAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAA  722 (899)
T ss_pred             HHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHH
Confidence            555555555555555544421 1123333333333334 55555555555544443 33344444444555555555555


Q ss_pred             HHHHHhCC--CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhC
Q 006580          401 TEIFVKLD--KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYG  478 (640)
Q Consensus       401 ~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~  478 (640)
                      ...|+.+.  .|+..++..+..++.+.|++++|.+.++++.+.. +.+...+..+...|...|++++|.+.|+++.+.  
T Consensus       723 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--  799 (899)
T TIGR02917       723 IQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK--  799 (899)
T ss_pred             HHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh--
Confidence            55555443  2333444444455555555555555555554431 233344444444455555555555555555442  


Q ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHH
Q 006580          479 VMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLT  556 (640)
Q Consensus       479 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  556 (640)
                      .+++...+..+...+...|+ .+|+++++++. ..| ++.++..+...+...|++++|...++++++.+|.++.++..++
T Consensus       800 ~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~l~  878 (899)
T TIGR02917       800 APDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHLA  878 (899)
T ss_pred             CCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHHHHH
Confidence            23334444455555555555 44555554443 222 3344444444555555555555555555555555555555555


Q ss_pred             HHHHhcCChHHHHHHHHHH
Q 006580          557 QAYAMRGRWEAIVRVKKVM  575 (640)
Q Consensus       557 ~~~~~~g~~~~a~~~~~~m  575 (640)
                      .++.+.|++++|.+++++|
T Consensus       879 ~~~~~~g~~~~A~~~~~~~  897 (899)
T TIGR02917       879 LALLATGRKAEARKELDKL  897 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHH
Confidence            5555555555555555544

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=99.97  E-value=2.3e-24  Score=242.37  Aligned_cols=557  Identities=11%  Similarity=0.071  Sum_probs=385.3

Q ss_pred             hhhhcCCCC-ChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhH----------------HHHHHHHHccCCch
Q 006580            5 LKKAHVNKA-SLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLG----------------NRCLDLYSRFGTSD   67 (640)
Q Consensus         5 ~~~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----------------~~ll~~~~~~~~~~   67 (640)
                      +.+.....| ++..+..+...+.+.|+.++|.+.++++.+.. +.++...                ..+...+...|+++
T Consensus        51 l~kl~~~~p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~-P~~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~~~  129 (1157)
T PRK11447         51 LYRLELIDPNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLA-PDSNAYRSSRTTMLLSTPEGRQALQQARLLATTGRTE  129 (1157)
T ss_pred             HHHHHccCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCCHH
Confidence            444444555 55677888899999999999999999999887 3443332                23344678899999


Q ss_pred             HHHHHHhcCCCCChhhHH----HHHHHHhcCCChhHHHHHhccCCC--C-CcchHHHHHHHHHhCCChHHHHHHHHHHHH
Q 006580           68 DVLQLFDEIPQKNCISWN----ICLRGLLKSDNLDTALKVFDEIPE--P-DVVSWNSMISGYASCGYSDYALEMFSKMQL  140 (640)
Q Consensus        68 ~a~~~~~~~~~~~~~~~~----~ll~~~~~~~~~~~A~~~~~~~~~--~-~~~~y~~li~~~~~~~~~~~a~~~~~~m~~  140 (640)
                      +|.+.|+...+.++....    .........|+.++|++.|+++.+  | +...+..+...+...|+.++|+..++++.+
T Consensus       130 eA~~~~~~~l~~~p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~  209 (1157)
T PRK11447        130 EALASYDKLFNGAPPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLFSSGRRDEGFAVLEQMAK  209 (1157)
T ss_pred             HHHHHHHHHccCCCCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHhh
Confidence            999999998763322211    111222346899999999999874  3 455788888999999999999999998865


Q ss_pred             CCC------------------CCChh-hHHH----------------H----------------HHHHh-----chhHHH
Q 006580          141 QGV------------------RPSGF-TFSI----------------L----------------LSTVS-----SACHGK  164 (640)
Q Consensus       141 ~g~------------------~p~~~-t~~~----------------l----------------l~~~~-----~~~~a~  164 (640)
                      ...                  .|... .+..                .                ..+..     +.+.|.
T Consensus       210 ~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G~~~~~~g~~~~A~  289 (1157)
T PRK11447        210 SPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQGLAAVDSGQGGKAI  289 (1157)
T ss_pred             CCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHCCCHHHHH
Confidence            321                  00000 0000                0                00111     566666


Q ss_pred             HHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCC--CCe---eeHHH------------HHHHHHhcCCh
Q 006580          165 QIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEE--LDI---ISWNS------------LISGCFNSGYG  227 (640)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~---~~~~~------------li~~~~~~~~~  227 (640)
                      ..++..++.  .|.+..++..|...|.+.|++++|...|++..+  |+.   ..|..            ....+.+.|++
T Consensus       290 ~~l~~aL~~--~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~  367 (1157)
T PRK11447        290 PELQQAVRA--NPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNL  367 (1157)
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCH
Confidence            777777666  466667777777777777777777777766553  221   11111            12345566777


Q ss_pred             hHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhc
Q 006580          228 ELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQL  307 (640)
Q Consensus       228 ~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  307 (640)
                      ++|...|++..+.. +.+...+..+...+...|++++|++.|+.+++... .+...+..+...|. .++.++|..+++.+
T Consensus       368 ~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p-~~~~a~~~L~~l~~-~~~~~~A~~~l~~l  444 (1157)
T PRK11447        368 AQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDP-GNTNAVRGLANLYR-QQSPEKALAFIASL  444 (1157)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH-hcCHHHHHHHHHhC
Confidence            77777777776642 12334555566667777777777777777766542 23444555555553 34567777776665


Q ss_pred             CCCC------------hhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChh-hHHHHHhhCCC-CChHHHHHHHHHHH
Q 006580          308 DRWD------------YAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEF-TLSCVLSSIPI-PPVEHGSQFHSMAI  373 (640)
Q Consensus       308 ~~~~------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-t~~~~l~~~~~-~~~~~a~~~~~~~~  373 (640)
                      ....            ...+..+...+...|++++|++.|++..+.  .|+.. .+..+...+.. |+.++|...++.+.
T Consensus       445 ~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al  522 (1157)
T PRK11447        445 SASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DPGSVWLTYRLAQDLRQAGQRSQADALMRRLA  522 (1157)
T ss_pred             CHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4321            112344556677889999999999988874  45533 33344444555 99999999998888


Q ss_pred             HhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCC----Ch---------hHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 006580          374 KSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKR----DL---------VSWNTIMMGLTQNGRAAETLDVFEELLE  440 (640)
Q Consensus       374 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~---------~~~~~li~~~~~~g~~~~a~~~~~~m~~  440 (640)
                      +.. +.++..+..+...+...++.++|...++.+...    +.         ..+..+...+...|+.++|+++++.   
T Consensus       523 ~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~---  598 (1157)
T PRK11447        523 QQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ---  598 (1157)
T ss_pred             HcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh---
Confidence            654 344555555556677888999999999887632    11         1123456678889999999998871   


Q ss_pred             CCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHH
Q 006580          441 EGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIW  518 (640)
Q Consensus       441 ~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~  518 (640)
                        .+++...+..+...+.+.|++++|+..|+...+.  -+.+...+..++..|...|++++|++.++... ..| +...+
T Consensus       599 --~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~  674 (1157)
T PRK11447        599 --QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQ  674 (1157)
T ss_pred             --CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHH
Confidence              3455567778888999999999999999999874  34467788999999999999999999999887 455 56677


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcCCCCh------hHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          519 ESILRASAIYGDVKLTENVAERMMDLQLPSP------LPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       519 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      ..+..++...|++++|.++++++++..|+++      ..+..++.++...|++++|+..++....
T Consensus       675 ~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        675 RRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            8888899999999999999999998866433      4667789999999999999999998864

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.96  E-value=1.4e-23  Score=236.10  Aligned_cols=549  Identities=13%  Similarity=0.057  Sum_probs=355.1

Q ss_pred             HHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCC--CChhhH-----------
Q 006580           18 CSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ--KNCISW-----------   84 (640)
Q Consensus        18 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~-----------   84 (640)
                      +....+.+...++.+.|.+.++++.... +.++.++..++..+.+.|+.++|.+.+++..+  |+...+           
T Consensus        31 Ll~q~~~~~~~~~~d~a~~~l~kl~~~~-p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~~~~  109 (1157)
T PRK11447         31 LLEQVRLGEATHREDLVRQSLYRLELID-PNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPDSNAYRSSRTTMLLST  109 (1157)
T ss_pred             HHHHHHHHHhhCChHHHHHHHHHHHccC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHhcC
Confidence            5566688889999999999999999876 56788899999999999999999999999876  332211           


Q ss_pred             ------HHHHHHHhcCCChhHHHHHhccCCCCCcchHH----HHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHH
Q 006580           85 ------NICLRGLLKSDNLDTALKVFDEIPEPDVVSWN----SMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILL  154 (640)
Q Consensus        85 ------~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~y~----~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll  154 (640)
                            ..+...+.+.|++++|.+.|+.+.+.++....    .........|+.++|+..|+++.+.  .|+.......+
T Consensus       110 ~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~--~P~~~~~~~~L  187 (1157)
T PRK11447        110 PEGRQALQQARLLATTGRTEEALASYDKLFNGAPPELDLAVEYWRLVAKLPAQRPEAINQLQRLNAD--YPGNTGLRNTL  187 (1157)
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHccCCCCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence                  22334678899999999999998753222211    1112223469999999999999886  45543333333


Q ss_pred             HHHh----chhHHHHHHHHHHHhCC---------------CC---CchhHHH----------------------------
Q 006580          155 STVS----SACHGKQIHGSMIRSGL---------------SL---SNVVLGN----------------------------  184 (640)
Q Consensus       155 ~~~~----~~~~a~~~~~~~~~~~~---------------~~---~~~~~~~----------------------------  184 (640)
                      ..+.    +.++|.+.++.+.+...               .+   .....+.                            
T Consensus       188 A~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~d  267 (1157)
T PRK11447        188 ALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLAD  267 (1157)
T ss_pred             HHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccC
Confidence            2222    66778777777654320               00   0000111                            


Q ss_pred             ------HHHHhhhcCCChHHHHHHHhccCC--C-CeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcc---hHH--
Q 006580          185 ------SLIDMYGKLGVLYYAFGVFLNMEE--L-DIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEY---TIS--  250 (640)
Q Consensus       185 ------~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~---t~~--  250 (640)
                            .+...+...|++++|...|++..+  | +...+..+...+.+.|++++|+..|++..+..  |+..   .+.  
T Consensus       268 p~~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~--p~~~~~~~~~~l  345 (1157)
T PRK11447        268 PAFRARAQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALD--PHSSNRDKWESL  345 (1157)
T ss_pred             cchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCccchhHHHHH
Confidence                  112334455666666666665542  2 44555566666666666666666666665432  2211   111  


Q ss_pred             ----------HHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHH
Q 006580          251 ----------IVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINV  317 (640)
Q Consensus       251 ----------~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~  317 (640)
                                .....+.+.|++++|...++.+++.. +.+...+..+..++...|++++|++.|+++.+   .+...+..
T Consensus       346 l~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~  424 (1157)
T PRK11447        346 LKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRG  424 (1157)
T ss_pred             HHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence                      11223445666666666666666653 22344555566666666666666666666543   22334444


Q ss_pred             HHHHHHhCCChHHHHHHHHHHhhCCCCC--------ChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHH
Q 006580          318 MISTYGRYGFGEVALELFQLMLREDIRP--------TEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLM  388 (640)
Q Consensus       318 li~~~~~~~~~~~a~~~~~~m~~~~~~p--------~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  388 (640)
                      +...|. .++.++|...++.+.......        ....+......+.. |+.++|...++++.+.. |.++..+..+.
T Consensus       425 L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA  502 (1157)
T PRK11447        425 LANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLA  502 (1157)
T ss_pred             HHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            444443 345566666655443221000        00011122223334 77778887777777654 34556666777


Q ss_pred             HHHHhcCChHHHHHHHHhCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH---------HHHHHHHH
Q 006580          389 EMYAKTGSIDSSTEIFVKLD--KR-DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI---------TLAAVLLA  456 (640)
Q Consensus       389 ~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~---------~~~~ll~~  456 (640)
                      ..|.+.|++++|...|+++.  .| +...+..+...+...++.++|+..++++......++..         .+..+...
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            77888888888888877764  23 44444444455566777888877777654332222221         12234556


Q ss_pred             HhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHH
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLT  534 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a  534 (640)
                      +...|+.++|..+++      ..+++...+..+...+.+.|++++|++.|+++. ..| +...+..++..+...|++++|
T Consensus       583 l~~~G~~~eA~~~l~------~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA  656 (1157)
T PRK11447        583 LRDSGKEAEAEALLR------QQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAA  656 (1157)
T ss_pred             HHHCCCHHHHHHHHH------hCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            777888888888876      124556677788899999999999999999887 555 688999999999999999999


Q ss_pred             HHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          535 ENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       535 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      ++.++++.+..|+++..+..++.++...|++++|.++++++.+...
T Consensus       657 ~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~  702 (1157)
T PRK11447        657 RAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAK  702 (1157)
T ss_pred             HHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCc
Confidence            9999999999999999999999999999999999999999987653

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.94  E-value=7.8e-21  Score=204.06  Aligned_cols=534  Identities=10%  Similarity=-0.035  Sum_probs=329.4

Q ss_pred             cCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCCCCh--hhHHHHHHHHhcCCChhHHHHHh
Q 006580           27 SFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNC--ISWNICLRGLLKSDNLDTALKVF  104 (640)
Q Consensus        27 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~ll~~~~~~~~~~~A~~~~  104 (640)
                      ..|++++|...|+...+.. |-++.++..|...|.+.|+.++|...+++..+.++  ..|..++..+   +++++|..++
T Consensus        56 ~~Gd~~~A~~~l~~Al~~d-P~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~~~kA~~~y  131 (987)
T PRK09782         56 KNNDEATAIREFEYIHQQV-PDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDARLERSLAAI---PVEVKSVTTV  131 (987)
T ss_pred             hCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHh---ccChhHHHHH
Confidence            3377777777777777766 44467777777777777777777777777665322  2333333222   6667777777


Q ss_pred             ccCCC--CC-cchHHHHHHH--------HHhCCChHHHHHHHHHHHHCCCCCChhhHHHH-HHHHh---chhHHHHHHHH
Q 006580          105 DEIPE--PD-VVSWNSMISG--------YASCGYSDYALEMFSKMQLQGVRPSGFTFSIL-LSTVS---SACHGKQIHGS  169 (640)
Q Consensus       105 ~~~~~--~~-~~~y~~li~~--------~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~l-l~~~~---~~~~a~~~~~~  169 (640)
                      +++..  |+ ...+..+...        |.+.   ++|.+.++ .......|+..+.... ...+.   +.+.+...++.
T Consensus       132 e~l~~~~P~n~~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~  207 (987)
T PRK09782        132 EELLAQQKACDAVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNE  207 (987)
T ss_pred             HHHHHhCCCChhHHHHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHH
Confidence            77653  32 3334333333        3333   44444444 3333333344433333 23332   55667777777


Q ss_pred             HHHhCCCCCchhHHHHHHHhhhc-CCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCC-CCcc
Q 006580          170 MIRSGLSLSNVVLGNSLIDMYGK-LGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYS-PDEY  247 (640)
Q Consensus       170 ~~~~~~~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~-p~~~  247 (640)
                      +.+.+  +.+......|...|.. .++ +++..+++...+.|...+..+...|.+.|+.++|..+++++...-.. |...
T Consensus       208 L~k~~--pl~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~  284 (987)
T PRK09782        208 ARQQN--TLSAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEK  284 (987)
T ss_pred             HHhcC--CCCHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccH
Confidence            77763  4455555666666666 355 66666655444456666667777777777777777777666432111 2222


Q ss_pred             hHHHH------------------------------HHHHhccCCchHHHHH-----------------------------
Q 006580          248 TISIV------------------------------INACTKLRNLDKGKQV-----------------------------  268 (640)
Q Consensus       248 t~~~l------------------------------l~~~~~~~~~~~a~~~-----------------------------  268 (640)
                      ++..+                              +..+.+.++++.++++                             
T Consensus       285 ~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~  364 (987)
T PRK09782        285 SWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRL  364 (987)
T ss_pred             HHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHH
Confidence            22111                              2222233333333322                             


Q ss_pred             HHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC-C-----ChhhHHHHHHHHHhCCC---hHHHHHH-----
Q 006580          269 FALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR-W-----DYAVINVMISTYGRYGF---GEVALEL-----  334 (640)
Q Consensus       269 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-----~~~~~~~li~~~~~~~~---~~~a~~~-----  334 (640)
                      +..|.+.. +-+......+.-...+.|+.++|.++|+..-. +     +...-+-++..|.+.+.   ..++..+     
T Consensus       365 ~~~~y~~~-~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~  443 (987)
T PRK09782        365 ARLLYQQE-PANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLP  443 (987)
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccc
Confidence            22222210 11333333344445667888888888877654 1     12233355666666655   3333333     


Q ss_pred             -------HH----------HHhh-CCCCCC--hhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh
Q 006580          335 -------FQ----------LMLR-EDIRPT--EFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAK  393 (640)
Q Consensus       335 -------~~----------~m~~-~~~~p~--~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  393 (640)
                             ..          .... .+..|+  .......+..|.. +..++|...+.......  |+......+...+..
T Consensus       444 ~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~  521 (987)
T PRK09782        444 LAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRDTLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQ  521 (987)
T ss_pred             cchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHhCCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHH
Confidence                   11          1111 112233  2222222223333 77777888776666553  444433344555568


Q ss_pred             cCChHHHHHHHHhCCC--CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccCCHHHHHHHH
Q 006580          394 TGSIDSSTEIFVKLDK--RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDR-ITLAAVLLACNYGGFVDKGMLVF  470 (640)
Q Consensus       394 ~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~A~~~~  470 (640)
                      .|++++|...|+++..  |+...+..+...+.+.|+.++|...+++..+..  |+. ..+..+...+...|++++|...+
T Consensus       522 ~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~eAl~~~  599 (987)
T PRK09782        522 VEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPELALNDL  599 (987)
T ss_pred             CCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            8999999999987762  445556677778888999999999999998853  443 33334444555669999999999


Q ss_pred             HHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 006580          471 SAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPS  548 (640)
Q Consensus       471 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  548 (640)
                      ++..+.   .|+...+..+..++.+.|++++|+..+++.. ..| +...+..+..++...|++++|+..++++++.+|.+
T Consensus       600 ~~AL~l---~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~  676 (987)
T PRK09782        600 TRSLNI---APSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDD  676 (987)
T ss_pred             HHHHHh---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            988753   5678888888999999999999999999887 556 67788888889999999999999999999999999


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          549 PLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       549 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +..+..++.++...|++++|+..+++..+..
T Consensus       677 ~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        677 PALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            9999999999999999999999999887755

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.92  E-value=7.4e-20  Score=196.60  Aligned_cols=556  Identities=11%  Similarity=0.016  Sum_probs=393.9

Q ss_pred             hhhcCCCC-ChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCC--C-Ch
Q 006580            6 KKAHVNKA-SLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ--K-NC   81 (640)
Q Consensus         6 ~~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~-~~   81 (640)
                      +..-...| +..++..|...+...|++++|....++..+.. +.|...+..+ ..+   +++++|..+++++..  | +.
T Consensus        68 ~~Al~~dP~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ld-P~n~~~~~~L-a~i---~~~~kA~~~ye~l~~~~P~n~  142 (987)
T PRK09782         68 EYIHQQVPDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRH-PGDARLERSL-AAI---PVEVKSVTTVEELLAQQKACD  142 (987)
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-cccHHHHHHH-HHh---ccChhHHHHHHHHHHhCCCCh
Confidence            33344455 45677888899999999999999999999886 3445544444 333   899999999999875  3 34


Q ss_pred             hhHHHHHHH--------HhcCCChhHHHHHhccCCCCC--cchHHHH-HHHHHhCCChHHHHHHHHHHHHCCCCCChhhH
Q 006580           82 ISWNICLRG--------LLKSDNLDTALKVFDEIPEPD--VVSWNSM-ISGYASCGYSDYALEMFSKMQLQGVRPSGFTF  150 (640)
Q Consensus        82 ~~~~~ll~~--------~~~~~~~~~A~~~~~~~~~~~--~~~y~~l-i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~  150 (640)
                      ..+..+...        |.+.+...++++  .....|+  ..+.... .+.|.+.|++++|+.+++++.+.+.... .-.
T Consensus       143 ~~~~~la~~~~~~~~l~y~q~eqAl~AL~--lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl~~-~~~  219 (987)
T PRK09782        143 AVPTLRCRSEVGQNALRLAQLPVARAQLN--DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTLSA-AER  219 (987)
T ss_pred             hHHHHHHHHhhccchhhhhhHHHHHHHHH--HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCCCH-HHH
Confidence            455555554        777766666666  3333343  4444444 8999999999999999999999864332 222


Q ss_pred             HHHHHHHhc-h--hHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCC-----CCeee---------
Q 006580          151 SILLSTVSS-A--CHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEE-----LDIIS---------  213 (640)
Q Consensus       151 ~~ll~~~~~-~--~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~---------  213 (640)
                      ..+-.++.. .  +.+..+++    .. ...+..++..++..|.+.|+.++|.++++++..     |+..+         
T Consensus       220 ~~L~~ay~q~l~~~~a~al~~----~~-lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~  294 (987)
T PRK09782        220 RQWFDVLLAGQLDDRLLALQS----QG-IFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYS  294 (987)
T ss_pred             HHHHHHHHHhhCHHHHHHHhc----hh-cccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhcc
Confidence            222222222 1  33333322    22 456889999999999999999999999999872     11111         


Q ss_pred             ---------------------HHHHHHHHHhcCChhHHHHHHHHh--------HHCCCC-------------------C-
Q 006580          214 ---------------------WNSLISGCFNSGYGELALDQFYSM--------RYSGYS-------------------P-  244 (640)
Q Consensus       214 ---------------------~~~li~~~~~~~~~~~A~~~~~~m--------~~~g~~-------------------p-  244 (640)
                                           .-.++..+.+.++++-+.++..--        +-.+..                   | 
T Consensus       295 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~  374 (987)
T PRK09782        295 ANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPA  374 (987)
T ss_pred             CchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCC
Confidence                                 112245556666666555442110        000000                   1 


Q ss_pred             CcchHHHHHHHHhccCCchHHHHHHHHHHHh-C-CCCchhHHHHHHHHHHhcCC---HHHHHHHH---------------
Q 006580          245 DEYTISIVINACTKLRNLDKGKQVFALSVKV-G-FLSNSIVLSATIDLFSKCNR---LEDSVRLF---------------  304 (640)
Q Consensus       245 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~---~~~A~~~~---------------  304 (640)
                      +......+--...+.|+.++|.++++..... + -.++......++..|.+.+.   ..++..+-               
T Consensus       375 ~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  454 (987)
T PRK09782        375 NLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQL  454 (987)
T ss_pred             CHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhh
Confidence            2222222333345778899999999988763 1 22345566688888888876   33333331               


Q ss_pred             ----------HhcCC---C--ChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHH
Q 006580          305 ----------EQLDR---W--DYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQF  368 (640)
Q Consensus       305 ----------~~~~~---~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~  368 (640)
                                .....   .  +...|..+..++.. ++.++|+..+.+....  .|+......+...+.. |+.+.|...
T Consensus       455 ~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~  531 (987)
T PRK09782        455 PGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAA  531 (987)
T ss_pred             hhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHH
Confidence                      11111   2  45567777777776 7888999988887764  4665543333333445 999999999


Q ss_pred             HHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCCChhH---HHHHHHHHHhCCChHHHHHHHHHHHHCCCCC
Q 006580          369 HSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVS---WNTIMMGLTQNGRAAETLDVFEELLEEGLPP  445 (640)
Q Consensus       369 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  445 (640)
                      ++.+...  +|+......+..++.+.|++++|...++...+.++..   +..+.......|++++|+..+++..+  ..|
T Consensus       532 ~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~--l~P  607 (987)
T PRK09782        532 WQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLN--IAP  607 (987)
T ss_pred             HHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH--hCC
Confidence            9987654  4444555667788899999999999999887533322   33333344456999999999999998  467


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHH
Q 006580          446 DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILR  523 (640)
Q Consensus       446 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~  523 (640)
                      +...+..+..++.+.|++++|+..+++....  -+.+...+..+..++...|++++|++.+++.. ..| ++..+..+..
T Consensus       608 ~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~  685 (987)
T PRK09782        608 SANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAY  685 (987)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            8888999999999999999999999998863  34456678888889999999999999999987 556 7889999999


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCccC
Q 006580          524 ASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKV  583 (640)
Q Consensus       524 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  583 (640)
                      ++...|++++|+..+++++++.|.+..+....++...+..+++.|.+-+++...-++...
T Consensus       686 al~~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~~~~~  745 (987)
T PRK09782        686 VNQRLDDMAATQHYARLVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWTFSFDSS  745 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCccch
Confidence            999999999999999999999999999999999999999999999999888876655443

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

Probab=99.91  E-value=1.2e-20  Score=179.63  Aligned_cols=384  Identities=14%  Similarity=0.150  Sum_probs=312.0

Q ss_pred             CCCchhHHHHHHHhhhcCCChHHHHHHHhccCCC---CeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHH-
Q 006580          176 SLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEEL---DIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISI-  251 (640)
Q Consensus       176 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~-  251 (640)
                      .|.-..+|..+.+.+-..|++++|+..++.+.+.   .+..|-.+..++...|+.+.|.+.|.+..+  +.|+.....+ 
T Consensus       112 ~~q~ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~  189 (966)
T KOG4626|consen  112 NPQGAEAYSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSD  189 (966)
T ss_pred             cchHHHHHHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcc
Confidence            4556778888888888888888888888887642   457788888888889999999988888876  4466554333 


Q ss_pred             HHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCCh---hhHHHHHHHHHhCCCh
Q 006580          252 VINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDY---AVINVMISTYGRYGFG  328 (640)
Q Consensus       252 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~~~~  328 (640)
                      +.......|++++|..-|...++... -=...|+.|...+-..|+...|+..|++...-|+   ..|-.|...|...+.+
T Consensus       190 lgnLlka~Grl~ea~~cYlkAi~~qp-~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~  268 (966)
T KOG4626|consen  190 LGNLLKAEGRLEEAKACYLKAIETQP-CFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIF  268 (966)
T ss_pred             hhHHHHhhcccchhHHHHHHHHhhCC-ceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcc
Confidence            33444567888888888888777642 1234678888888889999999999988876443   4677888889999999


Q ss_pred             HHHHHHHHHHhhCCCCCChhh-HHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHh
Q 006580          329 EVALELFQLMLREDIRPTEFT-LSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVK  406 (640)
Q Consensus       329 ~~a~~~~~~m~~~~~~p~~~t-~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  406 (640)
                      +.|+..|.+...  ..|+... +..+-..+.. |.++.|...+++.++.. |.-+..|+.|..++-..|++.+|.+.+.+
T Consensus       269 d~Avs~Y~rAl~--lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnk  345 (966)
T KOG4626|consen  269 DRAVSCYLRALN--LRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNK  345 (966)
T ss_pred             hHHHHHHHHHHh--cCCcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHH
Confidence            999998887765  4666543 3344444555 99999999999888764 44577899999999999999999999998


Q ss_pred             CCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC
Q 006580          407 LDK--R-DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDR-ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG  482 (640)
Q Consensus       407 ~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~  482 (640)
                      ...  | ...+.+.|...|...|.+++|..+|....+  +.|.- ..++.|...|-++|++++|+..+++..   .+.|+
T Consensus       346 aL~l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~  420 (966)
T KOG4626|consen  346 ALRLCPNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPT  420 (966)
T ss_pred             HHHhCCccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCch
Confidence            873  3 567889999999999999999999999988  66765 588999999999999999999999887   56787


Q ss_pred             -hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHH
Q 006580          483 -EEHYACIIDLLCQAGQLGKAIDITSTMP-FQPG-CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAY  559 (640)
Q Consensus       483 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  559 (640)
                       ...|+.+...|...|+.+.|.+.+.++. +.|. ...++.|...|...|+..+|+..|+.++++.|+.+.+|.+++.++
T Consensus       421 fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~l  500 (966)
T KOG4626|consen  421 FADALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCL  500 (966)
T ss_pred             HHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHH
Confidence             4589999999999999999999999987 7774 678999999999999999999999999999999999999998887


Q ss_pred             HhcCChHHHHH
Q 006580          560 AMRGRWEAIVR  570 (640)
Q Consensus       560 ~~~g~~~~a~~  570 (640)
                      .---+|.+-.+
T Consensus       501 q~vcdw~D~d~  511 (966)
T KOG4626|consen  501 QIVCDWTDYDK  511 (966)
T ss_pred             HHHhcccchHH
Confidence            76666655333

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

Probab=99.88  E-value=1.5e-19  Score=172.24  Aligned_cols=427  Identities=13%  Similarity=0.097  Sum_probs=282.5

Q ss_pred             HHHHHHHHHccCCchHHHHHHhcCCCCCh---hhHHHHHHHHhcCCChhHHHHHhccCCC---CCcchHHHHHHHHHhCC
Q 006580           53 GNRCLDLYSRFGTSDDVLQLFDEIPQKNC---ISWNICLRGLLKSDNLDTALKVFDEIPE---PDVVSWNSMISGYASCG  126 (640)
Q Consensus        53 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~ll~~~~~~~~~~~A~~~~~~~~~---~~~~~y~~li~~~~~~~  126 (640)
                      ...|..-..+.|++.+|.+-...+-+.|+   ...-.+-..+.+..+.+.....-....+   ....+|.-+.+.+-..|
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~kerg  130 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQEDPTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKERG  130 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccCCCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHhc
Confidence            45566666677888888876665544222   1122222334444444433332222221   23457777888888888


Q ss_pred             ChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhcc
Q 006580          127 YSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNM  206 (640)
Q Consensus       127 ~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  206 (640)
                      ++++|+.+++.|.+.                                  .|.....|..+..++...|+.+.|...|.+.
T Consensus       131 ~~~~al~~y~~aiel----------------------------------~p~fida~inla~al~~~~~~~~a~~~~~~a  176 (966)
T KOG4626|consen  131 QLQDALALYRAAIEL----------------------------------KPKFIDAYINLAAALVTQGDLELAVQCFFEA  176 (966)
T ss_pred             hHHHHHHHHHHHHhc----------------------------------CchhhHHHhhHHHHHHhcCCCcccHHHHHHH
Confidence            888888888888775                                  3445556666666666666666666666655


Q ss_pred             CCCCe--eeHHH-HHHHHHhcCChhHHHHHHHHhHHCCCCCC-cchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCc-h
Q 006580          207 EELDI--ISWNS-LISGCFNSGYGELALDQFYSMRYSGYSPD-EYTISIVINACTKLRNLDKGKQVFALSVKVGFLSN-S  281 (640)
Q Consensus       207 ~~~~~--~~~~~-li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~  281 (640)
                      .+-|.  ....+ +-..+-..|+.++|...+.+..+.  .|. ...|+.|...+-..|+...|.+-|++.++..  |+ .
T Consensus       177 lqlnP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~~--qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld--P~f~  252 (966)
T KOG4626|consen  177 LQLNPDLYCARSDLGNLLKAEGRLEEAKACYLKAIET--QPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD--PNFL  252 (966)
T ss_pred             HhcCcchhhhhcchhHHHHhhcccchhHHHHHHHHhh--CCceeeeehhcchHHhhcchHHHHHHHHHHhhcCC--Ccch
Confidence            53322  22111 222233356666666666665542  233 2356666666666666666666666666543  22 2


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCC-hhhHHHHHhhC
Q 006580          282 IVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPT-EFTLSCVLSSI  357 (640)
Q Consensus       282 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~~l~~~  357 (640)
                      ..|-.|...|...+.++.|+..+.+...   ...+++..|...|-..|+.+-|+..|++..+.  .|+ ...|+.+-.++
T Consensus       253 dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanAL  330 (966)
T KOG4626|consen  253 DAYINLGNVYKEARIFDRAVSCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANAL  330 (966)
T ss_pred             HHHhhHHHHHHHHhcchHHHHHHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHH
Confidence            3555666666666666666666665432   23445556666666666677777766666653  444 33566666666


Q ss_pred             CC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC--C-ChhHHHHHHHHHHhCCChHHHHH
Q 006580          358 PI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK--R-DLVSWNTIMMGLTQNGRAAETLD  433 (640)
Q Consensus       358 ~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~  433 (640)
                      .. |++.+|...+.+..... +......+.|...|...|.+++|..+|.....  | -...++.|...|-++|+.++|+.
T Consensus       331 kd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~~aaa~nNLa~i~kqqgnl~~Ai~  409 (966)
T KOG4626|consen  331 KDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALEVFPEFAAAHNNLASIYKQQGNLDDAIM  409 (966)
T ss_pred             HhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHhhChhhhhhhhhHHHHHHhcccHHHHHH
Confidence            66 77777777776666654 33345567799999999999999999998774  3 34578999999999999999999


Q ss_pred             HHHHHHHCCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC-
Q 006580          434 VFEELLEEGLPPDRI-TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG-EEHYACIIDLLCQAGQLGKAIDITSTMP-  510 (640)
Q Consensus       434 ~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-  510 (640)
                      .|++.++  ++|+.. .|+.+...|-..|+.+.|++.+.+..   .+.|. .+..+.|...|..+|++.+|+.-+++.. 
T Consensus       410 ~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI---~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLk  484 (966)
T KOG4626|consen  410 CYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAI---QINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALK  484 (966)
T ss_pred             HHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHH---hcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc
Confidence            9999998  788874 89999999999999999999999887   44665 5678899999999999999999999987 


Q ss_pred             CCCC-HHHHHHHHHHH
Q 006580          511 FQPG-CSIWESILRAS  525 (640)
Q Consensus       511 ~~~~-~~~~~~l~~~~  525 (640)
                      .+|| +..+..++-..
T Consensus       485 lkPDfpdA~cNllh~l  500 (966)
T KOG4626|consen  485 LKPDFPDAYCNLLHCL  500 (966)
T ss_pred             cCCCCchhhhHHHHHH
Confidence            7886 44566555444

>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=99.87  E-value=4.8e-18  Score=179.82  Aligned_cols=419  Identities=13%  Similarity=0.003  Sum_probs=269.0

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcC
Q 006580          114 SWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKL  193 (640)
Q Consensus       114 ~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  193 (640)
                      .+......+.+.|++++|+..|++..+.  .|                                 +...|..+..+|.+.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p---------------------------------~~~~~~n~a~~~~~l  173 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIEC--KP---------------------------------DPVYYSNRAACHNAL  173 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc--CC---------------------------------chHHHHHHHHHHHHh
Confidence            3456677888999999999999998763  33                                 344455666666677


Q ss_pred             CChHHHHHHHhccCCC---CeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHH
Q 006580          194 GVLYYAFGVFLNMEEL---DIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFA  270 (640)
Q Consensus       194 g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~  270 (640)
                      |++++|+..++...+.   +...|..+..+|...|++++|+..|......+- .+......++.....    ..+.....
T Consensus       174 ~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~-~~~~~~~~~~~~~l~----~~a~~~~~  248 (615)
T TIGR00990       174 GDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGKYADALLDLTASCIIDG-FRNEQSAQAVERLLK----KFAESKAK  248 (615)
T ss_pred             CCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CccHHHHHHHHHHHH----HHHHHHHH
Confidence            7777777766665532   334566666677777777777766655543211 111111111111111    11112222


Q ss_pred             HHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCCh---hhHHHHHHH---HHhCCChHHHHHHHHHHhhCC-C
Q 006580          271 LSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDY---AVINVMIST---YGRYGFGEVALELFQLMLRED-I  343 (640)
Q Consensus       271 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~---~~~~~~~~~a~~~~~~m~~~~-~  343 (640)
                      ..++.. +++...+..+.. |...........-+....+.+.   ..+..+...   ....+++++|.+.|++..+.+ .
T Consensus       249 ~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~  326 (615)
T TIGR00990       249 EILETK-PENLPSVTFVGN-YLQSFRPKPRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKL  326 (615)
T ss_pred             HHHhcC-CCCCCCHHHHHH-HHHHccCCcchhhhhcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCC
Confidence            222221 111112222222 1111111111111111111111   111111111   123466778888888877654 3


Q ss_pred             CCChh-hHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHH
Q 006580          344 RPTEF-TLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTI  418 (640)
Q Consensus       344 ~p~~~-t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l  418 (640)
                      .|+.. .+..+-..+.. |+.+.|...++.+.+.. +.+...+..+...+...|++++|...|+...+   .+...|..+
T Consensus       327 ~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~l  405 (615)
T TIGR00990       327 GEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHR  405 (615)
T ss_pred             ChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            34333 23333333344 88888888888777653 33456777788889999999999999988762   357788999


Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcC
Q 006580          419 MMGLTQNGRAAETLDVFEELLEEGLPPD-RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAG  497 (640)
Q Consensus       419 i~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  497 (640)
                      ...+...|++++|+..|++..+.  .|+ ...+..+...+.+.|++++|+..++...+.  .+.+...+..+..++...|
T Consensus       406 g~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g  481 (615)
T TIGR00990       406 AQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQN  481 (615)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcc
Confidence            99999999999999999999985  454 557777888899999999999999998863  3445778899999999999


Q ss_pred             ChHHHHHHHHhCC-CCCC-HH-------HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHH
Q 006580          498 QLGKAIDITSTMP-FQPG-CS-------IWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAI  568 (640)
Q Consensus       498 ~~~~A~~~~~~~~-~~~~-~~-------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  568 (640)
                      ++++|++.|++.. ..|+ ..       .++.....+...|++++|.++++++++++|.+...+..+++++...|++++|
T Consensus       482 ~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eA  561 (615)
T TIGR00990       482 KFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEA  561 (615)
T ss_pred             CHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHH
Confidence            9999999999876 4442 11       1222223344469999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCC
Q 006580          569 VRVKKVMRKNG  579 (640)
Q Consensus       569 ~~~~~~m~~~~  579 (640)
                      .+++++..+..
T Consensus       562 i~~~e~A~~l~  572 (615)
T TIGR00990       562 LKLFERAAELA  572 (615)
T ss_pred             HHHHHHHHHHh
Confidence            99999987653

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.87  E-value=2.8e-19  Score=179.90  Aligned_cols=292  Identities=12%  Similarity=0.119  Sum_probs=201.9

Q ss_pred             hccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCC-------hhhHHHHHHHHHhCCChH
Q 006580          257 TKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWD-------YAVINVMISTYGRYGFGE  329 (640)
Q Consensus       257 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-------~~~~~~li~~~~~~~~~~  329 (640)
                      ...|++++|...|+.+.+.+ +.+..++..+...+...|++++|..+++.+....       ...+..+...|.+.|+++
T Consensus        46 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~  124 (389)
T PRK11788         46 LLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLD  124 (389)
T ss_pred             HhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHH
Confidence            33444445555555444432 1233344455555555555555555555443311       124555666667777777


Q ss_pred             HHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC
Q 006580          330 VALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK  409 (640)
Q Consensus       330 ~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  409 (640)
                      +|..+|+++.+..                                   +.+...+..++..+.+.|++++|.+.++.+.+
T Consensus       125 ~A~~~~~~~l~~~-----------------------------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  169 (389)
T PRK11788        125 RAEELFLQLVDEG-----------------------------------DFAEGALQQLLEIYQQEKDWQKAIDVAERLEK  169 (389)
T ss_pred             HHHHHHHHHHcCC-----------------------------------cchHHHHHHHHHHHHHhchHHHHHHHHHHHHH
Confidence            7777777666531                                   22233445566666666777777666666652


Q ss_pred             --CC------hhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCC
Q 006580          410 --RD------LVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMP  481 (640)
Q Consensus       410 --~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p  481 (640)
                        |+      ...+..+...+...|++++|...|+++.+.. +.+...+..+...+.+.|++++|.++++++.+. +...
T Consensus       170 ~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~p~~  247 (389)
T PRK11788        170 LGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ-DPEY  247 (389)
T ss_pred             hcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-Chhh
Confidence              11      1234567777888999999999999998752 233457777888899999999999999998864 2222


Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 006580          482 GEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       482 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      ....+..++.+|.+.|++++|.+.++++. ..|+...+..++..+.+.|++++|..+++++++..|++. .+..++..+.
T Consensus       248 ~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~-~~~~l~~~~~  326 (389)
T PRK11788        248 LSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLR-GFHRLLDYHL  326 (389)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHH-HHHHHHHHhh
Confidence            24567888999999999999999999887 677777778899999999999999999999999998775 4555555554


Q ss_pred             h---cCChHHHHHHHHHHHhCCCccCCcee
Q 006580          561 M---RGRWEAIVRVKKVMRKNGINKVTGCS  587 (640)
Q Consensus       561 ~---~g~~~~a~~~~~~m~~~~~~~~~~~~  587 (640)
                      .   .|+.+++..++++|.+++++++|...
T Consensus       327 ~~~~~g~~~~a~~~~~~~~~~~~~~~p~~~  356 (389)
T PRK11788        327 AEAEEGRAKESLLLLRDLVGEQLKRKPRYR  356 (389)
T ss_pred             hccCCccchhHHHHHHHHHHHHHhCCCCEE
Confidence            3   56999999999999999999998643

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

Probab=99.86  E-value=8.2e-17  Score=162.05  Aligned_cols=549  Identities=14%  Similarity=0.067  Sum_probs=389.0

Q ss_pred             HHHHh--hcCCChHHHHHHHHHHHHhC--CCCchhhHHHHHHHHHccCCchHHHHHHhcCCCCChhhHHHHHHHH---hc
Q 006580           21 LIDRC--LSFKSFDFAKTIHGHLFKLG--FNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGL---LK   93 (640)
Q Consensus        21 ll~~~--~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~---~~   93 (640)
                      |.++|  ...+++..|..+|..+....  .+||+.  -.+...+.+.++.+.|+..|+...+.|+...++++...   ..
T Consensus       168 lGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~r--Igig~Cf~kl~~~~~a~~a~~ralqLdp~~v~alv~L~~~~l~  245 (1018)
T KOG2002|consen  168 LGKARIAYNKKDYRGALKYYKKALRINPACKADVR--IGIGHCFWKLGMSEKALLAFERALQLDPTCVSALVALGEVDLN  245 (1018)
T ss_pred             HHHHHHHhccccHHHHHHHHHHHHhcCcccCCCcc--chhhhHHHhccchhhHHHHHHHHHhcChhhHHHHHHHHHHHHH
Confidence            34444  45689999999999977654  445543  33446677889999999999998886665444433321   12


Q ss_pred             ---CCChhHHHHHhccCC---CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC--hhhHHHHHHHHh---chhH
Q 006580           94 ---SDNLDTALKVFDEIP---EPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPS--GFTFSILLSTVS---SACH  162 (640)
Q Consensus        94 ---~~~~~~A~~~~~~~~---~~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~t~~~ll~~~~---~~~~  162 (640)
                         ...+..+..++...-   ..+++..+.|.+-|.-.|++..+..+...+......-.  ...|-.+-++..   +++.
T Consensus       246 ~~d~~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ek  325 (1018)
T KOG2002|consen  246 FNDSDSYKKGVQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEK  325 (1018)
T ss_pred             ccchHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHH
Confidence               223445555555433   36788899999999999999999999999887532111  122333333333   8899


Q ss_pred             HHHHHHHHHHhCCCCCc-hhHHHHHHHhhhcCCChHHHHHHHhccCCCC---eeeHHHHHHHHHhcC----ChhHHHHHH
Q 006580          163 GKQIHGSMIRSGLSLSN-VVLGNSLIDMYGKLGVLYYAFGVFLNMEELD---IISWNSLISGCFNSG----YGELALDQF  234 (640)
Q Consensus       163 a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~~----~~~~A~~~~  234 (640)
                      |..++.+..+..  +.+ ...+-.|..+|.+.|+.+.+...|+.+....   ..+...|...|...+    ..+.|..++
T Consensus       326 A~~yY~~s~k~~--~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l  403 (1018)
T KOG2002|consen  326 AFKYYMESLKAD--NDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVL  403 (1018)
T ss_pred             HHHHHHHHHccC--CCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHH
Confidence            999998888873  444 5566788899999999999999999987432   334444445555443    346666666


Q ss_pred             HHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHH----HHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC
Q 006580          235 YSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALS----VKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRW  310 (640)
Q Consensus       235 ~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  310 (640)
                      .+....- +.|...|..+...+... +...+..+|..+    ...+-++.+.+.|.+...+...|++++|...|+.....
T Consensus       404 ~K~~~~~-~~d~~a~l~laql~e~~-d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~  481 (1018)
T KOG2002|consen  404 GKVLEQT-PVDSEAWLELAQLLEQT-DPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGK  481 (1018)
T ss_pred             HHHHhcc-cccHHHHHHHHHHHHhc-ChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhh
Confidence            6665532 33455666665555544 433336555544    34566688899999999999999999999999876532


Q ss_pred             -------Ch------hhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC--CChHHHHHHHHHHHHh
Q 006580          311 -------DY------AVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI--PPVEHGSQFHSMAIKS  375 (640)
Q Consensus       311 -------~~------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~--~~~~~a~~~~~~~~~~  375 (640)
                             +.      .+-..+...+-..++++.|.+.|..+.+.  .|.-++--.-+.++++  +...+|...+..+...
T Consensus       482 ~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~  559 (1018)
T KOG2002|consen  482 LLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNI  559 (1018)
T ss_pred             hhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhc
Confidence                   22      12233555666778999999999999885  5665544444434444  8888888888887765


Q ss_pred             CCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC-----CCChhHHHHHHHHHHh------------CCChHHHHHHHHHH
Q 006580          376 GFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD-----KRDLVSWNTIMMGLTQ------------NGRAAETLDVFEEL  438 (640)
Q Consensus       376 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~------------~g~~~~a~~~~~~m  438 (640)
                      + ..++...+.+...|.+...+..|..-|..+.     .+|+.+.-+|...|.+            .+..++|+++|.+.
T Consensus       560 d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kv  638 (1018)
T KOG2002|consen  560 D-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKV  638 (1018)
T ss_pred             c-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHH
Confidence            4 4555566667778888888888888666554     2355555455554432            34578899999998


Q ss_pred             HHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC----CCCC
Q 006580          439 LEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP----FQPG  514 (640)
Q Consensus       439 ~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~  514 (640)
                      +... +-|..+-+.+.-.++..|++..|..+|..+.+.  ..-...+|-.+.++|..+|++..|+++|+...    .+.+
T Consensus       639 L~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa--~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~  715 (1018)
T KOG2002|consen  639 LRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREA--TSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNR  715 (1018)
T ss_pred             HhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHH--HhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCC
Confidence            8852 446667777888889999999999999999885  23455678899999999999999999999876    3447


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhc-------------------CChHHHHHHHHHH
Q 006580          515 CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMR-------------------GRWEAIVRVKKVM  575 (640)
Q Consensus       515 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-------------------g~~~~a~~~~~~m  575 (640)
                      ..+.+.|..++...|++.+|.+.+..++...|.++..-.+++-...+.                   +..+.|.++|..|
T Consensus       716 ~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~l  795 (1018)
T KOG2002|consen  716 SEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTEL  795 (1018)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHH
Confidence            889999999999999999999999999999998888777666555443                   3567788888888


Q ss_pred             HhCCCc
Q 006580          576 RKNGIN  581 (640)
Q Consensus       576 ~~~~~~  581 (640)
                      ...+-+
T Consensus       796 s~~~d~  801 (1018)
T KOG2002|consen  796 SKNGDK  801 (1018)
T ss_pred             HhcCCC
Confidence            887654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.84  E-value=1.8e-16  Score=170.81  Aligned_cols=367  Identities=8%  Similarity=-0.018  Sum_probs=222.3

Q ss_pred             CCchhHHHHHHHhhhcCCChHHHHHHHhccC---CCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHH
Q 006580          177 LSNVVLGNSLIDMYGKLGVLYYAFGVFLNME---ELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVI  253 (640)
Q Consensus       177 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll  253 (640)
                      +.+...+..+...+.+.|++++|..+++...   ..+...+..+...+...|++++|+..+++..+.  .|+...+..+.
T Consensus        46 ~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~--~P~~~~~~~la  123 (765)
T PRK10049         46 QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLVSG--APDKANLLALA  123 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            3445556666667777777777777777643   223445556666677777777777777777654  23222255566


Q ss_pred             HHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChh--------hHHHHHHHHH--
Q 006580          254 NACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYA--------VINVMISTYG--  323 (640)
Q Consensus       254 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--------~~~~li~~~~--  323 (640)
                      .++...|+.+.|...++.+++... .+...+..+..++...|..+.|+..++.... ++.        ....++....  
T Consensus       124 ~~l~~~g~~~~Al~~l~~al~~~P-~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~-~p~~~~~l~~~~~~~~~r~~~~~  201 (765)
T PRK10049        124 YVYKRAGRHWDELRAMTQALPRAP-QTQQYPTEYVQALRNNRLSAPALGAIDDANL-TPAEKRDLEADAAAELVRLSFMP  201 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCChHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHhhccc
Confidence            666677777777777777766642 2344445566666666777777776666554 111        1111111111  


Q ss_pred             ---hCCCh---HHHHHHHHHHhhC-CCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCch-HHHHHHHHHHHhcC
Q 006580          324 ---RYGFG---EVALELFQLMLRE-DIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNA-VVASSLMEMYAKTG  395 (640)
Q Consensus       324 ---~~~~~---~~a~~~~~~m~~~-~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g  395 (640)
                         ..+++   ++|++.++.+.+. ...|+..                              +.. ......+.++...|
T Consensus       202 ~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~------------------------------~~~~~a~~d~l~~Ll~~g  251 (765)
T PRK10049        202 TRSEKERYAIADRALAQYDALEALWHDNPDAT------------------------------ADYQRARIDRLGALLARD  251 (765)
T ss_pred             ccChhHHHHHHHHHHHHHHHHHhhcccCCccc------------------------------hHHHHHHHHHHHHHHHhh
Confidence               11112   3344444444432 1111110                              000 00001122334557


Q ss_pred             ChHHHHHHHHhCCCCC---hh-HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHhccCCHHHH
Q 006580          396 SIDSSTEIFVKLDKRD---LV-SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD-----RITLAAVLLACNYGGFVDKG  466 (640)
Q Consensus       396 ~~~~A~~~~~~~~~~~---~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-----~~~~~~ll~~~~~~~~~~~A  466 (640)
                      ++++|...|+.+.+.+   +. ....+...|...|++++|+..|+++...  .|.     ......+..++...|++++|
T Consensus       252 ~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~--~p~~~~~~~~~~~~L~~a~~~~g~~~eA  329 (765)
T PRK10049        252 RYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYH--PETIADLSDEELADLFYSLLESENYPGA  329 (765)
T ss_pred             hHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhc--CCCCCCCChHHHHHHHHHHHhcccHHHH
Confidence            7788888887776421   11 1122456777788888888888887653  222     23445556667778888888


Q ss_pred             HHHHHHhHHhhC----------CCCC---hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCCh
Q 006580          467 MLVFSAMKEEYG----------VMPG---EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDV  531 (640)
Q Consensus       467 ~~~~~~~~~~~~----------~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~  531 (640)
                      .+.++.+.....          -.|+   ...+..+...+...|++++|++.++++. ..| +...+..+...+...|++
T Consensus       330 ~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~  409 (765)
T PRK10049        330 LTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWP  409 (765)
T ss_pred             HHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCH
Confidence            888887765310          0122   1234556677788888888888888876 344 677888888888888888


Q ss_pred             HHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          532 KLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       532 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ++|++.++++++.+|+++..+..++..+...|++++|+.+++.+.+..
T Consensus       410 ~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~  457 (765)
T PRK10049        410 RAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVARE  457 (765)
T ss_pred             HHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            888888888888888888888888888888888888888888887653

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.84  E-value=2.3e-18  Score=173.25  Aligned_cols=270  Identities=14%  Similarity=0.083  Sum_probs=177.6

Q ss_pred             CCchhHHHHHHHhhhcCCChHHHHHHHhccCCC-C------eeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchH
Q 006580          177 LSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEEL-D------IISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTI  249 (640)
Q Consensus       177 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~------~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~  249 (640)
                      |.+..++..+...+...|++++|..+++.+... +      ...+..+...|.+.|++++|..+|+++.+. .+++..++
T Consensus        66 p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~  144 (389)
T PRK11788         66 PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDE-GDFAEGAL  144 (389)
T ss_pred             cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcC-CcchHHHH
Confidence            445556666666777777777777777665532 1      134566677777777777777777777653 22345567


Q ss_pred             HHHHHHHhccCCchHHHHHHHHHHHhCCCCch----hHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHH
Q 006580          250 SIVINACTKLRNLDKGKQVFALSVKVGFLSNS----IVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMISTY  322 (640)
Q Consensus       250 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~  322 (640)
                      ..++..+...|++++|.+.++.+.+.+..+..    ..+..+...+.+.|++++|...|+++.+   .+...+..+...+
T Consensus       145 ~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~  224 (389)
T PRK11788        145 QQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLA  224 (389)
T ss_pred             HHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHH
Confidence            77777777777777777777777665433221    1344566666777777777777776653   2344566667777


Q ss_pred             HhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHH
Q 006580          323 GRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTE  402 (640)
Q Consensus       323 ~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  402 (640)
                      .+.|++++|.+.|+++.+.+  |+                                .....++.++.+|.+.|++++|..
T Consensus       225 ~~~g~~~~A~~~~~~~~~~~--p~--------------------------------~~~~~~~~l~~~~~~~g~~~~A~~  270 (389)
T PRK11788        225 LAQGDYAAAIEALERVEEQD--PE--------------------------------YLSEVLPKLMECYQALGDEAEGLE  270 (389)
T ss_pred             HHCCCHHHHHHHHHHHHHHC--hh--------------------------------hHHHHHHHHHHHHHHcCCHHHHHH
Confidence            77777777777777776532  11                                112334556677777777777777


Q ss_pred             HHHhCC--CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc---cCCHHHHHHHHHHhHHhh
Q 006580          403 IFVKLD--KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNY---GGFVDKGMLVFSAMKEEY  477 (640)
Q Consensus       403 ~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~---~~~~~~A~~~~~~~~~~~  477 (640)
                      .++++.  .|+...+..++..+.+.|++++|..+++++.+.  .|+..++..++..+..   .|+.++++.+++.+.++ 
T Consensus       271 ~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~-  347 (389)
T PRK11788        271 FLRRALEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGE-  347 (389)
T ss_pred             HHHHHHHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHH-
Confidence            777765  355556677777788888888888888877773  6777777777766553   45777888888887776 


Q ss_pred             CCCCChh
Q 006580          478 GVMPGEE  484 (640)
Q Consensus       478 ~~~p~~~  484 (640)
                      ++.|++.
T Consensus       348 ~~~~~p~  354 (389)
T PRK11788        348 QLKRKPR  354 (389)
T ss_pred             HHhCCCC
Confidence            6666665

>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=99.83  E-value=1.3e-16  Score=169.09  Aligned_cols=418  Identities=11%  Similarity=-0.007  Sum_probs=269.8

Q ss_pred             HHHHHHHHhcCCChhHHHHHhccCC--CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchh
Q 006580           84 WNICLRGLLKSDNLDTALKVFDEIP--EPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSAC  161 (640)
Q Consensus        84 ~~~ll~~~~~~~~~~~A~~~~~~~~--~~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~  161 (640)
                      +......+.+.|++++|+..|++..  .|+...|..+..+|.+.|++++|+..++...+.                    
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l--------------------  189 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALEL--------------------  189 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHc--------------------
Confidence            4456777888999999999999876  377788889999999999999999999998875                    


Q ss_pred             HHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCe---eeHHHHHHHHHhcCChhHHHHHHHHhH
Q 006580          162 HGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDI---ISWNSLISGCFNSGYGELALDQFYSMR  238 (640)
Q Consensus       162 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~A~~~~~~m~  238 (640)
                                    .|.+...+..+..+|...|++++|...|......+.   .....++..+..    ..+........
T Consensus       190 --------------~p~~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l  251 (615)
T TIGR00990       190 --------------DPDYSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEIL  251 (615)
T ss_pred             --------------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHH
Confidence                          455666777777888888888888776654432111   111111111111    12222222222


Q ss_pred             HCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCch-hHHHHHHHH---HHhcCCHHHHHHHHHhcCCC----
Q 006580          239 YSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNS-IVLSATIDL---FSKCNRLEDSVRLFEQLDRW----  310 (640)
Q Consensus       239 ~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~---~~~~g~~~~A~~~~~~~~~~----  310 (640)
                      +.. +++...+..+.. +...........-+....+  ..+.. ..+..+...   ....+++++|.+.|+...+.    
T Consensus       252 ~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~  327 (615)
T TIGR00990       252 ETK-PENLPSVTFVGN-YLQSFRPKPRPAGLEDSNE--LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLG  327 (615)
T ss_pred             hcC-CCCCCCHHHHHH-HHHHccCCcchhhhhcccc--cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCC
Confidence            211 111122222211 1111111111111111100  01110 001111111   12235677777777766532    


Q ss_pred             --ChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCCh-hhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHH
Q 006580          311 --DYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTE-FTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASS  386 (640)
Q Consensus       311 --~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~  386 (640)
                        ....|+.+...+...|++++|+..|++..+.  .|+. ..|..+...+.. |+++.|...++.+.+.. +.+..++..
T Consensus       328 ~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~  404 (615)
T TIGR00990       328 EKEAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYH  404 (615)
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence              2345666666777777777777777777664  3442 234444444444 77777777777776653 455677888


Q ss_pred             HHHHHHhcCChHHHHHHHHhCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCH
Q 006580          387 LMEMYAKTGSIDSSTEIFVKLDK--R-DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFV  463 (640)
Q Consensus       387 l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  463 (640)
                      +...+...|++++|...|++..+  | +...+..+...+.+.|++++|+..|++.... .+.+...+..+...+...|++
T Consensus       405 lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~  483 (615)
T TIGR00990       405 RAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKF  483 (615)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCH
Confidence            88999999999999999998873  3 5667888888999999999999999999874 233456888888999999999


Q ss_pred             HHHHHHHHHhHHhhCCCCCh-h-------HHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHH
Q 006580          464 DKGMLVFSAMKEEYGVMPGE-E-------HYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKL  533 (640)
Q Consensus       464 ~~A~~~~~~~~~~~~~~p~~-~-------~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~  533 (640)
                      ++|+..|+...+.   .|+. .       .++.....+...|++++|.+++++.. ..| +...+..+...+...|++++
T Consensus       484 ~~A~~~~~~Al~l---~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~e  560 (615)
T TIGR00990       484 DEAIEKFDTAIEL---EKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDE  560 (615)
T ss_pred             HHHHHHHHHHHhc---CCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHH
Confidence            9999999998753   2321 1       12222233445799999999999875 556 45678999999999999999


Q ss_pred             HHHHHHHHHhcCCCChh
Q 006580          534 TENVAERMMDLQLPSPL  550 (640)
Q Consensus       534 a~~~~~~~~~~~p~~~~  550 (640)
                      |...++++.++.+....
T Consensus       561 Ai~~~e~A~~l~~~~~e  577 (615)
T TIGR00990       561 ALKLFERAAELARTEGE  577 (615)
T ss_pred             HHHHHHHHHHHhccHHH
Confidence            99999999999765433

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.83  E-value=8.5e-17  Score=169.55  Aligned_cols=350  Identities=12%  Similarity=-0.019  Sum_probs=269.0

Q ss_pred             cCCChHHHHHHHhccCCC------CeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHH
Q 006580          192 KLGVLYYAFGVFLNMEEL------DIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKG  265 (640)
Q Consensus       192 ~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a  265 (640)
                      +..+++.-.-.|..-.+.      +......++..+.+.|++++|..+++........ +...+..++.+....|+++.|
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~A   95 (656)
T PRK15174         17 KQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDAV   95 (656)
T ss_pred             hhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHHH
Confidence            445555555555554421      2334456778889999999999999999875422 334555666777789999999


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCC
Q 006580          266 KQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLRED  342 (640)
Q Consensus       266 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  342 (640)
                      ...++.+.+.. +.+...+..+...+...|++++|...+++..+   .+...+..+...+...|++++|...++.+....
T Consensus        96 ~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~  174 (656)
T PRK15174         96 LQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEV  174 (656)
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC
Confidence            99999998875 34566788889999999999999999998865   356678889999999999999999999887654


Q ss_pred             CCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHH
Q 006580          343 IRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTI  418 (640)
Q Consensus       343 ~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l  418 (640)
                      ..+....+ .+ ..+.. |++++|...++.+.+....++......+...+.+.|++++|...|++...   .+...+..+
T Consensus       175 P~~~~a~~-~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~L  252 (656)
T PRK15174        175 PPRGDMIA-TC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSL  252 (656)
T ss_pred             CCCHHHHH-HH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            33322222 22 23445 99999999998887765444455555667788899999999999998773   356778888


Q ss_pred             HHHHHhCCChHH----HHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHH
Q 006580          419 MMGLTQNGRAAE----TLDVFEELLEEGLPPD-RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLL  493 (640)
Q Consensus       419 i~~~~~~g~~~~----a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~  493 (640)
                      ...+...|++++    |+..|++..+.  .|+ ...+..+...+...|++++|+..+++..+.  -+.+...+..+..++
T Consensus       253 g~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l  328 (656)
T PRK15174        253 GLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARAL  328 (656)
T ss_pred             HHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            999999999986    89999999884  454 457888889999999999999999998864  233456777888999


Q ss_pred             HhcCChHHHHHHHHhCC-CCCCHH-HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCh
Q 006580          494 CQAGQLGKAIDITSTMP-FQPGCS-IWESILRASAIYGDVKLTENVAERMMDLQLPSP  549 (640)
Q Consensus       494 ~~~g~~~~A~~~~~~~~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  549 (640)
                      .+.|++++|.+.++++. ..|+.. .+..+..++...|+.++|...++++++..|.+.
T Consensus       329 ~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        329 RQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL  386 (656)
T ss_pred             HHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence            99999999999999887 566543 344456778899999999999999999988653

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.82  E-value=2.9e-15  Score=158.13  Aligned_cols=439  Identities=11%  Similarity=0.035  Sum_probs=285.6

Q ss_pred             HHHHHHHHHccCCchHHHHHHhcCCCCChh---hHHHHHHHHhcCCChhHHHHHhccCCCCCcchHH-HH--HHHHHhCC
Q 006580           53 GNRCLDLYSRFGTSDDVLQLFDEIPQKNCI---SWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWN-SM--ISGYASCG  126 (640)
Q Consensus        53 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~y~-~l--i~~~~~~~  126 (640)
                      |...+ ...+.|+++.|+..|++..+.++.   ....++..+...|+.++|+..+++...|+...+. .+  ...+...|
T Consensus        38 y~~ai-i~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~g  116 (822)
T PRK14574         38 YDSLI-IRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEK  116 (822)
T ss_pred             HHHHH-HHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcC
Confidence            33333 345889999999999888763322   2337777788889999999999988876544443 33  44677789


Q ss_pred             ChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhcc
Q 006580          127 YSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNM  206 (640)
Q Consensus       127 ~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  206 (640)
                      ++++|+++|+++.+.                                  .|.+...+..++..+...++.++|+..++.+
T Consensus       117 dyd~Aiely~kaL~~----------------------------------dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l  162 (822)
T PRK14574        117 RWDQALALWQSSLKK----------------------------------DPTNPDLISGMIMTQADAGRGGVVLKQATEL  162 (822)
T ss_pred             CHHHHHHHHHHHHhh----------------------------------CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHh
Confidence            999999999999886                                  5667777778888889999999999999998


Q ss_pred             CCCCeeeHHHHHHHHHh--cCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHH
Q 006580          207 EELDIISWNSLISGCFN--SGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVL  284 (640)
Q Consensus       207 ~~~~~~~~~~li~~~~~--~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  284 (640)
                      ...+......+..++..  .++..+|+..++++.+.. +-+...+..+..++.+.|-...|.++...      .|+.++-
T Consensus       163 ~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~------~p~~f~~  235 (822)
T PRK14574        163 AERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKE------NPNLVSA  235 (822)
T ss_pred             cccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHh------CccccCH
Confidence            85544333334444444  455556899999988753 22445567777778888887777766543      2222221


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCC---hHHHHHHHHHHhhC-CCCCCh-hhH-H---HHHh
Q 006580          285 SATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGF---GEVALELFQLMLRE-DIRPTE-FTL-S---CVLS  355 (640)
Q Consensus       285 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~-~~~p~~-~t~-~---~~l~  355 (640)
                      ......     +.+.|.+..+....++.          ....+   .+.|+.-++.+... +..|.. ..| .   -.+.
T Consensus       236 ~~~~~l-----~~~~~a~~vr~a~~~~~----------~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~  300 (822)
T PRK14574        236 EHYRQL-----ERDAAAEQVRMAVLPTR----------SETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLG  300 (822)
T ss_pred             HHHHHH-----HHHHHHHHHhhcccccc----------cchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHH
Confidence            111110     11222222222111100          00112   24455555555542 222322 211 1   2223


Q ss_pred             hCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCC---------ChhHHHHHHHHHHhC
Q 006580          356 SIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKR---------DLVSWNTIMMGLTQN  425 (640)
Q Consensus       356 ~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---------~~~~~~~li~~~~~~  425 (640)
                      ++.. +....+...++.+...+.+....+-..+.++|...+.+++|..+|..+..+         +......|.-+|...
T Consensus       301 aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~  380 (822)
T PRK14574        301 ALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNES  380 (822)
T ss_pred             HHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhc
Confidence            3444 788888888888888776655667777888888888888888888877531         222346677788888


Q ss_pred             CChHHHHHHHHHHHHCCC-----------CC--CHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHH
Q 006580          426 GRAAETLDVFEELLEEGL-----------PP--DRI-TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIID  491 (640)
Q Consensus       426 g~~~~a~~~~~~m~~~g~-----------~p--~~~-~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  491 (640)
                      +++++|..+++++.+...           .|  |-. .+..++..+...|++.+|++.++++..  ..+-|......+.+
T Consensus       381 e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~--~aP~n~~l~~~~A~  458 (822)
T PRK14574        381 EQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSS--TAPANQNLRIALAS  458 (822)
T ss_pred             ccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHH
Confidence            888888888888887311           12  222 233445667778888888888888865  44566777778888


Q ss_pred             HHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChh
Q 006580          492 LLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPL  550 (640)
Q Consensus       492 ~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  550 (640)
                      .+...|.+.+|++.++... ..| +..+....+.++...+++++|..+.+.+++..|+++.
T Consensus       459 v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~  519 (822)
T PRK14574        459 IYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRSPEDIP  519 (822)
T ss_pred             HHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCchh
Confidence            8888888888888887765 555 4556677777777788888888888888888887763

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.81  E-value=1.9e-15  Score=138.36  Aligned_cols=326  Identities=14%  Similarity=0.120  Sum_probs=218.8

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHc--cCCch-HHHHHHhcCCC---CChhhHHHHHHH
Q 006580           17 YCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSR--FGTSD-DVLQLFDEIPQ---KNCISWNICLRG   90 (640)
Q Consensus        17 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~--~~~~~-~a~~~~~~~~~---~~~~~~~~ll~~   90 (640)
                      +=++|++.- .+|.++.+.-+++.|.+.|++.++.+--.|+..-+-  +.++. .-++-|-.|..   .+..+|      
T Consensus       118 ~E~nL~kmI-S~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sW------  190 (625)
T KOG4422|consen  118 TENNLLKMI-SSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSW------  190 (625)
T ss_pred             chhHHHHHH-hhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccc------
Confidence            445665544 478999999999999999999998887777765443  22222 22344444443   233333      


Q ss_pred             HhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHH
Q 006580           91 LLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSM  170 (640)
Q Consensus        91 ~~~~~~~~~A~~~~~~~~~~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~  170 (640)
                        +.|++.+   ++-+....+..+|..||.++++--..+.|.++|++..+...+.+..+|+.+|.+.. +...+.+..+|
T Consensus       191 --K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S-~~~~K~Lv~EM  264 (625)
T KOG4422|consen  191 --KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASS-YSVGKKLVAEM  264 (625)
T ss_pred             --ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHH-hhccHHHHHHH
Confidence              3455544   44455556778999999999999999999999999999988999999999998876 12227778888


Q ss_pred             HHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHH
Q 006580          171 IRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTIS  250 (640)
Q Consensus       171 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~  250 (640)
                      +... ..||..++|+++.+..+.|+++.|.+.                           |++++.+|++-|+.|...+|.
T Consensus       265 isqk-m~Pnl~TfNalL~c~akfg~F~~ar~a---------------------------alqil~EmKeiGVePsLsSyh  316 (625)
T KOG4422|consen  265 ISQK-MTPNLFTFNALLSCAAKFGKFEDARKA---------------------------ALQILGEMKEIGVEPSLSSYH  316 (625)
T ss_pred             HHhh-cCCchHhHHHHHHHHHHhcchHHHHHH---------------------------HHHHHHHHHHhCCCcchhhHH
Confidence            8877 777777777777777777776665543                           456666777777777777777


Q ss_pred             HHHHHHhccCCchHH-HHHHHHHHH----hCCC----CchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--------C---
Q 006580          251 IVINACTKLRNLDKG-KQVFALSVK----VGFL----SNSIVLSATIDLFSKCNRLEDSVRLFEQLDR--------W---  310 (640)
Q Consensus       251 ~ll~~~~~~~~~~~a-~~~~~~~~~----~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~---  310 (640)
                      .+|..+++.++..+. ..++.++..    ..++    .|...|..-+..|.+..+.+-|..+-.-+..        +   
T Consensus       317 ~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~  396 (625)
T KOG4422|consen  317 LIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQH  396 (625)
T ss_pred             HHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHH
Confidence            777766666665432 222222222    1122    1334455556666666666666555443322        1   


Q ss_pred             ChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHH
Q 006580          311 DYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVV  383 (640)
Q Consensus       311 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~  383 (640)
                      ...-|..+....|+....+.-+..|+.|.-.-+-|+..+...++.+... +.++-..+++..++..|...+...
T Consensus       397 ~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l  470 (625)
T KOG4422|consen  397 RNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDL  470 (625)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHH
Confidence            1223555666777777788888888888877777888888888887777 888888888877777664444333

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.81  E-value=2.9e-16  Score=165.54  Aligned_cols=352  Identities=11%  Similarity=-0.014  Sum_probs=274.4

Q ss_pred             HhcCChhHHHHHHHHhHHC--CCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHH
Q 006580          222 FNSGYGELALDQFYSMRYS--GYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLED  299 (640)
Q Consensus       222 ~~~~~~~~A~~~~~~m~~~--g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  299 (640)
                      .+..+|+.-.-+|..-.++  .-.-+......++..+.+.|+++.|..+++..+.....+ ......++.+....|+++.
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~-~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNG-RDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCc-hhHHHHHhhhHhhcCCHHH
Confidence            4455555544444443221  111233456667788899999999999999999886544 3444555567778999999


Q ss_pred             HHHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChh-hHHHHHhhCCC-CChHHHHHHHHHHHH
Q 006580          300 SVRLFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEF-TLSCVLSSIPI-PPVEHGSQFHSMAIK  374 (640)
Q Consensus       300 A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-t~~~~l~~~~~-~~~~~a~~~~~~~~~  374 (640)
                      |...|+++..   .+...|..+...+.+.|++++|...+++..+.  .|+.. .+..+...+.. |+.+.|...+..+..
T Consensus        95 A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~  172 (656)
T PRK15174         95 VLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQAQ  172 (656)
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence            9999999875   35567888899999999999999999999874  56544 44555556666 999999999998877


Q ss_pred             hCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCC----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHH
Q 006580          375 SGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKR----DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITL  450 (640)
Q Consensus       375 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  450 (640)
                      .... +...+..+ ..+.+.|++++|...++.+.+.    +...+..+..++...|++++|+..++++.+.. +.+...+
T Consensus       173 ~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~  249 (656)
T PRK15174        173 EVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALR  249 (656)
T ss_pred             hCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHH
Confidence            6533 33333333 3478899999999999987642    23344556678899999999999999999853 3345677


Q ss_pred             HHHHHHHhccCCHHH----HHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHH
Q 006580          451 AAVLLACNYGGFVDK----GMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRA  524 (640)
Q Consensus       451 ~~ll~~~~~~~~~~~----A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~  524 (640)
                      ..+...+...|++++    |...+++..+.  .+.+...+..+...+.+.|++++|...+++.. ..| +...+..+...
T Consensus       250 ~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~  327 (656)
T PRK15174        250 RSLGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARA  327 (656)
T ss_pred             HHHHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            788889999999986    89999988863  23456788999999999999999999999987 556 56788889999


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 006580          525 SAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGIN  581 (640)
Q Consensus       525 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  581 (640)
                      +...|++++|...++++.+.+|.++..+..++.++...|++++|...+++..+...+
T Consensus       328 l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        328 LRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChh
Confidence            999999999999999999999988877777888999999999999999999876543

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

Probab=99.81  E-value=2.4e-15  Score=151.72  Aligned_cols=415  Identities=14%  Similarity=0.055  Sum_probs=250.9

Q ss_pred             chhHHHHHHHHHHHhCCCC--CchhHHHHHHHhhhcCCChHHHHHHHhccCCC--Ce--eeHHHHHHHHHhcCChhHHHH
Q 006580          159 SACHGKQIHGSMIRSGLSL--SNVVLGNSLIDMYGKLGVLYYAFGVFLNMEEL--DI--ISWNSLISGCFNSGYGELALD  232 (640)
Q Consensus       159 ~~~~a~~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~--~~~~~li~~~~~~~~~~~A~~  232 (640)
                      +...+..+...++... ..  .-...|--+.++|...|++++|...|..-.+.  |.  ..+--|.+.+.+.|+.+.+..
T Consensus       285 dy~~v~~la~~ai~~t-~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~  363 (1018)
T KOG2002|consen  285 DYERVWHLAEHAIKNT-ENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKF  363 (1018)
T ss_pred             cHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHH
Confidence            4555555555544442 10  11122444555555555555555555444421  11  222334455555555555555


Q ss_pred             HHHHhHHCCCCCCcchHHHHHHHHhccC----CchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 006580          233 QFYSMRYSGYSPDEYTISIVINACTKLR----NLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLD  308 (640)
Q Consensus       233 ~~~~m~~~g~~p~~~t~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  308 (640)
                      .|+..... .+-+..|..++...|+..+    ..+.|..++....+.- +.|...|..+...+...+-+ .++..|....
T Consensus       364 ~fEkv~k~-~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~-~sL~~~~~A~  440 (1018)
T KOG2002|consen  364 CFEKVLKQ-LPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPW-ASLDAYGNAL  440 (1018)
T ss_pred             HHHHHHHh-CcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChH-HHHHHHHHHH
Confidence            55555442 1122234444444444432    2333444443333332 23444555554444433222 1133332221


Q ss_pred             --------CCChhhHHHHHHHHHhCCChHHHHHHHHHHhhC---CCCCCh-----hhHHHHHhhCCC--CChHHHHHHHH
Q 006580          309 --------RWDYAVINVMISTYGRYGFGEVALELFQLMLRE---DIRPTE-----FTLSCVLSSIPI--PPVEHGSQFHS  370 (640)
Q Consensus       309 --------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~~-----~t~~~~l~~~~~--~~~~~a~~~~~  370 (640)
                              ...+...|.+...+...|++.+|...|......   ...+|.     .|....+..|..  ++.+.|...+.
T Consensus       441 d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk  520 (1018)
T KOG2002|consen  441 DILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYK  520 (1018)
T ss_pred             HHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHH
Confidence                    234556677777777788888888888777654   223333     233334444444  77888888888


Q ss_pred             HHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHC-CCCCC
Q 006580          371 MAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEE-GLPPD  446 (640)
Q Consensus       371 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~  446 (640)
                      .+.+.. |.-+..|-.+..+....+...+|...++...   ..++..++-+...+.+...+..|.+-|+...+. ...+|
T Consensus       521 ~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D  599 (1018)
T KOG2002|consen  521 SILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTD  599 (1018)
T ss_pred             HHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCc
Confidence            777753 2222222222222223356777777777766   356667777777888888888888877776653 22356


Q ss_pred             HHHHHHHHHHHhc------------cCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CC
Q 006580          447 RITLAAVLLACNY------------GGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQ  512 (640)
Q Consensus       447 ~~~~~~ll~~~~~------------~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~  512 (640)
                      ..+...|.+.|..            .+..++|+++|.++.+  .-+-|...-+.+.-.++..|++.+|..+|....  ..
T Consensus       600 ~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~--~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~  677 (1018)
T KOG2002|consen  600 AYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLR--NDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS  677 (1018)
T ss_pred             hhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHh--cCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHh
Confidence            6666666665542            2356778888888776  445667777888888999999999999998886  34


Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-CC-CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          513 PGCSIWESILRASAIYGDVKLTENVAERMMDL-QL-PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       513 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      .+..+|-.+...|...|++-.|+++|+...+. .+ .++.....|+.++.+.|++.+|.+.+...+...+
T Consensus       678 ~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p  747 (1018)
T KOG2002|consen  678 DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAP  747 (1018)
T ss_pred             hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            46678889999999999999999999999877 33 6788889999999999999999998888776554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.81  E-value=1.9e-15  Score=162.97  Aligned_cols=412  Identities=11%  Similarity=-0.035  Sum_probs=285.2

Q ss_pred             hhhhhhcCCCCChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCC---C
Q 006580            3 SYLKKAHVNKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ---K   79 (640)
Q Consensus         3 ~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~   79 (640)
                      .|+......+.++.-..-.+......|+.++|.+++....... +.+...+..+...+.+.|++++|.+++++..+   .
T Consensus         3 ~~~~~~~~~~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~   81 (765)
T PRK10049          3 SWLRQALKSALSNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQ   81 (765)
T ss_pred             hhhhhhhccCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            4566633455577778888888999999999999999988743 45556688899999999999999999999543   4


Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHhccCCC--C-CcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 006580           80 NCISWNICLRGLLKSDNLDTALKVFDEIPE--P-DVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLST  156 (640)
Q Consensus        80 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~--~-~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~  156 (640)
                      +...+..+...+.+.|++++|+..+++..+  | +.. +..+...+...|+.++|+..++++.+.               
T Consensus        82 ~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~---------------  145 (765)
T PRK10049         82 NDDYQRGLILTLADAGQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPR---------------  145 (765)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh---------------
Confidence            456677888888999999999999988763  3 445 788888889999999999999999886               


Q ss_pred             HhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCC-CCe------eeHHHHHHHHH-----hc
Q 006580          157 VSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEE-LDI------ISWNSLISGCF-----NS  224 (640)
Q Consensus       157 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~------~~~~~li~~~~-----~~  224 (640)
                                         .|.+...+..+...+...|..+.|+..++.... |+.      .....++....     ..
T Consensus       146 -------------------~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~  206 (765)
T PRK10049        146 -------------------APQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEK  206 (765)
T ss_pred             -------------------CCCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChh
Confidence                               556667777777888888888999988887775 110      01122222222     12


Q ss_pred             CCh---hHHHHHHHHhHHC-CCCCCcc-hHH----HHHHHHhccCCchHHHHHHHHHHHhCCC-CchhHHHHHHHHHHhc
Q 006580          225 GYG---ELALDQFYSMRYS-GYSPDEY-TIS----IVINACTKLRNLDKGKQVFALSVKVGFL-SNSIVLSATIDLFSKC  294 (640)
Q Consensus       225 ~~~---~~A~~~~~~m~~~-g~~p~~~-t~~----~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~  294 (640)
                      +++   ++|+..++.+.+. ...|+.. .+.    ..+..+...|++++|...|+.+.+.+.+ |+. ....+...|...
T Consensus       207 ~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~  285 (765)
T PRK10049        207 ERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKL  285 (765)
T ss_pred             HHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhc
Confidence            233   6788888888753 2233332 111    1133456678899999999998887632 222 223357788889


Q ss_pred             CCHHHHHHHHHhcCCCC-------hhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHH
Q 006580          295 NRLEDSVRLFEQLDRWD-------YAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQ  367 (640)
Q Consensus       295 g~~~~A~~~~~~~~~~~-------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~  367 (640)
                      |++++|+..|+++.+.+       ...+..+..++...|++++|.+.++.+.+.  .|.......   ..          
T Consensus       286 g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~--~P~~~~~~~---~~----------  350 (765)
T PRK10049        286 HQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINN--SPPFLRLYG---SP----------  350 (765)
T ss_pred             CCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhc--CCceEeecC---CC----------
Confidence            99999999988875422       123555666788889999999998888764  232111000   00          


Q ss_pred             HHHHHHHhCCCCc---hHHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 006580          368 FHSMAIKSGFDSN---AVVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEELLEE  441 (640)
Q Consensus       368 ~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  441 (640)
                              .-.|+   ...+..+...+...|++++|.++++++..   .+...+..+...+...|++++|++.+++....
T Consensus       351 --------~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l  422 (765)
T PRK10049        351 --------TSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVL  422 (765)
T ss_pred             --------CCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence                    00222   12334566677777888888888887662   35667777777888888888888888888773


Q ss_pred             CCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHh
Q 006580          442 GLPPDR-ITLAAVLLACNYGGFVDKGMLVFSAMKEE  476 (640)
Q Consensus       442 g~~p~~-~~~~~ll~~~~~~~~~~~A~~~~~~~~~~  476 (640)
                        .|+. ..+......+...|++++|..+++.+.+.
T Consensus       423 --~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        423 --EPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             --CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence              4554 45555556677778888888888887764

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.79  E-value=1.5e-14  Score=132.66  Aligned_cols=425  Identities=14%  Similarity=0.084  Sum_probs=268.0

Q ss_pred             cchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh-----chhHH-HHHHHHHHHhCCCCCchhHHHH
Q 006580          112 VVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS-----SACHG-KQIHGSMIRSGLSLSNVVLGNS  185 (640)
Q Consensus       112 ~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~-----~~~~a-~~~~~~~~~~~~~~~~~~~~~~  185 (640)
                      +.+=|.|++ ....|...++.-+|+.|...|+..+...-..+++..+     ++--+ .+-|-.|.+.|  ..+..+   
T Consensus       116 V~~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~--E~S~~s---  189 (625)
T KOG4422|consen  116 VETENNLLK-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG--EDSTSS---  189 (625)
T ss_pred             hcchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc--cccccc---
Confidence            445566666 4567889999999999999999888887777777666     11111 11222222222  111111   


Q ss_pred             HHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHH
Q 006580          186 LIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKG  265 (640)
Q Consensus       186 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a  265 (640)
                           .+.|.+.+   ++-+....+..++..+|.++|+--..+.|.+++++-.....+.+..+||.+|.+-.-..    .
T Consensus       190 -----WK~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~  257 (625)
T KOG4422|consen  190 -----WKSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----G  257 (625)
T ss_pred             -----cccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----c
Confidence                 13444433   55566666778999999999999999999999999999889999999999998765333    3


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCC
Q 006580          266 KQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRP  345 (640)
Q Consensus       266 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  345 (640)
                      .+++.+|....+.||..|+|+++.+..+.|+++.|...                           |++++.+|++.|+.|
T Consensus       258 K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~a---------------------------alqil~EmKeiGVeP  310 (625)
T KOG4422|consen  258 KKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKA---------------------------ALQILGEMKEIGVEP  310 (625)
T ss_pred             HHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHH---------------------------HHHHHHHHHHhCCCc
Confidence            78999999999999999999999999999998887654                           455666666666666


Q ss_pred             ChhhHHHHHhhCCC-CCh-HHHHHHHHHHHHh----CC----CCchHHHHHHHHHHHhcCChHHHHHHHHhCCC------
Q 006580          346 TEFTLSCVLSSIPI-PPV-EHGSQFHSMAIKS----GF----DSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK------  409 (640)
Q Consensus       346 ~~~t~~~~l~~~~~-~~~-~~a~~~~~~~~~~----~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------  409 (640)
                      .-.+|..+|.-+.+ ++. ..+..+...+...    .+    +.+...+..-+..|.+..+.+-|.++-.-...      
T Consensus       311 sLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~  390 (625)
T KOG4422|consen  311 SLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKF  390 (625)
T ss_pred             chhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhh
Confidence            66666666666655 333 3333333333321    11    22344455555666666666666555444331      


Q ss_pred             --C---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChh
Q 006580          410 --R---DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEE  484 (640)
Q Consensus       410 --~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~  484 (640)
                        +   ...-|..+....|+....+.-+..|+.|.-.-+-|+..+...++++....|.++-.-+++..++.- |...+..
T Consensus       391 ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~-ght~r~~  469 (625)
T KOG4422|consen  391 IGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEY-GHTFRSD  469 (625)
T ss_pred             cChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHh-hhhhhHH
Confidence              1   112344455556666666666677777766556666666666667666666666666666665553 4433333


Q ss_pred             HHHHHHHHHHhcC-Ch--------H-----HHHHHHH-------hCC-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 006580          485 HYACIIDLLCQAG-QL--------G-----KAIDITS-------TMP-FQPGCSIWESILRASAIYGDVKLTENVAERMM  542 (640)
Q Consensus       485 ~~~~l~~~~~~~g-~~--------~-----~A~~~~~-------~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  542 (640)
                      .-..+...+++.+ +.        .     -|..+++       ++. .+-....++..+-.+.+.|..++|.+++....
T Consensus       470 l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~  549 (625)
T KOG4422|consen  470 LREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFL  549 (625)
T ss_pred             HHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHH
Confidence            3333344444333 11        0     0111111       111 22345566667777778888888888888886


Q ss_pred             hcC---C--CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCcc
Q 006580          543 DLQ---L--PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINK  582 (640)
Q Consensus       543 ~~~---p--~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  582 (640)
                      ..+   |  |...+..-+.+.-...+..-.|..+++.|...+...
T Consensus       550 ~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~~~  594 (625)
T KOG4422|consen  550 RKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNLPI  594 (625)
T ss_pred             hcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCchh
Confidence            552   2  222233355556667788888888888887766533

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.78  E-value=4.3e-13  Score=129.62  Aligned_cols=539  Identities=11%  Similarity=0.040  Sum_probs=383.8

Q ss_pred             CChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCCCChhhHHHHHHHHhcCCChhHHHHHhccCC
Q 006580           29 KSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIP  108 (640)
Q Consensus        29 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~  108 (640)
                      ++...|+.++....+.+ +.++..|-+-...--..|.+..|..+...-.+..+.+-..-+.+ +|....+.|..+.....
T Consensus       265 ~DikKaR~llKSvretn-P~hp~gWIAsArLEEvagKl~~Ar~~I~~GCe~cprSeDvWLea-iRLhp~d~aK~vvA~Av  342 (913)
T KOG0495|consen  265 EDIKKARLLLKSVRETN-PKHPPGWIASARLEEVAGKLSVARNLIMKGCEECPRSEDVWLEA-IRLHPPDVAKTVVANAV  342 (913)
T ss_pred             HHHHHHHHHHHHHHhcC-CCCCchHHHHHHHHHHhhHHHHHHHHHHHHHhhCCchHHHHHHH-HhcCChHHHHHHHHHHH
Confidence            57778888898888887 55666676666666778888888888776554222222222222 24445555555555444


Q ss_pred             C--C-CcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHH
Q 006580          109 E--P-DVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNS  185 (640)
Q Consensus       109 ~--~-~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  185 (640)
                      .  | ++..|--.+   --..+...=.+++++.+++  -|+....--..-.+...+.|+.++...++.  +|.+...|.+
T Consensus       343 r~~P~Sv~lW~kA~---dLE~~~~~K~RVlRKALe~--iP~sv~LWKaAVelE~~~darilL~rAvec--cp~s~dLwlA  415 (913)
T KOG0495|consen  343 RFLPTSVRLWLKAA---DLESDTKNKKRVLRKALEH--IPRSVRLWKAAVELEEPEDARILLERAVEC--CPQSMDLWLA  415 (913)
T ss_pred             HhCCCChhhhhhHH---hhhhHHHHHHHHHHHHHHh--CCchHHHHHHHHhccChHHHHHHHHHHHHh--ccchHHHHHH
Confidence            3  2 222222221   1122334445677777765  344433322222222555688888888888  7877777766


Q ss_pred             HHHhhhcCCChHHHHHHHhccC---CCCeeeHHHHHHHHHhcCChhHHHHHHHH----hHHCCCCCCcchHHHHHHHHhc
Q 006580          186 LIDMYGKLGVLYYAFGVFLNME---ELDIISWNSLISGCFNSGYGELALDQFYS----MRYSGYSPDEYTISIVINACTK  258 (640)
Q Consensus       186 li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~----m~~~g~~p~~~t~~~ll~~~~~  258 (640)
                      |.    +..-++.|.++++...   ..+...|-+-...--.+|+.+....++.+    +...|+..+...|..=...|-.
T Consensus       416 la----rLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~  491 (913)
T KOG0495|consen  416 LA----RLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACED  491 (913)
T ss_pred             HH----HHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhh
Confidence            54    4456777777777665   34667777766666678888888777765    4556888888888888888888


Q ss_pred             cCCchHHHHHHHHHHHhCCCCc--hhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHH
Q 006580          259 LRNLDKGKQVFALSVKVGFLSN--SIVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMISTYGRYGFGEVALE  333 (640)
Q Consensus       259 ~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~  333 (640)
                      .|..-.+..+....+..|+...  ..++..-...|.+.+.++-|..+|....+   .+...|...+..--..|..++...
T Consensus       492 agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~A  571 (913)
T KOG0495|consen  492 AGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEA  571 (913)
T ss_pred             cCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHH
Confidence            8998888889888888887543  35778888889999999999999888765   355677777776677788888889


Q ss_pred             HHHHHhhCCCCCChh-hHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC--C
Q 006580          334 LFQLMLREDIRPTEF-TLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD--K  409 (640)
Q Consensus       334 ~~~~m~~~~~~p~~~-t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~  409 (640)
                      +|++....  .|... .|.......-. |++..|+.++..+.+.. +.+..++-+-+..-.....++.|..+|.+..  .
T Consensus       572 llqkav~~--~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~s  648 (913)
T KOG0495|consen  572 LLQKAVEQ--CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSIS  648 (913)
T ss_pred             HHHHHHHh--CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhccC
Confidence            99988875  33332 23222222333 99999999999988876 4477778888888888999999999998877  5


Q ss_pred             CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHH
Q 006580          410 RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI-TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYAC  488 (640)
Q Consensus       410 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~  488 (640)
                      ++...|..-+....-.++.++|++++++.++.  -|+.. .|..+.+.+-+.++.+.|...|..=.+  ..+..+..|-.
T Consensus       649 gTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k--~cP~~ipLWll  724 (913)
T KOG0495|consen  649 GTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK--KCPNSIPLWLL  724 (913)
T ss_pred             CcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc--cCCCCchHHHH
Confidence            77778877777777788999999999988884  56654 677777888888899999888876543  44555667777


Q ss_pred             HHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCh-----------------
Q 006580          489 IIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSP-----------------  549 (640)
Q Consensus       489 l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-----------------  549 (640)
                      |.+.-.+.|++-+|..++++.. ..| +...|-..+..-.+.|+.+.|..+..++++..|.+.                 
T Consensus       725 LakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkT  804 (913)
T KOG0495|consen  725 LAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKT  804 (913)
T ss_pred             HHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccch
Confidence            8888888889999999998876 344 788899999999999999999999888888776543                 


Q ss_pred             -------------hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCceeeE
Q 006580          550 -------------LPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWI  589 (640)
Q Consensus       550 -------------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  589 (640)
                                   .....++..+....++++|.+.|.+..+.+  ++-|..|.
T Consensus       805 ks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d--~d~GD~wa  855 (913)
T KOG0495|consen  805 KSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD--PDNGDAWA  855 (913)
T ss_pred             HHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC--CccchHHH
Confidence                         345566777788888899999998887755  45565554

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.78  E-value=9.9e-16  Score=141.18  Aligned_cols=502  Identities=12%  Similarity=0.073  Sum_probs=297.9

Q ss_pred             HHHHHHHhhcCCChHHHHHHHHHHHHh----CCCCchhhHHHHHHHHHccCCchHHHHHHhcCCC----CChh-hHHHHH
Q 006580           18 CSQLIDRCLSFKSFDFAKTIHGHLFKL----GFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ----KNCI-SWNICL   88 (640)
Q Consensus        18 ~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~-~~~~ll   88 (640)
                      |-..|.-.-..|+-+.+.--+.+-...    ++..+-.+...|..-|.......+|+..++-+.+    ||.- .--.+.
T Consensus       165 ~k~aldkakdagrker~lvk~req~~~~e~inldltfsvl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnig  244 (840)
T KOG2003|consen  165 FKEALDKAKDAGRKERALVKHREQQGLPEMINLDLTFSVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIG  244 (840)
T ss_pred             HHHHHHHHHhcchhHHHHHHHHHhccchhhccccchHHHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeec
Confidence            333444444455555544333322211    1223333444555556666666677776666654    2221 111234


Q ss_pred             HHHhcCCChhHHHHHhccCCC--CC------cchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhh-HHHHHHHHh-
Q 006580           89 RGLLKSDNLDTALKVFDEIPE--PD------VVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFT-FSILLSTVS-  158 (640)
Q Consensus        89 ~~~~~~~~~~~A~~~~~~~~~--~~------~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t-~~~ll~~~~-  158 (640)
                      +.+.+.+.+.+|++.++....  |+      +...+-+...+.+.|+++.|+.-|+...+.  .|+..+ ++..+.+++ 
T Consensus       245 ni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i  322 (840)
T KOG2003|consen  245 NIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAI  322 (840)
T ss_pred             ceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheec
Confidence            445566666677666654331  21      122333344456677777777777766554  455433 444444444 


Q ss_pred             -chhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHH-----HHHHHHHhcC--ChhHH
Q 006580          159 -SACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWN-----SLISGCFNSG--YGELA  230 (640)
Q Consensus       159 -~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-----~li~~~~~~~--~~~~A  230 (640)
                       +.+..++.|..++..-..+. ..-       |.+..+            .|+....|     ..++-.-+.+  +.+++
T Consensus       323 ~d~ekmkeaf~kli~ip~~~d-ddk-------yi~~~d------------dp~~~ll~eai~nd~lk~~ek~~ka~aek~  382 (840)
T KOG2003|consen  323 GDAEKMKEAFQKLIDIPGEID-DDK-------YIKEKD------------DPDDNLLNEAIKNDHLKNMEKENKADAEKA  382 (840)
T ss_pred             CcHHHHHHHHHHHhcCCCCCC-ccc-------ccCCcC------------CcchHHHHHHHhhHHHHHHHHhhhhhHHHH
Confidence             66666666666665431211 110       111100            11111111     1111111111  12223


Q ss_pred             HHHHHHhHHCCCCCCcc-hHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 006580          231 LDQFYSMRYSGYSPDEY-TISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR  309 (640)
Q Consensus       231 ~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  309 (640)
                      +-.--+++.--+.||-. .+..-+..+-.+...+.|.++  +             ..-...|.+.|+++.|+++++-..+
T Consensus       383 i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dl--e-------------i~ka~~~lk~~d~~~aieilkv~~~  447 (840)
T KOG2003|consen  383 IITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDL--E-------------INKAGELLKNGDIEGAIEILKVFEK  447 (840)
T ss_pred             HHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhh--h-------------hhHHHHHHhccCHHHHHHHHHHHHh
Confidence            22222333222333322 122222222222222222211  0             1122357788999999998888877


Q ss_pred             CChhhHHHHHH-----HHHh-CCChHHHHHHHHHHhhCCCCCChhhHHHHH----hhCCCCChHHHHHHHHHHHHhCCCC
Q 006580          310 WDYAVINVMIS-----TYGR-YGFGEVALELFQLMLREDIRPTEFTLSCVL----SSIPIPPVEHGSQFHSMAIKSGFDS  379 (640)
Q Consensus       310 ~~~~~~~~li~-----~~~~-~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l----~~~~~~~~~~a~~~~~~~~~~~~~~  379 (640)
                      .|..+-++...     -|.+ ..++..|.+.-+.....    |.+.-..+.    .++..|++++|...+.+.....-..
T Consensus       448 kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~----dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc  523 (840)
T KOG2003|consen  448 KDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNI----DRYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASC  523 (840)
T ss_pred             ccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcc----cccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHH
Confidence            66554333222     2222 23455555544443322    111111111    1234499999999999998776555


Q ss_pred             chHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 006580          380 NAVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLA  456 (640)
Q Consensus       380 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  456 (640)
                      ....|| +.-.+-..|++++|++.|-++.   ..++.....+...|-...++.+|++++-+..+. ++.|+..+.-|...
T Consensus       524 ~ealfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dl  601 (840)
T KOG2003|consen  524 TEALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADL  601 (840)
T ss_pred             HHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHH
Confidence            555555 3345677899999999998775   567777888888999999999999999887764 55567788889999


Q ss_pred             HhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCHHHHHHHHHHHH-HcCChHHH
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPGCSIWESILRASA-IYGDVKLT  534 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~-~~~~~~~a  534 (640)
                      |-+.|+-.+|.+.+-.--+  -++-+..+..-|..-|....-+++|+.+|++.. +.|+..-|..++..|. +.|++.+|
T Consensus       602 ydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqka  679 (840)
T KOG2003|consen  602 YDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQKA  679 (840)
T ss_pred             hhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHHH
Confidence            9999999999998765433  456678888889999999999999999999987 8999999999998885 58999999


Q ss_pred             HHHHHHHHhcCCCChhHHHHHHHHHHhcCC
Q 006580          535 ENVAERMMDLQLPSPLPYSLLTQAYAMRGR  564 (640)
Q Consensus       535 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  564 (640)
                      .++|+......|.+..+..-|..++...|.
T Consensus       680 ~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  680 FDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            999999999999999999999998887774

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.75  E-value=8.7e-14  Score=147.11  Aligned_cols=434  Identities=9%  Similarity=0.010  Sum_probs=313.3

Q ss_pred             HHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCCCChh-hHHHH--HHHHhcCCChhH
Q 006580           23 DRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCI-SWNIC--LRGLLKSDNLDT   99 (640)
Q Consensus        23 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~l--l~~~~~~~~~~~   99 (640)
                      -...+.|++..|...+++..+....-.+.++ .++..+...|+.++|...+++...|+.. .+..+  ...+...|++++
T Consensus        42 ii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~  120 (822)
T PRK14574         42 IIRARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQ  120 (822)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHH
Confidence            3446789999999999999987622223444 8888899999999999999999876444 34444  457778899999


Q ss_pred             HHHHhccCCC---CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh---chhHHHHHHHHHHHh
Q 006580          100 ALKVFDEIPE---PDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS---SACHGKQIHGSMIRS  173 (640)
Q Consensus       100 A~~~~~~~~~---~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~---~~~~a~~~~~~~~~~  173 (640)
                      |+++|+++.+   .++..+..++..+...++.++|++.++++...  .|+...+..+.....   +...|.+.++++++.
T Consensus       121 Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~  198 (822)
T PRK14574        121 ALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRL  198 (822)
T ss_pred             HHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHh
Confidence            9999999884   34566778888999999999999999999875  566666644433332   454699999999999


Q ss_pred             CCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCC-CeeeH----HHHHHHHH---------hcCC---hhHHHHHHHH
Q 006580          174 GLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEEL-DIISW----NSLISGCF---------NSGY---GELALDQFYS  236 (640)
Q Consensus       174 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~----~~li~~~~---------~~~~---~~~A~~~~~~  236 (640)
                        .|.+...+..++..+.+.|-...|.++...-+.- +...+    ...+.-.+         ...+   .+.|+.-++.
T Consensus       199 --~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~  276 (822)
T PRK14574        199 --APTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQN  276 (822)
T ss_pred             --CCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHH
Confidence              7889999999999999999999999998875521 00000    00111111         1122   2445556666


Q ss_pred             hHHC-CCCCCcch-----HHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC
Q 006580          237 MRYS-GYSPDEYT-----ISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRW  310 (640)
Q Consensus       237 m~~~-g~~p~~~t-----~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  310 (640)
                      +... +-.|....     ..-.+-++...++..++.+.++.+...|.+....+..++.++|...+++++|..+++.+...
T Consensus       277 l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~  356 (822)
T PRK14574        277 LLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYS  356 (822)
T ss_pred             HHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhc
Confidence            5542 22243222     22345577888999999999999999887767778899999999999999999999988542


Q ss_pred             ---------ChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCC-hhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCc
Q 006580          311 ---------DYAVINVMISTYGRYGFGEVALELFQLMLREDIRPT-EFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSN  380 (640)
Q Consensus       311 ---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~  380 (640)
                               +......|.-+|...+++++|..+++.+.+.  .|. ...|    ..-.+                ...||
T Consensus       357 ~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~--~p~~~~~~----~~~~~----------------~pn~d  414 (822)
T PRK14574        357 DGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQ--TPYQVGVY----GLPGK----------------EPNDD  414 (822)
T ss_pred             cccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCcEEecc----CCCCC----------------CCCcc
Confidence                     2223467889999999999999999999873  331 0001    00000                00122


Q ss_pred             -hHHHHHHHHHHHhcCChHHHHHHHHhCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH-HHHHHHHH
Q 006580          381 -AVVASSLMEMYAKTGSIDSSTEIFVKLDK--R-DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDR-ITLAAVLL  455 (640)
Q Consensus       381 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~  455 (640)
                       ...+..++..+...|++.+|++.++++..  | |......+...+...|.+.+|++.++.....  .|+. .+......
T Consensus       415 ~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l--~P~~~~~~~~~~~  492 (822)
T PRK14574        415 WIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESL--APRSLILERAQAE  492 (822)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh--CCccHHHHHHHHH
Confidence             12334566778889999999999999872  3 7788888899999999999999999777663  5654 46677778


Q ss_pred             HHhccCCHHHHHHHHHHhHHhhCCCCChhHHHH
Q 006580          456 ACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYAC  488 (640)
Q Consensus       456 ~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~  488 (640)
                      ++...+++++|..+.+.+.+.   .|+......
T Consensus       493 ~al~l~e~~~A~~~~~~l~~~---~Pe~~~~~~  522 (822)
T PRK14574        493 TAMALQEWHQMELLTDDVISR---SPEDIPSQE  522 (822)
T ss_pred             HHHhhhhHHHHHHHHHHHHhh---CCCchhHHH
Confidence            888889999999999888764   454443333

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.74  E-value=3.7e-13  Score=135.32  Aligned_cols=564  Identities=12%  Similarity=0.038  Sum_probs=309.6

Q ss_pred             hHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcC---CCCChhhHHHHHHHHh
Q 006580           16 SYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEI---PQKNCISWNICLRGLL   92 (640)
Q Consensus        16 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~ll~~~~   92 (640)
                      ........-....|++++|..++.++++.. +.....|-+|..+|-..|+.+++...+-..   ...|..-|-.+-....
T Consensus       140 ~~ll~eAN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~  218 (895)
T KOG2076|consen  140 RQLLGEANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSE  218 (895)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence            333344444455599999999999999997 777888999999999999999998766543   3456678999999999


Q ss_pred             cCCChhHHHHHhccCCCC---CcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh-------chhH
Q 006580           93 KSDNLDTALKVFDEIPEP---DVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS-------SACH  162 (640)
Q Consensus        93 ~~~~~~~A~~~~~~~~~~---~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~-------~~~~  162 (640)
                      +.|+++.|.-+|.+..+.   +...+--=+..|-+.|+...|...|.++.+...+.|..-+..++....       ..+.
T Consensus       219 ~~~~i~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~  298 (895)
T KOG2076|consen  219 QLGNINQARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERER  298 (895)
T ss_pred             hcccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHH
Confidence            999999999999998753   333344455678899999999999999998644334444444444433       4467


Q ss_pred             HHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCC----C----------------------CeeeHH-
Q 006580          163 GKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEE----L----------------------DIISWN-  215 (640)
Q Consensus       163 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~----------------------~~~~~~-  215 (640)
                      |.+.++.....+....+...++.++..+.+...++.|......+..    +                      +..+|+ 
T Consensus       299 a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l  378 (895)
T KOG2076|consen  299 AAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDL  378 (895)
T ss_pred             HHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccc
Confidence            7777777776544566777888888888888888888776655432    1                      111111 


Q ss_pred             ---HHHHHHHhcCChhHHHHHHHHhHHCCCCC--CcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 006580          216 ---SLISGCFNSGYGELALDQFYSMRYSGYSP--DEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDL  290 (640)
Q Consensus       216 ---~li~~~~~~~~~~~A~~~~~~m~~~g~~p--~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  290 (640)
                         -+.-++......+....+.....+..+.|  +...|.-+..++...|++..|..++..+......-+..+|-.+..+
T Consensus       379 ~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c  458 (895)
T KOG2076|consen  379 RVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARC  458 (895)
T ss_pred             hhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHH
Confidence               11222233333333333333333333222  2334555566666666666666666666555444445566666666


Q ss_pred             HHhcCCHHHHHHHHHhcCCCCh---hhHHHHHHHHHhCCChHHHHHHHHHHhhC--------CCCCChhhHHHHHhhCCC
Q 006580          291 FSKCNRLEDSVRLFEQLDRWDY---AVINVMISTYGRYGFGEVALELFQLMLRE--------DIRPTEFTLSCVLSSIPI  359 (640)
Q Consensus       291 ~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------~~~p~~~t~~~~l~~~~~  359 (640)
                      |...|..+.|.+.|+.+..-++   ..--.|...+-+.|+.++|++.+..+...        +..|+..........+..
T Consensus       459 ~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~  538 (895)
T KOG2076|consen  459 YMELGEYEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQ  538 (895)
T ss_pred             HHHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHH
Confidence            6666666666666666554222   22333444555666666666666554311        112222221112222222


Q ss_pred             -CChHHHHHHHHHHHHhC----------------------CCCchHHHHHHHHHHHhcCChHHHHHHHHhCC--------
Q 006580          360 -PPVEHGSQFHSMAIKSG----------------------FDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD--------  408 (640)
Q Consensus       360 -~~~~~a~~~~~~~~~~~----------------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------  408 (640)
                       |+.++-..+...++...                      .+........++.+-.+.++......-...-.        
T Consensus       539 ~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~  618 (895)
T KOG2076|consen  539 VGKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELR  618 (895)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhc
Confidence             33333222222221100                      00111111122222222222111111110000        


Q ss_pred             CCCh----hHHHHHHHHHHhCCChHHHHHHHHHHHHCCC--CCCH-H-HH-HHHHHHHhccCCHHHHHHHHHHhHHhhCC
Q 006580          409 KRDL----VSWNTIMMGLTQNGRAAETLDVFEELLEEGL--PPDR-I-TL-AAVLLACNYGGFVDKGMLVFSAMKEEYGV  479 (640)
Q Consensus       409 ~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~~-~-~~-~~ll~~~~~~~~~~~A~~~~~~~~~~~~~  479 (640)
                      .-+.    ..+.-++.++++.+++++|+.+...+....+  .++. . .+ ...+.+++..+++..|...++.|...++.
T Consensus       619 ~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~  698 (895)
T KOG2076|consen  619 GLSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQF  698 (895)
T ss_pred             cCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhh
Confidence            0011    1223334445555555555555554444221  1111 0 11 12233344455555555555555443222


Q ss_pred             CCCh---hHHH-----------------------------------HHHHHHHhcCChHHHHHHHHhCC-CCCCHHHHHH
Q 006580          480 MPGE---EHYA-----------------------------------CIIDLLCQAGQLGKAIDITSTMP-FQPGCSIWES  520 (640)
Q Consensus       480 ~p~~---~~~~-----------------------------------~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~  520 (640)
                      ..++   ..|+                                   .....+..++.+.-|+..+-++. ..||.+..+.
T Consensus       699 ~~~~~q~~l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~pd~Pl~nl  778 (895)
T KOG2076|consen  699 YLDVYQLNLWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQNPDSPLINL  778 (895)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHhCCCCcHHHH
Confidence            2111   1122                                   11122344566677776655543 4555444443


Q ss_pred             HHHH-H----------HHcCChHHHHHHHHHHHhcCCC--ChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          521 ILRA-S----------AIYGDVKLTENVAERMMDLQLP--SPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       521 l~~~-~----------~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      ++.. +          .++-..-.+..++.+..++...  ...++.+++.+|...|-..-|..++++..+..+
T Consensus       779 ~lglafih~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~~p  851 (895)
T KOG2076|consen  779 CLGLAFIHLALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEVSP  851 (895)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCCCc
Confidence            3322 1          1222456677888887777554  678899999999999999999999999987643

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.73  E-value=2.7e-14  Score=142.47  Aligned_cols=519  Identities=10%  Similarity=0.012  Sum_probs=277.0

Q ss_pred             HHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCC----CChhhHHHHHHHHhcCCChhHHHHHhccCCCCC
Q 006580           36 TIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ----KNCISWNICLRGLLKSDNLDTALKVFDEIPEPD  111 (640)
Q Consensus        36 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~  111 (640)
                      .++..+...|+.|+..+|..++.-|+..|+.+.|- +|.-|.-    -+...|+.++.+..++++.+.+.       +|.
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~   82 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPL   82 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCc
Confidence            34555666666777777777777777777766666 6665543    23345666666666666665544       566


Q ss_pred             cchHHHHHHHHHhCCChHHHHHHHHH-HH-------HCCCCCChhhHHHHHHHHh--c--------hhHHHHHHHHHHHh
Q 006580          112 VVSWNSMISGYASCGYSDYALEMFSK-MQ-------LQGVRPSGFTFSILLSTVS--S--------ACHGKQIHGSMIRS  173 (640)
Q Consensus       112 ~~~y~~li~~~~~~~~~~~a~~~~~~-m~-------~~g~~p~~~t~~~ll~~~~--~--------~~~a~~~~~~~~~~  173 (640)
                      ..+|..|..+|.+.||... ++..++ |.       ..|+.....-|-..+.++.  .        ..--+.++..+++.
T Consensus        83 aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkl  161 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKL  161 (1088)
T ss_pred             hhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHH
Confidence            6677777777777766544 222222 21       1232222222222222222  0        01111222233333


Q ss_pred             CCCCCchhHHHH---HHHhhhc-CCChHHHHHHHhccC-CCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcch
Q 006580          174 GLSLSNVVLGNS---LIDMYGK-LGVLYYAFGVFLNME-ELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYT  248 (640)
Q Consensus       174 ~~~~~~~~~~~~---li~~~~~-~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t  248 (640)
                      +...|...-++.   .++-... ...+++-........ .++..+|..++.+-.-+|+.+.|..++.+|++.|++.+.+-
T Consensus       162 l~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~Hy  241 (1088)
T KOG4318|consen  162 LAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHY  241 (1088)
T ss_pred             HhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCccccc
Confidence            211111100000   1221111 122333333333443 37889999999999999999999999999999999999988


Q ss_pred             HHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCC-
Q 006580          249 ISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGF-  327 (640)
Q Consensus       249 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~-  327 (640)
                      |..++-+   .++...++.++.-|.+.|+.|+..|+..-+..+...|....+.+..+.-..-....+..+.++.....+ 
T Consensus       242 FwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~l  318 (1088)
T KOG4318|consen  242 FWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKRL  318 (1088)
T ss_pred             chhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHHH
Confidence            8887766   888899999999999999999999998877777775553322221111000111122233222111111 


Q ss_pred             ----hHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCC---CCchHHHHHHHHHHHhcCChHHH
Q 006580          328 ----GEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGF---DSNAVVASSLMEMYAKTGSIDSS  400 (640)
Q Consensus       328 ----~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A  400 (640)
                          ..-....+++..-.|+.-....|........+|.-+...++...+..--.   +.++..+..+            +
T Consensus       319 ~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~------------l  386 (1088)
T KOG4318|consen  319 RQNLRKSVIGSTKKLFLLGTDILEAIWSMCEKLRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGAL------------L  386 (1088)
T ss_pred             HHHHHHHHHHHhhHHHHhccccchHHHHHHHHHHHcCCCchHHHHHhhhcCCccccCcchHHHHHHH------------H
Confidence                11112222222222332222333333322222444444444444432111   1112222222            2


Q ss_pred             HHHHHhCCCCChhHHHHHHHHHHh---CC------------ChHHHHHHHHHHHH----CCCCC-------CHHHHHHHH
Q 006580          401 TEIFVKLDKRDLVSWNTIMMGLTQ---NG------------RAAETLDVFEELLE----EGLPP-------DRITLAAVL  454 (640)
Q Consensus       401 ~~~~~~~~~~~~~~~~~li~~~~~---~g------------~~~~a~~~~~~m~~----~g~~p-------~~~~~~~ll  454 (640)
                      ...|.+...+....-.-.-++...   ..            +...+..-+..+..    +...|       -...-+.++
T Consensus       387 rqyFrr~e~~~~~~i~~~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~  466 (1088)
T KOG4318|consen  387 RQYFRRIERHICSRIYYAGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLH  466 (1088)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHH
Confidence            333333332211111001111111   11            11111111111111    00111       111234455


Q ss_pred             HHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-----CCCCHHHHHHHHHHHHHcC
Q 006580          455 LACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-----FQPGCSIWESILRASAIYG  529 (640)
Q Consensus       455 ~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~~l~~~~~~~~  529 (640)
                      ..|++.-+..++...-+..... -+   ...|..||+.++...+.+.|..+.++..     +..|..-+..+.....+.+
T Consensus       467 l~l~se~n~lK~l~~~ekye~~-lf---~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~  542 (1088)
T KOG4318|consen  467 LTLNSEYNKLKILCDEEKYEDL-LF---AGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLA  542 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH-Hh---hhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhH
Confidence            5555555555555444433332 22   2678999999999999999999999886     3335556778888889999


Q ss_pred             ChHHHHHHHHHHHhc---CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCcc
Q 006580          530 DVKLTENVAERMMDL---QLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINK  582 (640)
Q Consensus       530 ~~~~a~~~~~~~~~~---~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  582 (640)
                      ....+..+++++.+.   .|.-......+.......|+.+...+..+-+...|+.-
T Consensus       543 ~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e  598 (1088)
T KOG4318|consen  543 ILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE  598 (1088)
T ss_pred             HHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh
Confidence            999999999988875   23334566677777888999999999999998888755

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.69  E-value=1.9e-11  Score=118.58  Aligned_cols=367  Identities=12%  Similarity=0.026  Sum_probs=283.7

Q ss_pred             eHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 006580          213 SWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFS  292 (640)
Q Consensus       213 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  292 (640)
                      +|+.-...|.+.+.++-|..+|....+. .+-+...|......--..|..+....+++.+...- +.....+.....-+-
T Consensus       518 tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w  595 (913)
T KOG0495|consen  518 TWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKW  595 (913)
T ss_pred             HHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHH
Confidence            5555666666777777777777777652 22334455555555566788888888888887763 334556666677777


Q ss_pred             hcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHH
Q 006580          293 KCNRLEDSVRLFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQF  368 (640)
Q Consensus       293 ~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~  368 (640)
                      ..|++..|..++...-+   .+...|-+-+..-..+.+++.|..+|.+...  ..|+...|..-...... +..++|.++
T Consensus       596 ~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA~rl  673 (913)
T KOG0495|consen  596 KAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEALRL  673 (913)
T ss_pred             hcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHHHHH
Confidence            88999999988887754   3556788888888889999999999988776  45666666555554444 888999999


Q ss_pred             HHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC
Q 006580          369 HSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK--R-DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPP  445 (640)
Q Consensus       369 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  445 (640)
                      ++..++. ++.-...|-.+.+.+-+.++++.|.+.|..-.+  | .+..|-.|...--+.|.+-.|..++++.+-.+ +-
T Consensus       674 lEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk  751 (913)
T KOG0495|consen  674 LEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PK  751 (913)
T ss_pred             HHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CC
Confidence            8887775 355567788888889999999999988877663  3 45678777777778889999999999988764 44


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 006580          446 DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRAS  525 (640)
Q Consensus       446 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~  525 (640)
                      +...|...++.=.+.|+.++|..++.+..+  ..+.+...|..-|.+..+.++-.++...+++..  -|+..+......+
T Consensus       752 ~~~lwle~Ir~ElR~gn~~~a~~lmakALQ--ecp~sg~LWaEaI~le~~~~rkTks~DALkkce--~dphVllaia~lf  827 (913)
T KOG0495|consen  752 NALLWLESIRMELRAGNKEQAELLMAKALQ--ECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCE--HDPHVLLAIAKLF  827 (913)
T ss_pred             cchhHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCccchhHHHHHHhccCcccchHHHHHHHhcc--CCchhHHHHHHHH
Confidence            567888889998999999999999888887  556667778888888888888777777777764  5666677778888


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCceeeEEe
Q 006580          526 AIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGI  591 (640)
Q Consensus       526 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~  591 (640)
                      ....+++.|.+.|.+++..+|++..+|..+-..+...|.-++-.+++.+.....  |.-|..|+.+
T Consensus       828 w~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~E--P~hG~~W~av  891 (913)
T KOG0495|consen  828 WSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETAE--PTHGELWQAV  891 (913)
T ss_pred             HHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCCCcHHHHH
Confidence            888999999999999999999999999999999999999999999999887754  4556667654

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.65  E-value=6e-16  Score=147.11  Aligned_cols=252  Identities=16%  Similarity=0.141  Sum_probs=112.4

Q ss_pred             HHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC--CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChH
Q 006580          321 TYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI--PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSID  398 (640)
Q Consensus       321 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  398 (640)
                      .+.+.|++++|++++++.......|+...|-.++..++.  ++.+.|...++.+...+ +.++..+..++.. ...++++
T Consensus        17 ~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~~~~~   94 (280)
T PF13429_consen   17 LLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQDGDPE   94 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccccccc
Confidence            344444455555554333322223444444444433333  55555555555555443 2244555666666 6788888


Q ss_pred             HHHHHHHhCC--CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 006580          399 SSTEIFVKLD--KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEG-LPPDRITLAAVLLACNYGGFVDKGMLVFSAMKE  475 (640)
Q Consensus       399 ~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~  475 (640)
                      +|.+++...-  .++...+..++..+...++++++.++++++.... .+++...|..+...+.+.|+.++|++.+++..+
T Consensus        95 ~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~  174 (280)
T PF13429_consen   95 EALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALE  174 (280)
T ss_dssp             -----------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            8888887664  3566777788888999999999999999987632 345666777888888999999999999999886


Q ss_pred             hhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHH
Q 006580          476 EYGVMP-GEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPY  552 (640)
Q Consensus       476 ~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  552 (640)
                      .   .| +......++..+...|+.+++.++++...  .+.|+..|..+..++...|+.++|...++++.+.+|+|+...
T Consensus       175 ~---~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~  251 (280)
T PF13429_consen  175 L---DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWL  251 (280)
T ss_dssp             H----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHH
T ss_pred             c---CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccccccc
Confidence            4   45 47778889999999999999888887765  345677889999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          553 SLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       553 ~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      ..++.++...|+.++|..+.+++..
T Consensus       252 ~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  252 LAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccc
Confidence            9999999999999999999887653

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.64  E-value=2.3e-11  Score=122.71  Aligned_cols=516  Identities=12%  Similarity=0.083  Sum_probs=349.1

Q ss_pred             HHHHccCCchHHHHHHhcCCC---CChhhHHHHHHHHhcCCChhHHHHHhcc---CCCCCcchHHHHHHHHHhCCChHHH
Q 006580           58 DLYSRFGTSDDVLQLFDEIPQ---KNCISWNICLRGLLKSDNLDTALKVFDE---IPEPDVVSWNSMISGYASCGYSDYA  131 (640)
Q Consensus        58 ~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~A~~~~~~---~~~~~~~~y~~li~~~~~~~~~~~a  131 (640)
                      +.+...|+.++|.+++.++..   .+...|..|...|-+.|+.+++...+-.   +.+.|...|..+.....+.|+++.|
T Consensus       147 N~lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA  226 (895)
T KOG2076|consen  147 NNLFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQA  226 (895)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHH
Confidence            334455999999999999876   4567899999999999999999987643   3356778899999999999999999


Q ss_pred             HHHHHHHHHCCCCCChhh----HHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHH----HHHHhhhcCCChHHHHHHH
Q 006580          132 LEMFSKMQLQGVRPSGFT----FSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGN----SLIDMYGKLGVLYYAFGVF  203 (640)
Q Consensus       132 ~~~~~~m~~~g~~p~~~t----~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----~li~~~~~~g~~~~A~~~~  203 (640)
                      .-+|.+..+.  .|+..-    ...+..-.++...|..-+.++.... .|.|..-..    ..+..+...++-+.|.+.+
T Consensus       227 ~~cy~rAI~~--~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~-p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~l  303 (895)
T KOG2076|consen  227 RYCYSRAIQA--NPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLD-PPVDIERIEDLIRRVAHYFITHNERERAAKAL  303 (895)
T ss_pred             HHHHHHHHhc--CCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhC-CchhHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            9999999886  344322    2333333347788888888888884 233333333    3355667777778898888


Q ss_pred             hccCC-----CCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCC---------------------------CCCcchHHH
Q 006580          204 LNMEE-----LDIISWNSLISGCFNSGYGELALDQFYSMRYSGY---------------------------SPDEYTISI  251 (640)
Q Consensus       204 ~~~~~-----~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~---------------------------~p~~~t~~~  251 (640)
                      +....     -+...++.++..+.+...++.|......+.....                           .++... .-
T Consensus       304 e~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~r  382 (895)
T KOG2076|consen  304 EGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IR  382 (895)
T ss_pred             HHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-Hh
Confidence            87763     2445688999999999999999999988876211                           122222 12


Q ss_pred             HHHHHhccCCchHHHHHHHHHHHhCCC--CchhHHHHHHHHHHhcCCHHHHHHHHHhcCC----CChhhHHHHHHHHHhC
Q 006580          252 VINACTKLRNLDKGKQVFALSVKVGFL--SNSIVLSATIDLFSKCNRLEDSVRLFEQLDR----WDYAVINVMISTYGRY  325 (640)
Q Consensus       252 ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~  325 (640)
                      +.-++......+..+.+...+.+....  -+...|.-+..+|...|++..|+.+|..+..    .+...|--+..+|...
T Consensus       383 l~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l  462 (895)
T KOG2076|consen  383 LMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMEL  462 (895)
T ss_pred             HhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHH
Confidence            334555666777777777777777643  4566889999999999999999999999875    3567899999999999


Q ss_pred             CChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC--CChHHHHHHHHHH--------HHhCCCCchHHHHHHHHHHHhcC
Q 006580          326 GFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI--PPVEHGSQFHSMA--------IKSGFDSNAVVASSLMEMYAKTG  395 (640)
Q Consensus       326 ~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~--~~~~~a~~~~~~~--------~~~~~~~~~~~~~~l~~~~~~~g  395 (640)
                      |.++.|.+.|.....  ..|+..-...-|..+..  |+.++|.+.+..+        ...+++|.........+.+.+.|
T Consensus       463 ~e~e~A~e~y~kvl~--~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~g  540 (895)
T KOG2076|consen  463 GEYEEAIEFYEKVLI--LAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVG  540 (895)
T ss_pred             hhHHHHHHHHHHHHh--cCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhh
Confidence            999999999999987  46766555555555444  9999999888874        34456677777666777888888


Q ss_pred             ChHHHHHHHHhCCC---------C-----------------ChhHHHHHHHHHHhCCChHHHHHH------HHHHHHCCC
Q 006580          396 SIDSSTEIFVKLDK---------R-----------------DLVSWNTIMMGLTQNGRAAETLDV------FEELLEEGL  443 (640)
Q Consensus       396 ~~~~A~~~~~~~~~---------~-----------------~~~~~~~li~~~~~~g~~~~a~~~------~~~m~~~g~  443 (640)
                      +.++-..+-..|..         |                 .......++.+-.+.++.....+-      +.--...|+
T Consensus       541 k~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~L  620 (895)
T KOG2076|consen  541 KREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGL  620 (895)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccC
Confidence            87775544443331         0                 111122222333333332111111      111111233


Q ss_pred             CCCHH--HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChh----HHHHHHHHHHhcCChHHHHHHHHhCC-C-----
Q 006580          444 PPDRI--TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEE----HYACIIDLLCQAGQLGKAIDITSTMP-F-----  511 (640)
Q Consensus       444 ~p~~~--~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~-~-----  511 (640)
                      ..+..  .+.-++.++++.+.+++|..+...+....-+..+..    .-...+.+....+++..|.+.++.+. .     
T Consensus       621 siddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~  700 (895)
T KOG2076|consen  621 SIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYL  700 (895)
T ss_pred             cHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhh
Confidence            33332  455666778888888888888887776533333333    22344556677888888888888776 1     


Q ss_pred             CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-hhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          512 QP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPS-PLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       512 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      .| -...|+..++...+.++-..-.+....+....|.+ +..+...+..+...+.|..|+..+-+.....
T Consensus       701 ~~~q~~l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~  770 (895)
T KOG2076|consen  701 DVYQLNLWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQN  770 (895)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHhC
Confidence            23 23456656666666666666666666655556655 5555555666677888888888666655544

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.64  E-value=1.3e-13  Score=127.36  Aligned_cols=426  Identities=14%  Similarity=0.104  Sum_probs=286.4

Q ss_pred             hhHHHHHHHHh------chhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCC--CC------eee
Q 006580          148 FTFSILLSTVS------SACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEE--LD------IIS  213 (640)
Q Consensus       148 ~t~~~ll~~~~------~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~------~~~  213 (640)
                      .||+.+.....      ...+|...++-+++...+|..-..--.+.+.+.+...+.+|+++++....  |+      +..
T Consensus       199 ltfsvl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~riki  278 (840)
T KOG2003|consen  199 LTFSVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKI  278 (840)
T ss_pred             chHHHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHH
Confidence            45665554443      34556666666777664554445555667788888999999998876542  21      223


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCc------------h
Q 006580          214 WNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSN------------S  281 (640)
Q Consensus       214 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~------------~  281 (640)
                      .+.+--.+.+.|+++.|+..|+...+.  .|+..+-..|+-++...|+-++..+.|..|+.....||            .
T Consensus       279 l~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~  356 (840)
T KOG2003|consen  279 LNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDD  356 (840)
T ss_pred             HhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcch
Confidence            445555678899999999999998774  48888777777777888999999999999987643332            2


Q ss_pred             hHHHHHH-----HHHHhcC--CHHHHHHHHHhcC----CCChhh---HH----------H--------HHHHHHhCCChH
Q 006580          282 IVLSATI-----DLFSKCN--RLEDSVRLFEQLD----RWDYAV---IN----------V--------MISTYGRYGFGE  329 (640)
Q Consensus       282 ~~~~~l~-----~~~~~~g--~~~~A~~~~~~~~----~~~~~~---~~----------~--------li~~~~~~~~~~  329 (640)
                      ...+.-+     .-+-+.+  +.++++-.--++.    .++-..   |.          .        -...+.++|+++
T Consensus       357 ~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~  436 (840)
T KOG2003|consen  357 NLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIE  436 (840)
T ss_pred             HHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHH
Confidence            2222221     1111211  1222221111221    222110   11          0        123578999999


Q ss_pred             HHHHHHHHHhhCCCCCChh--hHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHh
Q 006580          330 VALELFQLMLREDIRPTEF--TLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVK  406 (640)
Q Consensus       330 ~a~~~~~~m~~~~~~p~~~--t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  406 (640)
                      .|+++++-+.+..-+.-..  +-..++..+.. .++..|.++-+...... .-++.....-.+.....|++++|.+.+++
T Consensus       437 ~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~yke  515 (840)
T KOG2003|consen  437 GAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKE  515 (840)
T ss_pred             HHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHH
Confidence            9999999887654332222  22233333333 57777777776665433 12222222222233457999999999999


Q ss_pred             CCCCChhHHHHHHH---HHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCCh
Q 006580          407 LDKRDLVSWNTIMM---GLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGE  483 (640)
Q Consensus       407 ~~~~~~~~~~~li~---~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~  483 (640)
                      ....|..+-.+|..   .+-..|+.++|++.|-++..- +..+...+..+...|....+..+|++++.....  -++.|+
T Consensus       516 al~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~s--lip~dp  592 (840)
T KOG2003|consen  516 ALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANS--LIPNDP  592 (840)
T ss_pred             HHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc--cCCCCH
Confidence            99777665444433   466789999999999888763 344556777788889899999999999987764  566678


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHh-CC-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHh
Q 006580          484 EHYACIIDLLCQAGQLGKAIDITST-MP-FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAM  561 (640)
Q Consensus       484 ~~~~~l~~~~~~~g~~~~A~~~~~~-~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  561 (640)
                      ...+.|.+.|-+.|+-.+|.+..-+ .. ++-+..+..=|...|....=+++++.+++++.-+.|.-..--..++.++.+
T Consensus       593 ~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rr  672 (840)
T KOG2003|consen  593 AILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRR  672 (840)
T ss_pred             HHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHh
Confidence            8999999999999999999987544 44 455888888888888888889999999999988888654444455566678


Q ss_pred             cCChHHHHHHHHHHHhCC
Q 006580          562 RGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       562 ~g~~~~a~~~~~~m~~~~  579 (640)
                      .|++.+|..+++....+-
T Consensus       673 sgnyqka~d~yk~~hrkf  690 (840)
T KOG2003|consen  673 SGNYQKAFDLYKDIHRKF  690 (840)
T ss_pred             cccHHHHHHHHHHHHHhC
Confidence            899999999999887653

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.57  E-value=1.7e-11  Score=114.93  Aligned_cols=212  Identities=16%  Similarity=0.139  Sum_probs=173.1

Q ss_pred             CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHH
Q 006580          360 PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFE  436 (640)
Q Consensus       360 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~  436 (640)
                      |+.-.+..-++.+++....++ ..|--+..+|....+.++-...|++..   ..++.+|..-.+.+.-.+++++|..=|+
T Consensus       340 g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~  418 (606)
T KOG0547|consen  340 GDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQ  418 (606)
T ss_pred             CCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHH
Confidence            788888888888887653333 236667778999999999999998877   3467788888888888899999999999


Q ss_pred             HHHHCCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCC
Q 006580          437 ELLEEGLPPDR-ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPG  514 (640)
Q Consensus       437 ~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~  514 (640)
                      +.++  +.|+. ..|..+.-+..+.+++++++..|++.++  .++-.++.|+.....+...+++++|.+.|+.+. ..|+
T Consensus       419 Kai~--L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~  494 (606)
T KOG0547|consen  419 KAIS--LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKK--KFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPR  494 (606)
T ss_pred             HHhh--cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccc
Confidence            9998  45654 5777777777889999999999999988  566678889999999999999999999999876 4443


Q ss_pred             ---------HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          515 ---------CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       515 ---------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                               +.+.-.++..- -.+++..|+.+++++++++|....+|..|+..-.++|+.++|+++|++...
T Consensus       495 ~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  495 EHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             cccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence                     22223333222 348999999999999999999999999999999999999999999987653

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.55  E-value=6.3e-11  Score=118.96  Aligned_cols=471  Identities=8%  Similarity=-0.016  Sum_probs=242.6

Q ss_pred             CCCChhhHHHHHHHHhcCCChhHHHHHhccCCC----CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHH
Q 006580           77 PQKNCISWNICLRGLLKSDNLDTALKVFDEIPE----PDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSI  152 (640)
Q Consensus        77 ~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~----~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~  152 (640)
                      ..||.+||..+|.-||..|+++.|- +|.-|.-    -+...++.++.+..+.++.+.+.           .|...||..
T Consensus        21 i~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aDtyt~   88 (1088)
T KOG4318|consen   21 ILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLADTYTN   88 (1088)
T ss_pred             CCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCchhHHHH
Confidence            4589999999999999999999999 8888774    34567899999999999888776           788899999


Q ss_pred             HHHHHh---c---hhHHHHHHHHHHHh----CC-------------CCCchhHHHHHHHhhhcCCChHHHHHHHhccCCC
Q 006580          153 LLSTVS---S---ACHGKQIHGSMIRS----GL-------------SLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEEL  209 (640)
Q Consensus       153 ll~~~~---~---~~~a~~~~~~~~~~----~~-------------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  209 (640)
                      ++.++.   +   ++...+-+.....+    |.             .|.......+.+......|.++.+++++..++..
T Consensus        89 Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvs  168 (1088)
T KOG4318|consen   89 LLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVS  168 (1088)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcc
Confidence            999998   2   33333322222111    10             1111112223344444455556666666555521


Q ss_pred             --CeeeHHHHHHHHHhcCC-hhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHH
Q 006580          210 --DIISWNSLISGCFNSGY-GELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSA  286 (640)
Q Consensus       210 --~~~~~~~li~~~~~~~~-~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  286 (640)
                        +. ..-.+++-+..... +++-....+...+   .|++.+|..++.+....|+.+.|..++.+|.+.|++.+..-|-.
T Consensus       169 a~~~-p~~vfLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwp  244 (1088)
T KOG4318|consen  169 AWNA-PFQVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWP  244 (1088)
T ss_pred             cccc-hHHHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchh
Confidence              11 11112332222222 1222222222222   47777777777777777777777777777777777766665555


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC----CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCC--
Q 006580          287 TIDLFSKCNRLEDSVRLFEQLDR----WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIP--  360 (640)
Q Consensus       287 l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~--  360 (640)
                      |+-+   .++...+..+++.|.+    |+..|+..-+..+..+|....        .+.|.+.+...-..+..+.++|  
T Consensus       245 Ll~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~--------~~e~sq~~hg~tAavrsaa~rg~~  313 (1088)
T KOG4318|consen  245 LLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKY--------GEEGSQLAHGFTAAVRSAACRGLL  313 (1088)
T ss_pred             hhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhh--------cccccchhhhhhHHHHHHHhcccH
Confidence            5444   4555555555554432    455555554444444333111        1111121111111222222223  


Q ss_pred             ---ChHHH--HH---HHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCC-------ChhHHHHHHHHHHhC
Q 006580          361 ---PVEHG--SQ---FHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKR-------DLVSWNTIMMGLTQN  425 (640)
Q Consensus       361 ---~~~~a--~~---~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~~  425 (640)
                         .++.-  ..   .+....-.|+.....++...++ ....|.-+...++-..+..|       ++..|..++.-|.+.
T Consensus       314 a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~-l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr  392 (1088)
T KOG4318|consen  314 ANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEK-LRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRR  392 (1088)
T ss_pred             hHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHH-HHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHH
Confidence               01000  00   0011111233323333332222 22356666666666655532       344455555444433


Q ss_pred             CChHHHHHHHH--HHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHh---hCCCC-------ChhHHHHHHHHH
Q 006580          426 GRAAETLDVFE--ELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEE---YGVMP-------GEEHYACIIDLL  493 (640)
Q Consensus       426 g~~~~a~~~~~--~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~---~~~~p-------~~~~~~~l~~~~  493 (640)
                      -+..-...++.  +..+..  .+....-.+.....+ -+...+.+-+..+...   ....|       -...-+.++..+
T Consensus       393 ~e~~~~~~i~~~~qgls~~--l~se~tp~vsell~~-lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l  469 (1088)
T KOG4318|consen  393 IERHICSRIYYAGQGLSLN--LNSEDTPRVSELLEN-LRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTL  469 (1088)
T ss_pred             HHhhHHHHHHHHHHHHHhh--hchhhhHHHHHHHHH-hCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHH
Confidence            22111111111  111110  000000001110000 0111111111111110   01111       122344566667


Q ss_pred             HhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCChHHHHH
Q 006580          494 CQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQL---PSPLPYSLLTQAYAMRGRWEAIVR  570 (640)
Q Consensus       494 ~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~a~~  570 (640)
                      ++.-+..+++..-++.....-...|..|+.-+..++..+.|...+++....+.   -+..-+..+.+.+.+.+...++.+
T Consensus       470 ~se~n~lK~l~~~ekye~~lf~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~t  549 (1088)
T KOG4318|consen  470 NSEYNKLKILCDEEKYEDLLFAGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLST  549 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHH
Confidence            77777777765554443111227789999999999999999999999876643   344567889999999999999999


Q ss_pred             HHHHHHhC
Q 006580          571 VKKVMRKN  578 (640)
Q Consensus       571 ~~~~m~~~  578 (640)
                      +++++.+.
T Consensus       550 iL~e~ks~  557 (1088)
T KOG4318|consen  550 ILYEDKSS  557 (1088)
T ss_pred             HHhhhhHH
Confidence            99999873

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.55  E-value=1.1e-09  Score=102.61  Aligned_cols=489  Identities=11%  Similarity=0.077  Sum_probs=348.5

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHhccCCC---CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCh--hhHHHHH
Q 006580           80 NCISWNICLRGLLKSDNLDTALKVFDEIPE---PDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSG--FTFSILL  154 (640)
Q Consensus        80 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~---~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~t~~~ll  154 (640)
                      +...|-...+.=...+++..|..+|+....   .+...|-.-+..-.++..+..|..+++.....-...|.  .-|..+=
T Consensus        72 ~~~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymE  151 (677)
T KOG1915|consen   72 NMQVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYME  151 (677)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            344555555666667788888888888775   45566666777777888888899998888764222233  3355555


Q ss_pred             HHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccC--CCCeeeHHHHHHHHHhcCChhHHHH
Q 006580          155 STVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNME--ELDIISWNSLISGCFNSGYGELALD  232 (640)
Q Consensus       155 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~A~~  232 (640)
                      ..+.++..|+++|+...+.   .|+...|++.|+.-.+-..++.|..+++...  .|++.+|-...+.--+.|+...|..
T Consensus       152 E~LgNi~gaRqiferW~~w---~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~  228 (677)
T KOG1915|consen  152 EMLGNIAGARQIFERWMEW---EPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARS  228 (677)
T ss_pred             HHhcccHHHHHHHHHHHcC---CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHH
Confidence            5666888999999988874   6899999999999999999999999999876  7899899888888889999999999


Q ss_pred             HHHHhHHCCCCCCcchHHHHHHHH----hccCCchHHHHHHHHHHHhCCCC-chhHHHHHHHHHHhcCCHHHHHHHH---
Q 006580          233 QFYSMRYSGYSPDEYTISIVINAC----TKLRNLDKGKQVFALSVKVGFLS-NSIVLSATIDLFSKCNRLEDSVRLF---  304 (640)
Q Consensus       233 ~~~~m~~~g~~p~~~t~~~ll~~~----~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~---  304 (640)
                      +|....+.  -.|...-..+..++    .+...++.|.-+|+..++.-... ....|..+...--+-|+.....+..   
T Consensus       229 VyerAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~K  306 (677)
T KOG1915|consen  229 VYERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGK  306 (677)
T ss_pred             HHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhh
Confidence            99888763  12333333333333    45677888999999888763222 1446666666666667755444332   


Q ss_pred             -----HhcCCC---ChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCCh-------hhHHHHHhhC---CC-CChHHH
Q 006580          305 -----EQLDRW---DYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTE-------FTLSCVLSSI---PI-PPVEHG  365 (640)
Q Consensus       305 -----~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~t~~~~l~~~---~~-~~~~~a  365 (640)
                           +.+...   |-.+|--.+..-...|+.+...++|++.... ++|-.       ..|.-+--+|   .. .+++.+
T Consensus       307 Rk~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ert  385 (677)
T KOG1915|consen  307 RKFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERT  385 (677)
T ss_pred             hhhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Confidence                 222232   4456777777778889999999999998875 44421       1222122222   22 799999


Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHH----HhcCChHHHHHHHHhCC--CCChhHHHHHHHHHHhCCChHHHHHHHHHHH
Q 006580          366 SQFHSMAIKSGFDSNAVVASSLMEMY----AKTGSIDSSTEIFVKLD--KRDLVSWNTIMMGLTQNGRAAETLDVFEELL  439 (640)
Q Consensus       366 ~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  439 (640)
                      .++++..++ -+|....++.-+--+|    .++.++..|.+++....  .|-..+|-..|..-.+.++++.+..++++.+
T Consensus       386 r~vyq~~l~-lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfl  464 (677)
T KOG1915|consen  386 RQVYQACLD-LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFL  464 (677)
T ss_pred             HHHHHHHHh-hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            999999988 4566677776665555    46789999999998876  5778888888888889999999999999999


Q ss_pred             HCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCHHHH
Q 006580          440 EEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPGCSIW  518 (640)
Q Consensus       440 ~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~  518 (640)
                      +-+ +.|..++......=...|+.+.|..+|.-..+...+......|.+.|+--...|.+++|..+++++. ..+...+|
T Consensus       465 e~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~kvW  543 (677)
T KOG1915|consen  465 EFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVKVW  543 (677)
T ss_pred             hcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccchHH
Confidence            953 3455688777777778899999999999988763333345567778888889999999999999987 55666788


Q ss_pred             HHHHHHHH-----HcC-----------ChHHHHHHHHHHHhc----CCCCh--hHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          519 ESILRASA-----IYG-----------DVKLTENVAERMMDL----QLPSP--LPYSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       519 ~~l~~~~~-----~~~-----------~~~~a~~~~~~~~~~----~p~~~--~~~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                      -++...-.     +.+           +...|..+|+++...    +|...  .......+.=...|...+...+-.+|.
T Consensus       544 isFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~~~k~~~~KeeR~~LLEaw~~~E~~~G~~~d~~~V~s~mP  623 (677)
T KOG1915|consen  544 ISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANTYLKESTPKEERLMLLEAWKNMEETFGTEGDVERVQSKMP  623 (677)
T ss_pred             HhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCchhhHHHHHHhcc
Confidence            77765443     233           567888888888765    33221  122222333344566666666655553

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.54  E-value=2.2e-11  Score=121.20  Aligned_cols=284  Identities=10%  Similarity=0.021  Sum_probs=176.6

Q ss_pred             cCChhHHHHHHHHhHHCCCCCCcch-HHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHH--HHHHHHHHhcCCHHHH
Q 006580          224 SGYGELALDQFYSMRYSGYSPDEYT-ISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVL--SATIDLFSKCNRLEDS  300 (640)
Q Consensus       224 ~~~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g~~~~A  300 (640)
                      .|+++.|.+.+....+..  +++.. |.....+..+.|+++.+.+.+..+.+.  .|+....  ......+...|+++.|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            578888877776654431  12222 333344446788888888888888765  3444322  2346678888888888


Q ss_pred             HHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCC
Q 006580          301 VRLFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGF  377 (640)
Q Consensus       301 ~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~  377 (640)
                      ...++++.+   .+......+...|.+.|++++|.+++..+.+.+..++. .+..+-                       
T Consensus       173 l~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~-~~~~l~-----------------------  228 (398)
T PRK10747        173 RHGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE-HRAMLE-----------------------  228 (398)
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH-HHHHHH-----------------------
Confidence            888888765   35567778888899999999999999998887543221 110000                       


Q ss_pred             CCchHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 006580          378 DSNAVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVL  454 (640)
Q Consensus       378 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll  454 (640)
                         ...+..++.......+.+...++++.+.   ..++.....+...+...|+.++|.+++++..+.  +|+...  .++
T Consensus       229 ---~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l  301 (398)
T PRK10747        229 ---QQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLL  301 (398)
T ss_pred             ---HHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHH
Confidence               0011222222333344556666666665   246667777777788888888888888777763  444422  123


Q ss_pred             HHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCChHH
Q 006580          455 LACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPGCSIWESILRASAIYGDVKL  533 (640)
Q Consensus       455 ~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~  533 (640)
                      .+....++.+++.+..+...+.  .+-|...+.++...+.+.|++++|.+.|+... ..|+...+..+...+...|+.++
T Consensus       302 ~~~l~~~~~~~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~  379 (398)
T PRK10747        302 IPRLKTNNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEE  379 (398)
T ss_pred             HhhccCCChHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHH
Confidence            3334557777777777777653  23344456666666666666666666666665 55666666666666666666666


Q ss_pred             HHHHHHHHHhc
Q 006580          534 TENVAERMMDL  544 (640)
Q Consensus       534 a~~~~~~~~~~  544 (640)
                      |.+++++.+.+
T Consensus       380 A~~~~~~~l~~  390 (398)
T PRK10747        380 AAAMRRDGLML  390 (398)
T ss_pred             HHHHHHHHHhh
Confidence            66666666554

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.53  E-value=2.1e-12  Score=126.02  Aligned_cols=277  Identities=12%  Similarity=0.044  Sum_probs=210.9

Q ss_pred             CHHHHHHHHHhcCC--CCh-hhHHHHHHHHHhCCChHHHHHHHHHHhhCC--CCCChhhHHHHHhhCCCCChHHHHHHHH
Q 006580          296 RLEDSVRLFEQLDR--WDY-AVINVMISTYGRYGFGEVALELFQLMLRED--IRPTEFTLSCVLSSIPIPPVEHGSQFHS  370 (640)
Q Consensus       296 ~~~~A~~~~~~~~~--~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~t~~~~l~~~~~~~~~~a~~~~~  370 (640)
                      +..+|...|..++.  .|. .+...+..+|...+++++|.++|+.+.+..  ..-+...|.+.|..+..   +.+...+.
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~---~v~Ls~La  410 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD---EVALSYLA  410 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh---hHHHHHHH
Confidence            35667777777554  232 334556677888888888888888777642  11234455555554422   11222222


Q ss_pred             HHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCC---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH
Q 006580          371 MAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKR---DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDR  447 (640)
Q Consensus       371 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  447 (640)
                      +-.-.--+..+.+|.++.++|.-+++.+.|.+.|++..+-   ...+|+.+..-+.....+|.|+..|+..+.  +.|..
T Consensus       411 q~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~~~rh  488 (638)
T KOG1126|consen  411 QDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG--VDPRH  488 (638)
T ss_pred             HHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc--CCchh
Confidence            2222223667889999999999999999999999998853   556888888888889999999999999875  44544


Q ss_pred             -HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHH
Q 006580          448 -ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMP-GEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILR  523 (640)
Q Consensus       448 -~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~  523 (640)
                       .+|-.+...|.+.++++.|.-.|++..   .+.| +......+...+.+.|+.++|+.+++++. ..| |+..--.-+.
T Consensus       489 YnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~  565 (638)
T KOG1126|consen  489 YNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRAS  565 (638)
T ss_pred             hHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHH
Confidence             366667788999999999999999887   4455 45677788889999999999999999987 444 6666666667


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          524 ASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       524 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      .+...+++++|+..++++.+.-|++...|..++.+|.+.|+.+.|+.-|..+.+...
T Consensus       566 il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldp  622 (638)
T KOG1126|consen  566 ILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDP  622 (638)
T ss_pred             HHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCC
Confidence            777889999999999999999999999999999999999999999999988877654

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.52  E-value=1.2e-08  Score=99.51  Aligned_cols=509  Identities=12%  Similarity=0.133  Sum_probs=286.9

Q ss_pred             HHhhcCCChHHHHHHHHHHHHhC-CCCchhhHHHHHHHHHccCCchHHHHHHhcCCCCChhhHHHHHHHHhcCCChhHHH
Q 006580           23 DRCLSFKSFDFAKTIHGHLFKLG-FNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTAL  101 (640)
Q Consensus        23 ~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~  101 (640)
                      ....+++++...+..|+..+..- +..+..+|...+......+-++.+.+++++..+-++..-+-.|..+++.+++++|-
T Consensus       110 q~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa  189 (835)
T KOG2047|consen  110 QFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAA  189 (835)
T ss_pred             HHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHH
Confidence            34446677777777777776542 44455668888887777788888888888888877777888888888888888888


Q ss_pred             HHhccCCC----------------------------------------------CCc--chHHHHHHHHHhCCChHHHHH
Q 006580          102 KVFDEIPE----------------------------------------------PDV--VSWNSMISGYASCGYSDYALE  133 (640)
Q Consensus       102 ~~~~~~~~----------------------------------------------~~~--~~y~~li~~~~~~~~~~~a~~  133 (640)
                      +.+.....                                              +|.  ..|.+|..-|.+.|.+++|.+
T Consensus       190 ~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarD  269 (835)
T KOG2047|consen  190 QRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARD  269 (835)
T ss_pred             HHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence            88776540                                              111  238889999999999999999


Q ss_pred             HHHHHHHCCCCCChhhHHHHHHHHhchhHH--HHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCC---
Q 006580          134 MFSKMQLQGVRPSGFTFSILLSTVSSACHG--KQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEE---  208 (640)
Q Consensus       134 ~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a--~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---  208 (640)
                      +|++....  ..+..-|..++.+++.+++-  ....+...+.+.-+.+..             +++-.+.-|+.+..   
T Consensus       270 vyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~-------------dl~~~~a~~e~lm~rr~  334 (835)
T KOG2047|consen  270 VYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDV-------------DLELHMARFESLMNRRP  334 (835)
T ss_pred             HHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhh-------------hHHHHHHHHHHHHhccc
Confidence            99998765  23445566666666622211  111110111110111111             22223333333332   


Q ss_pred             ------------CCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCc------chHHHHHHHHhccCCchHHHHHHH
Q 006580          209 ------------LDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDE------YTISIVINACTKLRNLDKGKQVFA  270 (640)
Q Consensus       209 ------------~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~------~t~~~ll~~~~~~~~~~~a~~~~~  270 (640)
                                  .++..|..-+.  +..|+..+-...+.+.... +.|..      ..|..+.+.|-..|+++.|..+|+
T Consensus       335 ~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvife  411 (835)
T KOG2047|consen  335 LLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFE  411 (835)
T ss_pred             hHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHH
Confidence                        12333333322  2346666666677666542 33321      135555666667777777777777


Q ss_pred             HHHHhCCCCc---hhHHHHHHHHHHhcCCHHHHHHHHHhcCC-CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCC
Q 006580          271 LSVKVGFLSN---SIVLSATIDLFSKCNRLEDSVRLFEQLDR-WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPT  346 (640)
Q Consensus       271 ~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  346 (640)
                      ...+..++--   ..+|..-..+-.+..+++.|+++.+.... |....     ..+...+.+-.+ .+++         +
T Consensus       412 ka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~-----~~~yd~~~pvQ~-rlhr---------S  476 (835)
T KOG2047|consen  412 KATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPE-----LEYYDNSEPVQA-RLHR---------S  476 (835)
T ss_pred             HhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchh-----hhhhcCCCcHHH-HHHH---------h
Confidence            6665543211   22344444444455556666665554432 11000     011111110000 0000         1


Q ss_pred             hhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC----CCh-hHHHHHHH
Q 006580          347 EFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK----RDL-VSWNTIMM  420 (640)
Q Consensus       347 ~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~-~~~~~li~  420 (640)
                      ...|...+...-. |-++..+.+++.+++..+.....+ ....-.+-...-++++.+++++-..    |++ ..|+..+.
T Consensus       477 lkiWs~y~DleEs~gtfestk~vYdriidLriaTPqii-~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLt  555 (835)
T KOG2047|consen  477 LKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQII-INYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLT  555 (835)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHH-HHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHH
Confidence            1122233333333 666777777777777664322222 2223334455668889999987662    444 36777666


Q ss_pred             HHHh---CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH--HhccCCHHHHHHHHHHhHHhhCCCCC--hhHHHHHHHHH
Q 006580          421 GLTQ---NGRAAETLDVFEELLEEGLPPDRITLAAVLLA--CNYGGFVDKGMLVFSAMKEEYGVMPG--EEHYACIIDLL  493 (640)
Q Consensus       421 ~~~~---~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~--~~~~~~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~~  493 (640)
                      -+.+   ..+.+.|..+|++.++ |++|...-+..|+-+  =-+.|....|++++++...  ++.+.  ..+|+..|.--
T Consensus       556 kfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~--~v~~a~~l~myni~I~ka  632 (835)
T KOG2047|consen  556 KFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS--AVKEAQRLDMYNIYIKKA  632 (835)
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHH
Confidence            5544   2468899999999998 678776544444433  2345888889999998765  45443  34566666433


Q ss_pred             HhcCChHHHHHHHHhCC-CCCCHHHH---HHHHHHHHHcCChHHHHHHHHHHHhc-CC-CChhHHHHHHHHHHhcCChHH
Q 006580          494 CQAGQLGKAIDITSTMP-FQPGCSIW---ESILRASAIYGDVKLTENVAERMMDL-QL-PSPLPYSLLTQAYAMRGRWEA  567 (640)
Q Consensus       494 ~~~g~~~~A~~~~~~~~-~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~-~p-~~~~~~~~l~~~~~~~g~~~~  567 (640)
                      ...=-+.....+++++. .-|+...-   --+...-.+.|..+.|..+|....+. +| -++..|.+.-..=.+.|+-+-
T Consensus       633 ae~yGv~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGnedT  712 (835)
T KOG2047|consen  633 AEIYGVPRTREIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGNEDT  712 (835)
T ss_pred             HHHhCCcccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCCHHH
Confidence            32222223333444433 23433322   22334446778899999999888888 44 455667777777778888443


Q ss_pred             H
Q 006580          568 I  568 (640)
Q Consensus       568 a  568 (640)
                      .
T Consensus       713 ~  713 (835)
T KOG2047|consen  713 Y  713 (835)
T ss_pred             H
Confidence            3

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.51  E-value=2.1e-10  Score=107.17  Aligned_cols=355  Identities=10%  Similarity=0.068  Sum_probs=243.4

Q ss_pred             CCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchH--HHHHH
Q 006580          177 LSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTI--SIVIN  254 (640)
Q Consensus       177 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~--~~ll~  254 (640)
                      ..|...+-.....+-+.|....|.+.|......-+..|.+.+....-..+.+.+..+..     |...|..-+  -.+..
T Consensus       161 ~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l~~-----~l~~~~h~M~~~F~~~  235 (559)
T KOG1155|consen  161 EKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSILVV-----GLPSDMHWMKKFFLKK  235 (559)
T ss_pred             cchhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHHHh-----cCcccchHHHHHHHHH
Confidence            33444444445556677888888888877776556666666554433333333322221     222221111  12334


Q ss_pred             HHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCC------hhhHHHHHHHHHhCCCh
Q 006580          255 ACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWD------YAVINVMISTYGRYGFG  328 (640)
Q Consensus       255 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~~~~  328 (640)
                      ++....+.+.+.+-.+.....|++.+...-+....+.....++++|+.+|+++.+.|      ..+|+.++-  .++.+.
T Consensus       236 a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LY--v~~~~s  313 (559)
T KOG1155|consen  236 AYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLY--VKNDKS  313 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHH--HHhhhH
Confidence            555556777777777777777777666666666666677777888888887776643      334444332  222111


Q ss_pred             HHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006580          329 EVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD  408 (640)
Q Consensus       329 ~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  408 (640)
                      .-  .                                  ++.+-...--+-.+.+...+.+.|+-.++.++|...|++..
T Consensus       314 kL--s----------------------------------~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRAL  357 (559)
T KOG1155|consen  314 KL--S----------------------------------YLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRAL  357 (559)
T ss_pred             HH--H----------------------------------HHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHH
Confidence            10  0                                  00000000012334455667788888899999999999887


Q ss_pred             CC---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhH
Q 006580          409 KR---DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEH  485 (640)
Q Consensus       409 ~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~  485 (640)
                      +-   ....|+.+.+-|...++...|++.+++..+-+ +.|...|-.|.++|.-.+...-|+-+|++..+  --+.|...
T Consensus       358 kLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~--~kPnDsRl  434 (559)
T KOG1155|consen  358 KLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALE--LKPNDSRL  434 (559)
T ss_pred             hcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHh--cCCCchHH
Confidence            43   45689999999999999999999999999842 45678999999999999999999999998875  34556889


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-------CCCChhHHHHHH
Q 006580          486 YACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDL-------QLPSPLPYSLLT  556 (640)
Q Consensus       486 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~p~~~~~~~~l~  556 (640)
                      |.+|.++|.+.++.++|++-|....  ...+...+..|...|-+.++.++|...+++-++.       +|....+..-|+
T Consensus       435 w~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA  514 (559)
T KOG1155|consen  435 WVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLA  514 (559)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHH
Confidence            9999999999999999999999887  3345688999999999999999999999999874       333344445578


Q ss_pred             HHHHhcCChHHHHHHHHHHHh
Q 006580          557 QAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       557 ~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      .-+.+.+++++|..+......
T Consensus       515 ~~f~k~~~~~~As~Ya~~~~~  535 (559)
T KOG1155|consen  515 EYFKKMKDFDEASYYATLVLK  535 (559)
T ss_pred             HHHHhhcchHHHHHHHHHHhc
Confidence            888899999999987765543

>TIGR00540 hemY_coli hemY protein

Probab=99.50  E-value=6.3e-11  Score=118.68  Aligned_cols=290  Identities=11%  Similarity=0.032  Sum_probs=165.6

Q ss_pred             HhcCChhHHHHHHHHhHHCCCCCCcch-HHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH
Q 006580          222 FNSGYGELALDQFYSMRYSGYSPDEYT-ISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDS  300 (640)
Q Consensus       222 ~~~~~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  300 (640)
                      ...|+++.|.+.+.+..+.  .|+... +.....+..+.|+.+.+.+.+..+.+....+...+.......+...|+++.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHH
Confidence            3568888888888776553  354433 3344556677788888888888877654222233444457788888888888


Q ss_pred             HHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCC
Q 006580          301 VRLFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGF  377 (640)
Q Consensus       301 ~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~  377 (640)
                      ...++.+.+   .+..++..+...+.+.|++++|.+.+..+.+.++.+.. .+..+-.                      
T Consensus       173 l~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~-~~~~l~~----------------------  229 (409)
T TIGR00540       173 RHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDE-EFADLEQ----------------------  229 (409)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHH-HHHHHHH----------------------
Confidence            888888765   25557778888889999999999999888887643221 1100000                      


Q ss_pred             CCchHHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHH---H
Q 006580          378 DSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITL---A  451 (640)
Q Consensus       378 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~---~  451 (640)
                          ..+..++..-......+.....+....+   .++..+..+...+...|++++|.+++++..+.  .||....   .
T Consensus       230 ----~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~  303 (409)
T TIGR00540       230 ----KAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPL  303 (409)
T ss_pred             ----HHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHH
Confidence                0011111111122233444455555542   36777777788888888888888888888874  3444311   1


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHh--CC-CCCCHHHHHHHHHHHHHc
Q 006580          452 AVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITST--MP-FQPGCSIWESILRASAIY  528 (640)
Q Consensus       452 ~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~--~~-~~~~~~~~~~l~~~~~~~  528 (640)
                      .........++.+.+.+.++...+...-.|+.....++...+.+.|++++|.+.|+.  .. ..|+...+..+...+.+.
T Consensus       304 l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~  383 (409)
T TIGR00540       304 CLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQA  383 (409)
T ss_pred             HHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHc
Confidence            111122334555666666655554311111113344455555555555555555552  21 344544444555555555


Q ss_pred             CChHHHHHHHHHHH
Q 006580          529 GDVKLTENVAERMM  542 (640)
Q Consensus       529 ~~~~~a~~~~~~~~  542 (640)
                      |+.++|.+++++.+
T Consensus       384 g~~~~A~~~~~~~l  397 (409)
T TIGR00540       384 GDKAEAAAMRQDSL  397 (409)
T ss_pred             CCHHHHHHHHHHHH
Confidence            55555555555543

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.

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.49  E-value=9.2e-11  Score=104.41  Aligned_cols=311  Identities=9%  Similarity=0.043  Sum_probs=198.2

Q ss_pred             hcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhC-CCCc--hhHHHHHHHHHHhcCCHHH
Q 006580          223 NSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVG-FLSN--SIVLSATIDLFSKCNRLED  299 (640)
Q Consensus       223 ~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~g~~~~  299 (640)
                      -+.++++|.++|-+|.+.. +-+..+-.+|.+.|.+.|..|.|.++++.+.++. ++.+  ....-.|..-|...|-+|.
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            3567788888888887621 2223345566677777888888888887777652 1111  1233445566667777777


Q ss_pred             HHHHHHhcCCCCh---hhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhC
Q 006580          300 SVRLFEQLDRWDY---AVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSG  376 (640)
Q Consensus       300 A~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~  376 (640)
                      |+.+|..+.+.+.   .....|+..|-...+|++|+++-+++.+.+-++..+-                           
T Consensus       126 AE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~e---------------------------  178 (389)
T COG2956         126 AEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVE---------------------------  178 (389)
T ss_pred             HHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhH---------------------------
Confidence            7777777665332   2444566666677777777776666665443322111                           


Q ss_pred             CCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH-HHHHHHH
Q 006580          377 FDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI-TLAAVLL  455 (640)
Q Consensus       377 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~  455 (640)
                                +.+                        .|--+...+....+.+.|..++.+..+.  .|+.+ .-..+.+
T Consensus       179 ----------IAq------------------------fyCELAq~~~~~~~~d~A~~~l~kAlqa--~~~cvRAsi~lG~  222 (389)
T COG2956         179 ----------IAQ------------------------FYCELAQQALASSDVDRARELLKKALQA--DKKCVRASIILGR  222 (389)
T ss_pred             ----------HHH------------------------HHHHHHHHHhhhhhHHHHHHHHHHHHhh--CccceehhhhhhH
Confidence                      111                        1223444455566777778887777774  34333 3334456


Q ss_pred             HHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCChHHH
Q 006580          456 ACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPGCSIWESILRASAIYGDVKLT  534 (640)
Q Consensus       456 ~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a  534 (640)
                      .....|+++.|.+.++.+.+. +..--..+...|..+|...|+.++...++.++. ..+....-..+........-.+.|
T Consensus       223 v~~~~g~y~~AV~~~e~v~eQ-n~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~A  301 (389)
T COG2956         223 VELAKGDYQKAVEALERVLEQ-NPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAA  301 (389)
T ss_pred             HHHhccchHHHHHHHHHHHHh-ChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHH
Confidence            677778888888888877765 444445567777788888888888888887765 556666566666655566666777


Q ss_pred             HHHHHHHHhcCCCChhHHHHHHHHHH---hcCChHHHHHHHHHHHhCCCccCCceeeEEecCEEEEEe
Q 006580          535 ENVAERMMDLQLPSPLPYSLLTQAYA---MRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFN  599 (640)
Q Consensus       535 ~~~~~~~~~~~p~~~~~~~~l~~~~~---~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~  599 (640)
                      ...+.+-+...|. ...+..|+....   ..|.+++-..+++.|....++..|.+.+...+-..+.|.
T Consensus       302 q~~l~~Ql~r~Pt-~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~~~~~YRC~~CGF~a~~l~  368 (389)
T COG2956         302 QAYLTRQLRRKPT-MRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQLRRKPRYRCQNCGFTAHTLY  368 (389)
T ss_pred             HHHHHHHHhhCCc-HHHHHHHHHhhhccccccchhhhHHHHHHHHHHHHhhcCCceecccCCcceeee
Confidence            7777777777775 445555555443   346788889999999998888888777666665555553

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.49  E-value=1.8e-10  Score=105.89  Aligned_cols=287  Identities=14%  Similarity=0.101  Sum_probs=213.5

Q ss_pred             cCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHH
Q 006580          224 SGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRL  303 (640)
Q Consensus       224 ~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  303 (640)
                      .|+|.+|..++.+-.+.+-.| ...|.....+.-+.|+.+.+..++.++.+.--.++..+.-+........|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            588888888888876655332 2346666677778889999988888888775566777788888888889999888887


Q ss_pred             HHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCc
Q 006580          304 FEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSN  380 (640)
Q Consensus       304 ~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~  380 (640)
                      ++++.+   .++........+|.+.|++.....++..|.+.|.-.|...-                ++           -
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~----------------~l-----------e  228 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAA----------------RL-----------E  228 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHH----------------HH-----------H
Confidence            776544   57778888999999999999999999999998765443211                11           1


Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 006580          381 AVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLAC  457 (640)
Q Consensus       381 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  457 (640)
                      ..+++.+++-....+..+.-...|+..+   +.++..-.+++.-+.+.|+.++|.++..+..+.+..|+..+    .-.+
T Consensus       229 ~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~----~~~~  304 (400)
T COG3071         229 QQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCR----LIPR  304 (400)
T ss_pred             HHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHH----HHhh
Confidence            1233445554455555555556777766   34677777788888999999999999999998877777322    2346


Q ss_pred             hccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCChHHHHH
Q 006580          458 NYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPGCSIWESILRASAIYGDVKLTEN  536 (640)
Q Consensus       458 ~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~  536 (640)
                      .+.++...-++..+.-.+.++..|  ..+.+|...|.+.+.+.+|.+.|+... ..|+...|+-+..++.+.|+..+|.+
T Consensus       305 l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~  382 (400)
T COG3071         305 LRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQ  382 (400)
T ss_pred             cCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHH
Confidence            677888777777777666444444  677888888888888888888888766 78888888888888888888888888


Q ss_pred             HHHHHHhc
Q 006580          537 VAERMMDL  544 (640)
Q Consensus       537 ~~~~~~~~  544 (640)
                      +.++.+..
T Consensus       383 ~r~e~L~~  390 (400)
T COG3071         383 VRREALLL  390 (400)
T ss_pred             HHHHHHHH
Confidence            88887754

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.48  E-value=3e-11  Score=120.22  Aligned_cols=275  Identities=8%  Similarity=-0.020  Sum_probs=197.0

Q ss_pred             hcCCHHHHHHHHHhcCCC--Chhh-HHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHH--hhCCC-CChHHHH
Q 006580          293 KCNRLEDSVRLFEQLDRW--DYAV-INVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVL--SSIPI-PPVEHGS  366 (640)
Q Consensus       293 ~~g~~~~A~~~~~~~~~~--~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l--~~~~~-~~~~~a~  366 (640)
                      ..|+++.|.+.+....+.  ++.. +-....+..+.|+++.|.+.+.++.+.  .|+......+.  ..... |+.+.|.
T Consensus        96 ~eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         96 AEGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             hCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            369999999888876653  2233 333344457889999999999998764  55554333222  23333 8999999


Q ss_pred             HHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCC---Chh--------HHHHHHHHHHhCCChHHHHHHH
Q 006580          367 QFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKR---DLV--------SWNTIMMGLTQNGRAAETLDVF  435 (640)
Q Consensus       367 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~--------~~~~li~~~~~~g~~~~a~~~~  435 (640)
                      ..++.+.+.. |.++.....+...|.+.|++++|.+++..+.+.   +..        .|..++.......+.+...+++
T Consensus       174 ~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w  252 (398)
T PRK10747        174 HGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWW  252 (398)
T ss_pred             HHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            9998888776 666778888889999999999999888888732   111        3333344444445566666666


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-
Q 006580          436 EELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-  513 (640)
Q Consensus       436 ~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-  513 (640)
                      +.+-+. .+.+......+..++...|+.++|.+.+++..+.   +|+....  ++.+....++.+++.+.+++.. ..| 
T Consensus       253 ~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~  326 (398)
T PRK10747        253 KNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGD  326 (398)
T ss_pred             HhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCC
Confidence            666443 3456677788888889999999999998877653   4555322  2233345588888988888876 445 


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          514 GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       514 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      |+..+..+...|...+++++|.+.|+++++..|++ ..+..++.++.+.|+.++|...+++-..
T Consensus       327 ~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~-~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        327 TPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDA-YDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            66678888899999999999999999999988865 5567888899999999999888886644

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.47  E-value=1.3e-11  Score=120.64  Aligned_cols=283  Identities=13%  Similarity=0.075  Sum_probs=184.5

Q ss_pred             hhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCC--CCchhHHHHHHHHHHhcCCHHHHHHHH
Q 006580          227 GELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGF--LSNSIVLSATIDLFSKCNRLEDSVRLF  304 (640)
Q Consensus       227 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~  304 (640)
                      .++|+..|.+..+ .+.-+......+.++|...+++++++++|+.+.+...  .-+..+|.+.+-.+-+.-.+.---.-+
T Consensus       335 ~~~A~~~~~klp~-h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~L  413 (638)
T KOG1126|consen  335 CREALNLFEKLPS-HHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDL  413 (638)
T ss_pred             HHHHHHHHHhhHH-hcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHH
Confidence            3455555555332 1222222334445555555566666666655554421  123334444433222211111111111


Q ss_pred             HhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHH
Q 006580          305 EQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVA  384 (640)
Q Consensus       305 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  384 (640)
                      -.+....+.+|.++..+|.-+++.+.|++.|++..+                                  .+ +.....|
T Consensus       414 i~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ----------------------------------ld-p~faYay  458 (638)
T KOG1126|consen  414 IDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ----------------------------------LD-PRFAYAY  458 (638)
T ss_pred             HhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc----------------------------------cC-Cccchhh
Confidence            112223445566666666666666666665555544                                  21 2245566


Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCCCCChhHHHH---HHHHHHhCCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhcc
Q 006580          385 SSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNT---IMMGLTQNGRAAETLDVFEELLEEGLPPDR-ITLAAVLLACNYG  460 (640)
Q Consensus       385 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~  460 (640)
                      +.+..-+.....+|.|...|+.....|+..||+   +...|.+.++++.|+-.|++..+  +.|.. +....+...+.+.
T Consensus       459 TLlGhE~~~~ee~d~a~~~fr~Al~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~--INP~nsvi~~~~g~~~~~~  536 (638)
T KOG1126|consen  459 TLLGHESIATEEFDKAMKSFRKALGVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE--INPSNSVILCHIGRIQHQL  536 (638)
T ss_pred             hhcCChhhhhHHHHhHHHHHHhhhcCCchhhHHHHhhhhheeccchhhHHHHHHHhhhc--CCccchhHHhhhhHHHHHh
Confidence            777777778888999999999988777766655   56789999999999999999998  56654 4555666778889


Q ss_pred             CCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHH
Q 006580          461 GFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVA  538 (640)
Q Consensus       461 ~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  538 (640)
                      |+.++|++++++....  -+-|+..--..+..+...+++++|+..++++. ..| +...+..+...|.+.|+.+.|+.-|
T Consensus       537 k~~d~AL~~~~~A~~l--d~kn~l~~~~~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f  614 (638)
T KOG1126|consen  537 KRKDKALQLYEKAIHL--DPKNPLCKYHRASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHF  614 (638)
T ss_pred             hhhhHHHHHHHHHHhc--CCCCchhHHHHHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhh
Confidence            9999999999988753  23344455556777888999999999999998 666 5667888899999999999999999


Q ss_pred             HHHHhcCCCCh
Q 006580          539 ERMMDLQLPSP  549 (640)
Q Consensus       539 ~~~~~~~p~~~  549 (640)
                      .-+..++|+-.
T Consensus       615 ~~A~~ldpkg~  625 (638)
T KOG1126|consen  615 SWALDLDPKGA  625 (638)
T ss_pred             HHHhcCCCccc
Confidence            99999999654

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.47  E-value=1.8e-09  Score=101.10  Aligned_cols=423  Identities=13%  Similarity=0.087  Sum_probs=271.7

Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh---chhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChH
Q 006580          121 GYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS---SACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLY  197 (640)
Q Consensus       121 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  197 (640)
                      .-..++++..|..+|+..+... .-+...|.-.+.+=.   .+.+|+.+++..+..  .|.-...|-..+-+--..|++.
T Consensus        82 wEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymEE~LgNi~  158 (677)
T KOG1915|consen   82 WEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYMEEMLGNIA  158 (677)
T ss_pred             HHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHHHHhcccH
Confidence            3344567777888888877642 111111111111111   677788888887777  6666666666666666667788


Q ss_pred             HHHHHHhccC--CCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHh
Q 006580          198 YAFGVFLNME--ELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKV  275 (640)
Q Consensus       198 ~A~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  275 (640)
                      .|.++|+.-.  +|+...|++.|+.-.+...++.|..++++..-  +.|+..+|.-..+.=.+.|+...+..+|+.+++.
T Consensus       159 gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~  236 (677)
T KOG1915|consen  159 GARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEF  236 (677)
T ss_pred             HHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            8888887655  67777888888777777778888888877765  3477777777777777777777777777766654


Q ss_pred             -CC-CCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC----CC-hhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChh
Q 006580          276 -GF-LSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR----WD-YAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEF  348 (640)
Q Consensus       276 -~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  348 (640)
                       |- ..+...+.++...-.++..++.|.-+|+-..+    .. ...|......=-+-|+-.......-            
T Consensus       237 ~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv------------  304 (677)
T KOG1915|consen  237 LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIV------------  304 (677)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHh------------
Confidence             11 11223344444444444555555555443221    00 1111111111111122111111100            


Q ss_pred             hHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC--CCh---hHHHHHH----
Q 006580          349 TLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK--RDL---VSWNTIM----  419 (640)
Q Consensus       349 t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~---~~~~~li----  419 (640)
                                    .+-.--++..++.+ +.|-.++--.++.-...|+.+...++|++...  |..   ..|...|    
T Consensus       305 --------------~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWi  369 (677)
T KOG1915|consen  305 --------------GKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWI  369 (677)
T ss_pred             --------------hhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHH
Confidence                          00011122333322 45555666667777778888888888888762  211   1122211    


Q ss_pred             ----HHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH----hccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHH
Q 006580          420 ----MGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLAC----NYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIID  491 (640)
Q Consensus       420 ----~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~----~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  491 (640)
                          -.-....+.+.+.++++..++. ++-...||.-+--.|    .++.++..|.+++....   |.-|...++...|.
T Consensus       370 nYalyeEle~ed~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI---G~cPK~KlFk~YIe  445 (677)
T KOG1915|consen  370 NYALYEELEAEDVERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI---GKCPKDKLFKGYIE  445 (677)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh---ccCCchhHHHHHHH
Confidence                1123467889999999999884 455556766554333    46788999999998776   88999999999999


Q ss_pred             HHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC--hhHHHHHHHHHHhcCChHH
Q 006580          492 LLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPS--PLPYSLLTQAYAMRGRWEA  567 (640)
Q Consensus       492 ~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~  567 (640)
                      .-.+.++++...+++++.. ..| +..+|......-...|+.+.|..+|+-++.....+  ...|...++.=...|.+++
T Consensus       446 lElqL~efDRcRkLYEkfle~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ek  525 (677)
T KOG1915|consen  446 LELQLREFDRCRKLYEKFLEFSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEK  525 (677)
T ss_pred             HHHHHhhHHHHHHHHHHHHhcChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHH
Confidence            9999999999999999987 666 88899999988889999999999999998774422  3456677777788999999


Q ss_pred             HHHHHHHHHhCC
Q 006580          568 IVRVKKVMRKNG  579 (640)
Q Consensus       568 a~~~~~~m~~~~  579 (640)
                      |..+++++.+..
T Consensus       526 aR~LYerlL~rt  537 (677)
T KOG1915|consen  526 ARALYERLLDRT  537 (677)
T ss_pred             HHHHHHHHHHhc
Confidence            999999998865

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.46  E-value=6.7e-10  Score=106.52  Aligned_cols=261  Identities=10%  Similarity=0.036  Sum_probs=186.8

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChh---hHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhh
Q 006580          280 NSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYA---VINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSS  356 (640)
Q Consensus       280 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~  356 (640)
                      +..+.....+-+...+++.+..++++.+.+.|+.   .+..-|.++...|+..+-..+=.+|.+.               
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~---------------  307 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL---------------  307 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh---------------
Confidence            4444444455555555566655555555443322   2333344444555544444444444432               


Q ss_pred             CCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCC---ChhHHHHHHHHHHhCCChHHHHH
Q 006580          357 IPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKR---DLVSWNTIMMGLTQNGRAAETLD  433 (640)
Q Consensus       357 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~  433 (640)
                                          .|..+.+|-++.-.|.-.|+..+|++.|.+...-   =...|-.+..+|+-.|..++|+.
T Consensus       308 --------------------yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAma  367 (611)
T KOG1173|consen  308 --------------------YPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMA  367 (611)
T ss_pred             --------------------CCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHH
Confidence                                2555666777777787889999999999887733   23578899999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--
Q 006580          434 VFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMP-GEEHYACIIDLLCQAGQLGKAIDITSTMP--  510 (640)
Q Consensus       434 ~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--  510 (640)
                      .+...-+. ++-....+..+..-|.+.++.+.|.++|....   ++.| |+..++-+.-.....+.+.+|..+|+...  
T Consensus       368 aY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~---ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~  443 (611)
T KOG1173|consen  368 AYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQAL---AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEV  443 (611)
T ss_pred             HHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHH---hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHH
Confidence            99888774 22233334445556788899999999999876   4555 45667777777778889999999988765  


Q ss_pred             ------CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          511 ------FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       511 ------~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                            .++ =.++++.|.-+|++.+.+++|+..+++++.+.|.++.+|..++-+|...|+++.|...|.+.....
T Consensus       444 ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~  519 (611)
T KOG1173|consen  444 IKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALK  519 (611)
T ss_pred             hhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcC
Confidence                  111 245688899999999999999999999999999999999999999999999999999998876543

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.46  E-value=2.6e-13  Score=129.02  Aligned_cols=251  Identities=14%  Similarity=0.146  Sum_probs=111.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhc-CC----CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-
Q 006580          286 ATIDLFSKCNRLEDSVRLFEQL-DR----WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-  359 (640)
Q Consensus       286 ~l~~~~~~~g~~~~A~~~~~~~-~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-  359 (640)
                      .+...+.+.|++++|++++++. ..    .+...|..+.......++++.|.+.++++...+.. +...+..++.. .. 
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            3455566666666666666332 11    23444555555555666677777777776654322 33334444444 34 


Q ss_pred             CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC-----CCChhHHHHHHHHHHhCCChHHHHHH
Q 006580          360 PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD-----KRDLVSWNTIMMGLTQNGRAAETLDV  434 (640)
Q Consensus       360 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~a~~~  434 (640)
                      ++.+.|..+.....+.  .+++..+..++..+.+.++++++.++++.+.     ..+...|..+...+.+.|++++|++.
T Consensus        91 ~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             cccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            6777777666555443  2455666778888999999999999988854     34677888899999999999999999


Q ss_pred             HHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CC
Q 006580          435 FEELLEEGLPPD-RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQ  512 (640)
Q Consensus       435 ~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~  512 (640)
                      +++..+.  .|+ ......++..+...|+.+++.++++...+.  .+.++..+..+..+|...|+.++|+..+++.. ..
T Consensus       169 ~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~--~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~  244 (280)
T PF13429_consen  169 YRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKA--APDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN  244 (280)
T ss_dssp             HHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHH--CcCHHHHHHHHHHHhcccccccccccccccccccc
Confidence            9999994  665 567888999999999999999999988875  26677788899999999999999999999987 34


Q ss_pred             C-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          513 P-GCSIWESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       513 ~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                      | |+.....+..++...|+.++|.++.+++.+.
T Consensus       245 p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~~  277 (280)
T PF13429_consen  245 PDDPLWLLAYADALEQAGRKDEALRLRRQALRL  277 (280)
T ss_dssp             TT-HHHHHHHHHHHT------------------
T ss_pred             ccccccccccccccccccccccccccccccccc
Confidence            4 8889999999999999999999999887653

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.45  E-value=9.5e-10  Score=102.83  Aligned_cols=251  Identities=9%  Similarity=0.024  Sum_probs=188.4

Q ss_pred             HHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhC-CC-CChHHHHHHHHHHHHhCC--CCchHHHHHHHHHHHhc
Q 006580          319 ISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSI-PI-PPVEHGSQFHSMAIKSGF--DSNAVVASSLMEMYAKT  394 (640)
Q Consensus       319 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~-~~-~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~  394 (640)
                      ..++-...+.+++.+-...+...|+.-+.. +.+.+.++ .. .|+++|..+|+.+.+...  -.|..+|+.++  |++.
T Consensus       234 ~~a~~el~q~~e~~~k~e~l~~~gf~~~~~-i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~L--Yv~~  310 (559)
T KOG1155|consen  234 KKAYQELHQHEEALQKKERLSSVGFPNSMY-IKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVL--YVKN  310 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCCccHH-HHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHH--HHHh
Confidence            344555556677777777777666544333 33333333 33 788888888888887732  12455555544  3333


Q ss_pred             CC--hH-HHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccCCHHHHHHHH
Q 006580          395 GS--ID-SSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI-TLAAVLLACNYGGFVDKGMLVF  470 (640)
Q Consensus       395 g~--~~-~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~A~~~~  470 (640)
                      .+  +. -|..++ .+.+--+.|.-++..-|.-.++.++|...|++..+  +.|... .++.+..-|...++...|++.+
T Consensus       311 ~~skLs~LA~~v~-~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALk--LNp~~~~aWTLmGHEyvEmKNt~AAi~sY  387 (559)
T KOG1155|consen  311 DKSKLSYLAQNVS-NIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALK--LNPKYLSAWTLMGHEYVEMKNTHAAIESY  387 (559)
T ss_pred             hhHHHHHHHHHHH-HhccCCccceeeehhHHHHHHhHHHHHHHHHHHHh--cCcchhHHHHHhhHHHHHhcccHHHHHHH
Confidence            22  11 122222 22233345666677778888999999999999998  456654 6666667799999999999999


Q ss_pred             HHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 006580          471 SAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPS  548 (640)
Q Consensus       471 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  548 (640)
                      +...+  -.+.|-..|-.|.++|.-.+.+.-|+-+|+++. .+| |...|.+|...|.+.++.++|+..|.+++..+--+
T Consensus       388 RrAvd--i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte  465 (559)
T KOG1155|consen  388 RRAVD--INPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTE  465 (559)
T ss_pred             HHHHh--cCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccc
Confidence            99885  334567789999999999999999999999987 677 88899999999999999999999999999998778


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          549 PLPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       549 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      ..+|..|+++|-+.++.++|...+++..+
T Consensus       466 ~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  466 GSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             hHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            89999999999999999999999988765

>TIGR00540 hemY_coli hemY protein

Probab=99.44  E-value=6e-11  Score=118.85  Aligned_cols=278  Identities=9%  Similarity=-0.024  Sum_probs=153.1

Q ss_pred             HhcCCHHHHHHHHHhcCCC--Ch-hhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhh--HHHHHhhCCC-CChHHH
Q 006580          292 SKCNRLEDSVRLFEQLDRW--DY-AVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFT--LSCVLSSIPI-PPVEHG  365 (640)
Q Consensus       292 ~~~g~~~~A~~~~~~~~~~--~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t--~~~~l~~~~~-~~~~~a  365 (640)
                      ...|+++.|.+.+.+..+.  +. ..+-....+..+.|+++.|.+.+.+..+.  .|+...  -......... |+.+.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHHH
Confidence            4567788887777766542  21 22333345566677788888877777653  233321  1111222233 677777


Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCC---ChhHHHH----HHHHHHhCCChHHHHHHHHHH
Q 006580          366 SQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKR---DLVSWNT----IMMGLTQNGRAAETLDVFEEL  438 (640)
Q Consensus       366 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~----li~~~~~~g~~~~a~~~~~~m  438 (640)
                      ...++.+.+.. |.++.+...+...+.+.|+++.|.+.+..+.+.   +...+..    ...+....+..+++.+.+..+
T Consensus       173 l~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       173 RHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            77777766664 445556666677777777777777766666532   2222211    111222233333344455555


Q ss_pred             HHCCCC---CCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHH-HHHHHH--HHhcCChHHHHHHHHhCC-C
Q 006580          439 LEEGLP---PDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHY-ACIIDL--LCQAGQLGKAIDITSTMP-F  511 (640)
Q Consensus       439 ~~~g~~---p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~-~~l~~~--~~~~g~~~~A~~~~~~~~-~  511 (640)
                      .+....   .+...+..+...+...|+.++|.+.+++..+.   .|+.... ..++..  ....++.+.+.+.+++.. .
T Consensus       252 ~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~  328 (409)
T TIGR00540       252 WKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN  328 (409)
T ss_pred             HHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh
Confidence            553211   15556666666677777777777777766653   2332210 001111  223355666666666554 3


Q ss_pred             CC-CH--HHHHHHHHHHHHcCChHHHHHHHHH--HHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          512 QP-GC--SIWESILRASAIYGDVKLTENVAER--MMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       512 ~~-~~--~~~~~l~~~~~~~~~~~~a~~~~~~--~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                      .| |+  ....++...|.+.|++++|.+.+++  +.+..|++ ..+..++..+.+.|+.++|.+++++..
T Consensus       329 ~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~-~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       329 VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDA-NDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33 34  4556667777777777777777773  44455543 335577777777777777777776543

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.

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.44  E-value=4.4e-10  Score=105.71  Aligned_cols=217  Identities=14%  Similarity=0.037  Sum_probs=169.9

Q ss_pred             HHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHH
Q 006580          321 TYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDS  399 (640)
Q Consensus       321 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  399 (640)
                      -+.-.|+.-.|..-|+..+.....++.. |..+-..+.. .+.++....|..+.+.+ +.++.+|..=.+++.-.++++.
T Consensus       335 F~fL~g~~~~a~~d~~~~I~l~~~~~~l-yI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~  412 (606)
T KOG0547|consen  335 FHFLKGDSLGAQEDFDAAIKLDPAFNSL-YIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEE  412 (606)
T ss_pred             hhhhcCCchhhhhhHHHHHhcCcccchH-HHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHH
Confidence            3455688888999999888865444442 5555556667 88888888998888876 5567777777788888899999


Q ss_pred             HHHHHHhCCCC---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHh
Q 006580          400 STEIFVKLDKR---DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEE  476 (640)
Q Consensus       400 A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~  476 (640)
                      |..-|++...-   ++..|-.+.-+..+.+++++++..|++.++. ++.....|+.....+...++++.|.+.|+...+.
T Consensus       413 A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  413 AIADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            99999998843   4556666766777889999999999999986 6666789999999999999999999999988753


Q ss_pred             hCCCCC---------hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          477 YGVMPG---------EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       477 ~~~~p~---------~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                         .|+         +.+-..++. +.-.+++..|.++++++. ..| ....+.+|...-.+.|+.++|+++|++...+
T Consensus       492 ---E~~~~~~~v~~~plV~Ka~l~-~qwk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~l  566 (606)
T KOG0547|consen  492 ---EPREHLIIVNAAPLVHKALLV-LQWKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQL  566 (606)
T ss_pred             ---ccccccccccchhhhhhhHhh-hchhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence               333         112222222 223489999999999987 566 5668999999999999999999999998877

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.39  E-value=1.5e-10  Score=107.42  Aligned_cols=198  Identities=16%  Similarity=0.077  Sum_probs=166.8

Q ss_pred             chHHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 006580          380 NAVVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLA  456 (640)
Q Consensus       380 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  456 (640)
                      ....+..+...+...|++++|...+++..+   .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
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            355667788899999999999999988762   356678888899999999999999999999853 3455677788888


Q ss_pred             HhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHH
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLT  534 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a  534 (640)
                      +...|++++|.+.++...+..........+..+...+...|++++|.+.+++.. ..| +...+..+...+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999988642223345567778889999999999999999876 444 577888999999999999999


Q ss_pred             HHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          535 ENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       535 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      ...++++++..|.++..+..++..+...|+.++|..+.+.+...
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            99999999998888888889999999999999999998887654

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.

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.39  E-value=6e-09  Score=100.16  Aligned_cols=470  Identities=13%  Similarity=0.019  Sum_probs=269.7

Q ss_pred             ChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhc--CCCCChhhHHHHHHHH
Q 006580           14 SLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDE--IPQKNCISWNICLRGL   91 (640)
Q Consensus        14 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~--~~~~~~~~~~~ll~~~   91 (640)
                      +..-+..+++-+..+.++..|.-+-++....+..|+.  ---+++++.-.|+++.|..+...  +.+.|..........+
T Consensus        15 s~~~~~~~~r~~l~q~~y~~a~f~adkV~~l~~dp~d--~~~~aq~l~~~~~y~ra~~lit~~~le~~d~~cryL~~~~l   92 (611)
T KOG1173|consen   15 SLEKYRRLVRDALMQHRYKTALFWADKVAGLTNDPAD--IYWLAQVLYLGRQYERAAHLITTYKLEKRDIACRYLAAKCL   92 (611)
T ss_pred             cHHHHHHHHHHHHHHHhhhHHHHHHHHHHhccCChHH--HHHHHHHHHhhhHHHHHHHHHHHhhhhhhhHHHHHHHHHHH
Confidence            4566788888888889999999999888776644433  33466778888889988888765  4457888888899999


Q ss_pred             hcCCChhHHHHHhcc----CCC-------------CCcch----HHHHHH-------HHHhCCChHHHHHHHHHHHHCCC
Q 006580           92 LKSDNLDTALKVFDE----IPE-------------PDVVS----WNSMIS-------GYASCGYSDYALEMFSKMQLQGV  143 (640)
Q Consensus        92 ~~~~~~~~A~~~~~~----~~~-------------~~~~~----y~~li~-------~~~~~~~~~~a~~~~~~m~~~g~  143 (640)
                      .+..+++.|..++..    +..             +|..-    -+.-..       .|....+.++|...|.+...   
T Consensus        93 ~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~---  169 (611)
T KOG1173|consen   93 VKLKEWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALL---  169 (611)
T ss_pred             HHHHHHHHHHHHhcccchhhcchhhcchhhhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHh---
Confidence            999999999999983    220             11111    111112       23334456666666666544   


Q ss_pred             CCChhhHHHHHHHHh-chhHHHHHHHHHHHhC---CCCCchhHHHHHHHhhhcCCChHHHHHHHh--ccC--CCCeeeHH
Q 006580          144 RPSGFTFSILLSTVS-SACHGKQIHGSMIRSG---LSLSNVVLGNSLIDMYGKLGVLYYAFGVFL--NME--ELDIISWN  215 (640)
Q Consensus       144 ~p~~~t~~~ll~~~~-~~~~a~~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~A~~~~~--~~~--~~~~~~~~  215 (640)
                       .|...|..+..... ..-.+.+.++.+....   ....+......+.....-...-++....-.  .+.  +.+.....
T Consensus       170 -~D~~c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll~  248 (611)
T KOG1173|consen  170 -ADAKCFEAFEKLVSAHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLLA  248 (611)
T ss_pred             -cchhhHHHHHHHHHHHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHHH
Confidence             35555555544444 3333323333222211   011112111112111100000000000000  000  12334444


Q ss_pred             HHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC
Q 006580          216 SLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCN  295 (640)
Q Consensus       216 ~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  295 (640)
                      .-.+-+...+++++...+.+...+. .++....+..-|.++...|+..+-..+-..+++.- +....+|-++.-.|.-.|
T Consensus       249 ~~ad~~y~~c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~  326 (611)
T KOG1173|consen  249 EKADRLYYGCRFKECLKITEELLEK-DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIG  326 (611)
T ss_pred             HHHHHHHHcChHHHHHHHhHHHHhh-CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhc
Confidence            5556777889999999999998874 34566666666778888888887777777777653 456778888888888889


Q ss_pred             CHHHHHHHHHhcCCCC---hhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHH
Q 006580          296 RLEDSVRLFEQLDRWD---YAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSM  371 (640)
Q Consensus       296 ~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~  371 (640)
                      ..++|.+.|.+...-|   ...|-....+|+-.|.-+.|+..+...-+.-..-....+-.-+ -+.+ ++.+.|.+++.+
T Consensus       327 k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgm-ey~~t~n~kLAe~Ff~~  405 (611)
T KOG1173|consen  327 KYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGM-EYMRTNNLKLAEKFFKQ  405 (611)
T ss_pred             CcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHH-HHHHhccHHHHHHHHHH
Confidence            9999999998876533   3478888889999999999998887765531111111111111 1222 555555555555


Q ss_pred             HHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHC--CC---CC-
Q 006580          372 AIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEE--GL---PP-  445 (640)
Q Consensus       372 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~---~p-  445 (640)
                      +.... |.|+.+.+-+.-.....+                               .+.+|..+|+..+..  .+   ++ 
T Consensus       406 A~ai~-P~Dplv~~Elgvvay~~~-------------------------------~y~~A~~~f~~~l~~ik~~~~e~~~  453 (611)
T KOG1173|consen  406 ALAIA-PSDPLVLHELGVVAYTYE-------------------------------EYPEALKYFQKALEVIKSVLNEKIF  453 (611)
T ss_pred             HHhcC-CCcchhhhhhhheeehHh-------------------------------hhHHHHHHHHHHHHHhhhccccccc
Confidence            44432 334444444444444444                               444444444444310  00   01 


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCHHHHHHHHHH
Q 006580          446 DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPGCSIWESILRA  524 (640)
Q Consensus       446 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~  524 (640)
                      -..+++.|..+|.+.+.+++|+..++....  -.+-+..++.++.-.|...|+++.|.+.|.+.. .+|+..+...++..
T Consensus       454 w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~--l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~  531 (611)
T KOG1173|consen  454 WEPTLNNLGHAYRKLNKYEEAIDYYQKALL--LSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKL  531 (611)
T ss_pred             hhHHHHhHHHHHHHHhhHHHHHHHHHHHHH--cCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHH
Confidence            123455555556666666666666665554  234445555566556666666666666666555 55655544444444


Q ss_pred             HH
Q 006580          525 SA  526 (640)
Q Consensus       525 ~~  526 (640)
                      +.
T Consensus       532 ai  533 (611)
T KOG1173|consen  532 AI  533 (611)
T ss_pred             HH
Confidence            43

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.38  E-value=8e-09  Score=95.28  Aligned_cols=374  Identities=11%  Similarity=0.010  Sum_probs=247.1

Q ss_pred             CCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeH-HHHHHHHHhcCC--hhH-------------HHHHHHHhHHC
Q 006580          177 LSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISW-NSLISGCFNSGY--GEL-------------ALDQFYSMRYS  240 (640)
Q Consensus       177 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~li~~~~~~~~--~~~-------------A~~~~~~m~~~  240 (640)
                      +.+....--.+.+|...++-+.|...+.+.+..-...- |.++.-+.+.|.  .+.             |++.+.-..+.
T Consensus        94 ~~~~e~~r~~aecy~~~~n~~~Ai~~l~~~p~t~r~p~inlMla~l~~~g~r~~~~vl~ykevvrecp~aL~~i~~ll~l  173 (564)
T KOG1174|consen   94 FGDAEQRRRAAECYRQIGNTDMAIETLLQVPPTLRSPRINLMLARLQHHGSRHKEAVLAYKEVIRECPMALQVIEALLEL  173 (564)
T ss_pred             cccHHHHHHHHHHHHHHccchHHHHHHhcCCccccchhHHHHHHHHHhccccccHHHHhhhHHHHhcchHHHHHHHHHHH
Confidence            44555556667777777888888888777764322222 222222222221  111             22222222222


Q ss_pred             C---------------CCCCcchHHHHHHHHhc--cCCchHHHHHHHHHHHh-CCCCchhHHHHHHHHHHhcCCHHHHHH
Q 006580          241 G---------------YSPDEYTISIVINACTK--LRNLDKGKQVFALSVKV-GFLSNSIVLSATIDLFSKCNRLEDSVR  302 (640)
Q Consensus       241 g---------------~~p~~~t~~~ll~~~~~--~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~  302 (640)
                      +               +.|...+....+.+++.  .++-..+...+-.+... -++-|......+..++...|+.++|+.
T Consensus       174 ~v~g~e~~S~~m~~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~  253 (564)
T KOG1174|consen  174 GVNGNEINSLVMHAATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAED  253 (564)
T ss_pred             hhcchhhhhhhhhheecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHH
Confidence            2               23444444444554433  34444444444444433 356677889999999999999999999


Q ss_pred             HHHhcCCCChhhHHH---HHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCC
Q 006580          303 LFEQLDRWDYAVINV---MISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDS  379 (640)
Q Consensus       303 ~~~~~~~~~~~~~~~---li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~  379 (640)
                      .|++..--|+.+...   ..-.+.+.|+.+....+...+....-..-...|...-..+...+.+.|..+-++.++.+ +.
T Consensus       254 ~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r  332 (564)
T KOG1174|consen  254 IFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PR  332 (564)
T ss_pred             HHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cc
Confidence            999887655443322   23345678888888888777765421111222222222222278888888888877754 33


Q ss_pred             chHHHHHHHHHHHhcCChHHHHHHHHhCC--C-CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHH-H
Q 006580          380 NAVVASSLMEMYAKTGSIDSSTEIFVKLD--K-RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVL-L  455 (640)
Q Consensus       380 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll-~  455 (640)
                      +...+-.-..++...|++++|.-.|+...  . -+..+|.-|+.+|...|++.+|+-+-+..... ++.+..+...+. .
T Consensus       333 ~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~  411 (564)
T KOG1174|consen  333 NHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTL  411 (564)
T ss_pred             cchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcce
Confidence            44444444567788999999999998876  4 37889999999999999999999888777664 455556655542 2


Q ss_pred             HHh-ccCCHHHHHHHHHHhHHhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCChH
Q 006580          456 ACN-YGGFVDKGMLVFSAMKEEYGVMPG-EEHYACIIDLLCQAGQLGKAIDITSTMP-FQPGCSIWESILRASAIYGDVK  532 (640)
Q Consensus       456 ~~~-~~~~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~  532 (640)
                      .|. ....-++|..++++-.   .+.|+ ......+...+...|+.+.++.++++.. ..||....+.|...+...+.+.
T Consensus       412 V~~~dp~~rEKAKkf~ek~L---~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q  488 (564)
T KOG1174|consen  412 VLFPDPRMREKAKKFAEKSL---KINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQ  488 (564)
T ss_pred             eeccCchhHHHHHHHHHhhh---ccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHH
Confidence            332 3344578888888765   44565 3456777888999999999999999987 8899999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCChhHHHHH
Q 006580          533 LTENVAERMMDLQLPSPLPYSLL  555 (640)
Q Consensus       533 ~a~~~~~~~~~~~p~~~~~~~~l  555 (640)
                      +|.+.|..++.++|.+..+...|
T Consensus       489 ~am~~y~~ALr~dP~~~~sl~Gl  511 (564)
T KOG1174|consen  489 KAMEYYYKALRQDPKSKRTLRGL  511 (564)
T ss_pred             HHHHHHHHHHhcCccchHHHHHH
Confidence            99999999999999886554433

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.35  E-value=1.9e-08  Score=100.43  Aligned_cols=452  Identities=11%  Similarity=0.033  Sum_probs=270.1

Q ss_pred             hCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh------chhHH-------------------HHH----HHHHHHhC
Q 006580          124 SCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS------SACHG-------------------KQI----HGSMIRSG  174 (640)
Q Consensus       124 ~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~------~~~~a-------------------~~~----~~~~~~~~  174 (640)
                      ..++.+.++.-+......+...+..++..+.....      +.+.+                   ...    +.++.. +
T Consensus       239 ~~~~~~~~i~s~~~~l~~~w~~~~l~ka~l~~~~~~f~~~~~~Ee~~Lllli~es~i~Re~~~d~ilslm~~~~k~r~-~  317 (799)
T KOG4162|consen  239 KLSGPKEAIKSYRRALLRSWSLDPLTKARLYKGFALFLPKSGQEEVILLLLIEESLIPRENIEDAILSLMLLLRKLRL-K  317 (799)
T ss_pred             CCCCchHHHHhhhHHhhcccccchhHHHHHhhcccccCCCCcHHHHHHHHHHHhhccccccHHHHHHHHHHHHHHHHH-h
Confidence            34666777777777777777777777776655554      22222                   111    111111 1


Q ss_pred             CCCCchhHHHHHHHhhhcCCChHHHHHHHhccCC---CCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHH
Q 006580          175 LSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEE---LDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISI  251 (640)
Q Consensus       175 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~  251 (640)
                      .+..+..+|..|.-+..++|+++.+-+.|++...   .....|+.+...+...|.-..|+.+++.-....-.|+..+-..
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            1455777777777778888888888888877653   2345677777778888888888888877655333344333322


Q ss_pred             H-HHHH-hccCCchHHHHHHHHHHHh--CC--CCchhHHHHHHHHHHhc-----------CCHHHHHHHHHhcCC---CC
Q 006580          252 V-INAC-TKLRNLDKGKQVFALSVKV--GF--LSNSIVLSATIDLFSKC-----------NRLEDSVRLFEQLDR---WD  311 (640)
Q Consensus       252 l-l~~~-~~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~~~~-----------g~~~~A~~~~~~~~~---~~  311 (640)
                      + -..| .+.+..+++..+-..++..  +.  ......|..+.-+|...           ....++++.+++..+   .|
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~d  477 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTD  477 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCC
Confidence            2 2333 2456666666666666552  11  11233344444444321           123345555555533   23


Q ss_pred             hhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHH
Q 006580          312 YAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEM  390 (640)
Q Consensus       312 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  390 (640)
                      ..+.--+.--|+..++.+.|++..++..+.+-.-+...|..+.-.+.. +++..|..+.+.....- +.|......-++.
T Consensus       478 p~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~-~~N~~l~~~~~~i  556 (799)
T KOG4162|consen  478 PLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF-GDNHVLMDGKIHI  556 (799)
T ss_pred             chHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh-hhhhhhchhhhhh
Confidence            322222333456667777777777777776555566666655555555 77777777666555421 1111111122222


Q ss_pred             HHhcCChHHHHHHHHhCCC-----CChhHH---HHHHH----HHHhCCChHHHHHHHHHHH--------HCC--------
Q 006580          391 YAKTGSIDSSTEIFVKLDK-----RDLVSW---NTIMM----GLTQNGRAAETLDVFEELL--------EEG--------  442 (640)
Q Consensus       391 ~~~~g~~~~A~~~~~~~~~-----~~~~~~---~~li~----~~~~~g~~~~a~~~~~~m~--------~~g--------  442 (640)
                      -..-++.+++......+..     +.+..-   ..+..    .....++..+|.+....+.        ..|        
T Consensus       557 ~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s  636 (799)
T KOG4162|consen  557 ELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSS  636 (799)
T ss_pred             hhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcc
Confidence            2335566665555444431     100000   00000    0001122333332222211        111        


Q ss_pred             -CC--CCH------HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CC
Q 006580          443 -LP--PDR------ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQ  512 (640)
Q Consensus       443 -~~--p~~------~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~  512 (640)
                       +.  |+.      ..+......+.+.++.++|...+.+...  ..+.....|......+...|++++|.+.|.... ..
T Consensus       637 ~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ld  714 (799)
T KOG4162|consen  637 TVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALD  714 (799)
T ss_pred             cccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcC
Confidence             11  221      1233445667788899999988888775  334455667777788899999999999998887 67


Q ss_pred             C-CHHHHHHHHHHHHHcCChHHHHH--HHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          513 P-GCSIWESILRASAIYGDVKLTEN--VAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       513 ~-~~~~~~~l~~~~~~~~~~~~a~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      | ++.+..++...+.+.|+...|..  ++..+++.+|.++..|..++.++.+.|+.++|.+-|.......
T Consensus       715 P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  715 PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLE  784 (799)
T ss_pred             CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhc
Confidence            7 67799999999999998888888  9999999999999999999999999999999999999887654

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.35  E-value=1.1e-07  Score=92.79  Aligned_cols=508  Identities=15%  Similarity=0.106  Sum_probs=315.6

Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHhcCCC-----CChhhHHHHHHHHhcCCChhHHHHHhccCCCCCcchHHHHHHHHHh
Q 006580           50 TYLGNRCLDLYSRFGTSDDVLQLFDEIPQ-----KNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYAS  124 (640)
Q Consensus        50 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~y~~li~~~~~  124 (640)
                      +.+|-.-+..+.+.|++...+..|++...     .....|...+......+-++.++++++...+-++..-+--|..++.
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~  181 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAK  181 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            34556666667777888888888877543     3345788888888888999999999999888777778888999999


Q ss_pred             CCChHHHHHHHHHHHHCC------CCCChhhHHHHHHHHh-chh-----HHHHHHHHHHHhCCCCC-chhHHHHHHHhhh
Q 006580          125 CGYSDYALEMFSKMQLQG------VRPSGFTFSILLSTVS-SAC-----HGKQIHGSMIRSGLSLS-NVVLGNSLIDMYG  191 (640)
Q Consensus       125 ~~~~~~a~~~~~~m~~~g------~~p~~~t~~~ll~~~~-~~~-----~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~  191 (640)
                      .+++++|.+.+.......      -+.+...|.-+....+ +.+     ...++++.++..  ++. -...|.+|.+-|.
T Consensus       182 ~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAdYYI  259 (835)
T KOG2047|consen  182 SDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLADYYI  259 (835)
T ss_pred             ccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHHHHH
Confidence            999999999998876532      1233344444444444 222     233444444444  222 2468899999999


Q ss_pred             cCCChHHHHHHHhccCCC--CeeeHHHHHHHHHhc----------------CC------hhHHHHHHHHhHHCCC-----
Q 006580          192 KLGVLYYAFGVFLNMEEL--DIISWNSLISGCFNS----------------GY------GELALDQFYSMRYSGY-----  242 (640)
Q Consensus       192 ~~g~~~~A~~~~~~~~~~--~~~~~~~li~~~~~~----------------~~------~~~A~~~~~~m~~~g~-----  242 (640)
                      +.|.++.|.+++++....  ++.-|..+.++|+.-                ++      ++-.+.-|+.+...+.     
T Consensus       260 r~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNs  339 (835)
T KOG2047|consen  260 RSGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNS  339 (835)
T ss_pred             HhhhhHHHHHHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHH
Confidence            999999999999886632  222233333333321                11      1223333444433210     


Q ss_pred             ---CCCcchHHHHH-HHHhccCCchHHHHHHHHHHHhCCCC------chhHHHHHHHHHHhcCCHHHHHHHHHhcCCCCh
Q 006580          243 ---SPDEYTISIVI-NACTKLRNLDKGKQVFALSVKVGFLS------NSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDY  312 (640)
Q Consensus       243 ---~p~~~t~~~ll-~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  312 (640)
                         .-|+......+ +.-...|+..+....+.++++.- .|      -...+..+...|-..|+++.|..+|++..+-+-
T Consensus       340 VlLRQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv~~v-dP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y  418 (835)
T KOG2047|consen  340 VLLRQNPHNVEEWHKRVKLYEGNAAEQINTYTEAVKTV-DPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPY  418 (835)
T ss_pred             HHHhcCCccHHHHHhhhhhhcCChHHHHHHHHHHHHcc-CcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCc
Confidence               11111111111 11223456666677777776641 12      123577888888999999999999998876332


Q ss_pred             h-------hHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHH
Q 006580          313 A-------VINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVAS  385 (640)
Q Consensus       313 ~-------~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  385 (640)
                      .       +|..-...=.+..+++.|+++.+....   .|....    +..+-.+..-++ .+         --+..++.
T Consensus       419 ~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~---vP~~~~----~~~yd~~~pvQ~-rl---------hrSlkiWs  481 (835)
T KOG2047|consen  419 KTVEDLAEVWCAWAEMELRHENFEAALKLMRRATH---VPTNPE----LEYYDNSEPVQA-RL---------HRSLKIWS  481 (835)
T ss_pred             cchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhc---CCCchh----hhhhcCCCcHHH-HH---------HHhHHHHH
Confidence            2       454445555566777788877666543   333221    111111111110 11         11344556


Q ss_pred             HHHHHHHhcCChHHHHHHHHhCCCCChhHHHHH---HHHHHhCCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHh---
Q 006580          386 SLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTI---MMGLTQNGRAAETLDVFEELLEEGLPPDRI-TLAAVLLACN---  458 (640)
Q Consensus       386 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~---  458 (640)
                      ..++.--..|-++....+++++..--+.|-..+   ..-+-.+.-++++.+.|++-+..--.|+.. .|+..+.-+.   
T Consensus       482 ~y~DleEs~gtfestk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~ry  561 (835)
T KOG2047|consen  482 MYADLEESLGTFESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRY  561 (835)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHh
Confidence            667777778899999999998874322222222   222334566888999998877754456553 5555554443   


Q ss_pred             ccCCHHHHHHHHHHhHHhhCCCCChh--HHHHHHHHHHhcCChHHHHHHHHhCC--CCCC--HHHHHHHHHHHHHcCChH
Q 006580          459 YGGFVDKGMLVFSAMKEEYGVMPGEE--HYACIIDLLCQAGQLGKAIDITSTMP--FQPG--CSIWESILRASAIYGDVK  532 (640)
Q Consensus       459 ~~~~~~~A~~~~~~~~~~~~~~p~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~--~~~~~~l~~~~~~~~~~~  532 (640)
                      ....++.|..+|++..+  +.+|...  .|-.....-.+-|-...|+++++++.  .++.  ...||..|.-....=-+.
T Consensus       562 gg~klEraRdLFEqaL~--~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~  639 (835)
T KOG2047|consen  562 GGTKLERARDLFEQALD--GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVP  639 (835)
T ss_pred             cCCCHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCc
Confidence            34578999999999988  7776543  22222333345688899999999987  3332  346777765444433455


Q ss_pred             HHHHHHHHHHhcCCCC--hhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          533 LTENVAERMMDLQLPS--PLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       533 ~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ....+|+++++.-|++  .......++.=.+.|..+.|..++..-.+-.
T Consensus       640 ~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~  688 (835)
T KOG2047|consen  640 RTREIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQIC  688 (835)
T ss_pred             ccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcC
Confidence            6778999999997743  3345566777788999999999998765543

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.31  E-value=1.1e-07  Score=92.29  Aligned_cols=461  Identities=11%  Similarity=0.062  Sum_probs=250.2

Q ss_pred             hHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCCCChhhHHHHHHHHh--c
Q 006580           16 SYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLL--K   93 (640)
Q Consensus        16 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~--~   93 (640)
                      ..+.+=++.....+.+++|.+...+++..+ +.++..+..-+.++.+.+.+++|..+.+.-........-.+=.+||  +
T Consensus        13 ~~l~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   13 EALLTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFFFEKAYCEYR   91 (652)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhhHHHHHHHHH
Confidence            345566677788899999999999999877 6677778888888899999999997777654311111111345555  7


Q ss_pred             CCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC-ChhhHHHHHHHHhchhHHHHHHHHHHH
Q 006580           94 SDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRP-SGFTFSILLSTVSSACHGKQIHGSMIR  172 (640)
Q Consensus        94 ~~~~~~A~~~~~~~~~~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~~~a~~~~~~~~~  172 (640)
                      .+.+++|+..++...+.|..+-..=.+.+-+.|++++|+++|+.+.+++..- +...-..++.+..              
T Consensus        92 lnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a--------------  157 (652)
T KOG2376|consen   92 LNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAA--------------  157 (652)
T ss_pred             cccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH--------------
Confidence            8999999999996666666677777788999999999999999998875431 1111111111110              


Q ss_pred             hCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHH---HHHHhcCChhHHHHHHHHhHHCCC-------
Q 006580          173 SGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLI---SGCFNSGYGELALDQFYSMRYSGY-------  242 (640)
Q Consensus       173 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~~~~~~A~~~~~~m~~~g~-------  242 (640)
                                         .    -.+. +.+........+|..+-   -.+...|++.+|+++++.....+.       
T Consensus       158 -------------------~----l~~~-~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d  213 (652)
T KOG2376|consen  158 -------------------A----LQVQ-LLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDED  213 (652)
T ss_pred             -------------------h----hhHH-HHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccc
Confidence                               0    0000 12222221222332222   234456677777777666532110       


Q ss_pred             ------CCCcch-HHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhH
Q 006580          243 ------SPDEYT-ISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVI  315 (640)
Q Consensus       243 ------~p~~~t-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  315 (640)
                            .-+..+ -..+.-.+...|+-++|..++...++... +|......                           .-
T Consensus       214 ~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~-~D~~~~Av---------------------------~~  265 (652)
T KOG2376|consen  214 TNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRNP-ADEPSLAV---------------------------AV  265 (652)
T ss_pred             cchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhcC-CCchHHHH---------------------------Hh
Confidence                  000000 01111223334444444444444444432 11111100                           11


Q ss_pred             HHHHHHHHhCCChH-HHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhc
Q 006580          316 NVMISTYGRYGFGE-VALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKT  394 (640)
Q Consensus       316 ~~li~~~~~~~~~~-~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  394 (640)
                      |.|+..-....-++ .++..++.....        +           .+....-+..-.    ......-+.++.+|.  
T Consensus       266 NNLva~~~d~~~~d~~~l~~k~~~~~~--------l-----------~~~~l~~Ls~~q----k~~i~~N~~lL~l~t--  320 (652)
T KOG2376|consen  266 NNLVALSKDQNYFDGDLLKSKKSQVFK--------L-----------AEFLLSKLSKKQ----KQAIYRNNALLALFT--  320 (652)
T ss_pred             cchhhhccccccCchHHHHHHHHHHHH--------h-----------HHHHHHHHHHHH----HHHHHHHHHHHHHHh--
Confidence            11211111111111 122222221110        0           000000000000    000111133444443  


Q ss_pred             CChHHHHHHHHhCCCCC-hhHHHHHHHHHH--hCCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhccCCHHHHHHH
Q 006580          395 GSIDSSTEIFVKLDKRD-LVSWNTIMMGLT--QNGRAAETLDVFEELLEEGLPPDR--ITLAAVLLACNYGGFVDKGMLV  469 (640)
Q Consensus       395 g~~~~A~~~~~~~~~~~-~~~~~~li~~~~--~~g~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~A~~~  469 (640)
                      +..+.+.++-....... ...+.+++....  +...+..+.+++...-+.  .|+.  ......+......|+++.|.++
T Consensus       321 nk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~~i  398 (652)
T KOG2376|consen  321 NKMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVALEI  398 (652)
T ss_pred             hhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHHHH
Confidence            33455666655555322 233334443322  222467777777777664  3433  3444555667788899999888


Q ss_pred             HH--------HhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-----CCCC----HHHHHHHHHHHHHcCChH
Q 006580          470 FS--------AMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-----FQPG----CSIWESILRASAIYGDVK  532 (640)
Q Consensus       470 ~~--------~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~----~~~~~~l~~~~~~~~~~~  532 (640)
                      +.        .+.   .+...+.+...+...+.+.++.+.|..++.+..     ..+.    ..+|.-+...-.++|+-+
T Consensus       399 l~~~~~~~~ss~~---~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~  475 (652)
T KOG2376|consen  399 LSLFLESWKSSIL---EAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEE  475 (652)
T ss_pred             HHHHhhhhhhhhh---hhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchH
Confidence            88        333   233445566677788888887776777666654     1222    223444445556789999


Q ss_pred             HHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHH
Q 006580          533 LTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKV  574 (640)
Q Consensus       533 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  574 (640)
                      +|..+++++++.+|++......++.+|++. +.+.|..+-+.
T Consensus       476 ea~s~leel~k~n~~d~~~l~~lV~a~~~~-d~eka~~l~k~  516 (652)
T KOG2376|consen  476 EASSLLEELVKFNPNDTDLLVQLVTAYARL-DPEKAESLSKK  516 (652)
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHhc-CHHHHHHHhhc
Confidence            999999999999999999999999888855 56666665443

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.30  E-value=6.7e-09  Score=92.82  Aligned_cols=268  Identities=13%  Similarity=0.072  Sum_probs=148.0

Q ss_pred             CCCchhHHHHHHHhhhcCCChHHHHHHHhccCC-CCee------eHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcch
Q 006580          176 SLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEE-LDII------SWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYT  248 (640)
Q Consensus       176 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~------~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t  248 (640)
                      .+.+..+.-+|.+.|-+.|..+.|+++-+.+.+ ||..      ..-.|.+-|...|-++.|.++|..+.+.|. --...
T Consensus        65 d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~e-fa~~A  143 (389)
T COG2956          65 DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGE-FAEGA  143 (389)
T ss_pred             CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchh-hhHHH
Confidence            455566667788888888888888888877763 4432      122345566677777777777777766432 22334


Q ss_pred             HHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCCh
Q 006580          249 ISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFG  328 (640)
Q Consensus       249 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~  328 (640)
                      ...|+..|....+|++|.+.-+.+.+.+..+...-   +..                        .|..|...+....+.
T Consensus       144 lqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~e---IAq------------------------fyCELAq~~~~~~~~  196 (389)
T COG2956         144 LQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVE---IAQ------------------------FYCELAQQALASSDV  196 (389)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhH---HHH------------------------HHHHHHHHHhhhhhH
Confidence            55566666666666666666666665543332210   111                        123333444444555


Q ss_pred             HHHHHHHHHHhhCCCCCChhhHHHHHhhCCC--CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHh
Q 006580          329 EVALELFQLMLREDIRPTEFTLSCVLSSIPI--PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVK  406 (640)
Q Consensus       329 ~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  406 (640)
                      +.|..++.+..+.  .|+.+--+.++.-...  |+.+.|.+.++.+.+.+..--+.+...|..+|.+.|+.++....+.+
T Consensus       197 d~A~~~l~kAlqa--~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~  274 (389)
T COG2956         197 DRARELLKKALQA--DKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRR  274 (389)
T ss_pred             HHHHHHHHHHHhh--CccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            5566666555543  3333333333332222  55555555555555544444455556677777777777777777766


Q ss_pred             CC--CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc---cCCHHHHHHHHHHhHH
Q 006580          407 LD--KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNY---GGFVDKGMLVFSAMKE  475 (640)
Q Consensus       407 ~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~---~~~~~~A~~~~~~~~~  475 (640)
                      +.  .+++..-..+...-....-.+.|..++.+-...  +|+...+..++..-..   .|...+....++.|..
T Consensus       275 ~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvg  346 (389)
T COG2956         275 AMETNTGADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVG  346 (389)
T ss_pred             HHHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHH
Confidence            65  234444444444444444455566555555543  6777777777665432   2334555555555544

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.30  E-value=3.5e-09  Score=97.66  Aligned_cols=286  Identities=12%  Similarity=-0.024  Sum_probs=217.0

Q ss_pred             CCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCCC----ChhhHHHHHHHHhcCCChhHHHHH
Q 006580           28 FKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQK----NCISWNICLRGLLKSDNLDTALKV  103 (640)
Q Consensus        28 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~ll~~~~~~~~~~~A~~~  103 (640)
                      .|++.+|++...+..+.+-.| ...|..-..+--..|+.+.+-..+.+..++    +....-+........|+...|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            599999999999988877433 445777777778889999999999998763    334566677788889999999888


Q ss_pred             hccCC---CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCch
Q 006580          104 FDEIP---EPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNV  180 (640)
Q Consensus       104 ~~~~~---~~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~  180 (640)
                      ++...   ..++.......++|.+.|++.....++..|.+.|+--+...-                          ....
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~--------------------------~le~  229 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAA--------------------------RLEQ  229 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHH--------------------------HHHH
Confidence            77654   467888899999999999999999999999998876544321                          1123


Q ss_pred             hHHHHHHHhhhcCCChHHHHHHHhccC---CCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHh
Q 006580          181 VLGNSLIDMYGKLGVLYYAFGVFLNME---ELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACT  257 (640)
Q Consensus       181 ~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~  257 (640)
                      .+|..+++-....+..+.-...++..+   +.++..-.+++.-+.+.|+.++|.++.++..+.+..|+    ...+-.+.
T Consensus       230 ~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l  305 (400)
T COG3071         230 QAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRL  305 (400)
T ss_pred             HHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhc
Confidence            445556666656666666566666666   34566677788888899999999999998888777666    22233556


Q ss_pred             ccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CChhhHHHHHHHHHhCCChHHHHHHH
Q 006580          258 KLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR--WDYAVINVMISTYGRYGFGEVALELF  335 (640)
Q Consensus       258 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~  335 (640)
                      +.++.+.-.+..+...+.. +.++..+.+|...|.+.+.+.+|.+.|+...+  ++..+|+.+..+|.+.|+..+|.+++
T Consensus       306 ~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r  384 (400)
T COG3071         306 RPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQVR  384 (400)
T ss_pred             CCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHH
Confidence            6777777777777666553 33557888899999999999999999987654  68888999999999999999999988


Q ss_pred             HHHhhCCCCC
Q 006580          336 QLMLREDIRP  345 (640)
Q Consensus       336 ~~m~~~~~~p  345 (640)
                      ++....-.+|
T Consensus       385 ~e~L~~~~~~  394 (400)
T COG3071         385 REALLLTRQP  394 (400)
T ss_pred             HHHHHHhcCC
Confidence            8876443333

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.28  E-value=1.4e-09  Score=107.74  Aligned_cols=193  Identities=16%  Similarity=0.163  Sum_probs=150.2

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCCC----------C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHH-----CCCC-CCH
Q 006580          385 SSLMEMYAKTGSIDSSTEIFVKLDK----------R-DLVSWNTIMMGLTQNGRAAETLDVFEELLE-----EGLP-PDR  447 (640)
Q Consensus       385 ~~l~~~~~~~g~~~~A~~~~~~~~~----------~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~-p~~  447 (640)
                      +.+...|...+++++|..+|+++..          | -..+++.|..+|.+.|++++|..++++..+     .|.. |..
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            4567788889999999988888761          2 234778888899999999998888877654     2222 233


Q ss_pred             H-HHHHHHHHHhccCCHHHHHHHHHHhHHhhC--CCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC---------C
Q 006580          448 I-TLAAVLLACNYGGFVDKGMLVFSAMKEEYG--VMPG----EEHYACIIDLLCQAGQLGKAIDITSTMP---------F  511 (640)
Q Consensus       448 ~-~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~--~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~  511 (640)
                      . -++.+...|+..+.+++|..+++...+.+.  ..++    ..+++.|...|...|++++|.++++++.         .
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 456677778999999999999998766533  2222    3578999999999999999999999875         1


Q ss_pred             CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc----CC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          512 QP-GCSIWESILRASAIYGDVKLTENVAERMMDL----QL---PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       512 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~p---~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      .+ ....++.+...|.+.+++.+|.++|.+.+..    +|   .-..+|.+|+..|.+.|++++|.++.+.+..
T Consensus       405 ~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  405 DYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             ChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            22 2457888999999999999999999988765    44   4456799999999999999999999988863

>PF13041 PPR_2: PPR repeat family

Probab=99.28  E-value=1.4e-11  Score=81.53  Aligned_cols=50  Identities=28%  Similarity=0.547  Sum_probs=46.2

Q ss_pred             CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc
Q 006580          410 RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNY  459 (640)
Q Consensus       410 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  459 (640)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|++||..||+.++++|++
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            78899999999999999999999999999999999999999999999875

>PF13041 PPR_2: PPR repeat family

Probab=99.24  E-value=2.2e-11  Score=80.52  Aligned_cols=49  Identities=39%  Similarity=0.864  Sum_probs=46.9

Q ss_pred             CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh
Q 006580          110 PDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS  158 (640)
Q Consensus       110 ~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~  158 (640)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            7899999999999999999999999999999999999999999998875

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.23  E-value=8.5e-08  Score=86.84  Aligned_cols=158  Identities=8%  Similarity=0.015  Sum_probs=89.5

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHH-HHHHH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYA-CIIDL  492 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~-~l~~~  492 (640)
                      --.++.+.+.-..++++++-.+..+.+- +..|...-..+.++.+..|++.+|.++|-.+... .+ .|..+|. .|..+
T Consensus       361 GRQsmAs~fFL~~qFddVl~YlnSi~sY-F~NdD~Fn~N~AQAk~atgny~eaEelf~~is~~-~i-kn~~~Y~s~LArC  437 (557)
T KOG3785|consen  361 GRQSMASYFFLSFQFDDVLTYLNSIESY-FTNDDDFNLNLAQAKLATGNYVEAEELFIRISGP-EI-KNKILYKSMLARC  437 (557)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCcchhhhHHHHHHHHhcChHHHHHHHhhhcCh-hh-hhhHHHHHHHHHH
Confidence            3444555555556677777777666664 2333333335667777777777777777665432 22 2334443 34567


Q ss_pred             HHhcCChHHHHHHHHhCCCCC-CHH-HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHH
Q 006580          493 LCQAGQLGKAIDITSTMPFQP-GCS-IWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVR  570 (640)
Q Consensus       493 ~~~~g~~~~A~~~~~~~~~~~-~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  570 (640)
                      |.++|+++-|++++-++. .| +.. .+..+..-|-+.+.+=-|-..|..+-.++|.. ..|         .|+-.....
T Consensus       438 yi~nkkP~lAW~~~lk~~-t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~p-EnW---------eGKRGACaG  506 (557)
T KOG3785|consen  438 YIRNKKPQLAWDMMLKTN-TPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTP-ENW---------EGKRGACAG  506 (557)
T ss_pred             HHhcCCchHHHHHHHhcC-CchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCc-ccc---------CCccchHHH
Confidence            777777777777777765 33 222 33344456667777766667776666666632 222         234444445


Q ss_pred             HHHHHHhCCCccCCc
Q 006580          571 VKKVMRKNGINKVTG  585 (640)
Q Consensus       571 ~~~~m~~~~~~~~~~  585 (640)
                      +|+.+.....++.|+
T Consensus       507 ~f~~l~~~~~~~~p~  521 (557)
T KOG3785|consen  507 LFRQLANHKTDPIPI  521 (557)
T ss_pred             HHHHHHcCCCCCCch
Confidence            555555444444443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.20  E-value=3.2e-07  Score=91.92  Aligned_cols=133  Identities=16%  Similarity=0.162  Sum_probs=107.5

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC-hhHHHHHHHH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG-EEHYACIIDL  492 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~  492 (640)
                      .|......+.+.++.++|...+.+.... .+-....|......+...|.+.+|.+.|....   -+.|+ +.+..++..+
T Consensus       652 lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al---~ldP~hv~s~~Ala~~  727 (799)
T KOG4162|consen  652 LWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVAL---ALDPDHVPSMTALAEL  727 (799)
T ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHH---hcCCCCcHHHHHHHHH
Confidence            4666677888899999999888888774 23344466666667788899999999998766   44555 5688999999


Q ss_pred             HHhcCChHHHHH--HHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChh
Q 006580          493 LCQAGQLGKAID--ITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPL  550 (640)
Q Consensus       493 ~~~~g~~~~A~~--~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  550 (640)
                      +.+.|+..-|..  ++..+. ..| ++..|-.+...+.+.|+.+.|.+.|.-+.++.+.+|.
T Consensus       728 lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  728 LLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESNPV  789 (799)
T ss_pred             HHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCCCc
Confidence            999998877777  888877 566 7899999999999999999999999999999775553

>PRK12370 invasion protein regulator; Provisional

Probab=99.19  E-value=1e-08  Score=106.87  Aligned_cols=209  Identities=11%  Similarity=0.034  Sum_probs=156.1

Q ss_pred             CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHH
Q 006580          360 PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD--KR-DLVSWNTIMMGLTQNGRAAETLDVFE  436 (640)
Q Consensus       360 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~  436 (640)
                      ++.+.|...++++.+.+ |.+...+..+..++...|++++|...|++..  .| +...+..+...+...|++++|+..++
T Consensus       318 ~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~  396 (553)
T PRK12370        318 NAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTIN  396 (553)
T ss_pred             hHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            55777777777777765 5566777788888899999999999999877  34 45678888889999999999999999


Q ss_pred             HHHHCCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC
Q 006580          437 ELLEEGLPPDRI-TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMP-GEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP  513 (640)
Q Consensus       437 ~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~  513 (640)
                      +..+.  .|+.. .+..++..+...|++++|+..++++... . +| ++..+..+..++...|++++|...+.++. ..|
T Consensus       397 ~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~-~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~  472 (553)
T PRK12370        397 ECLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQ-H-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEI  472 (553)
T ss_pred             HHHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHh-c-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccc
Confidence            99984  55543 3334444566688999999999988764 2 34 45557778888999999999999998876 445


Q ss_pred             C-HHHHHHHHHHHHHcCChHHHHHHHHHHHhc---CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          514 G-CSIWESILRASAIYGDVKLTENVAERMMDL---QLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       514 ~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      + ...++.+...+...|  +.|...++++.+.   .+.++..   +...|.-.|+-+.+..+ +++.+.+
T Consensus       473 ~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~---~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        473 TGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGL---LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             hhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchH---HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            4 445666666777777  4777777777665   3433333   55677778888877777 8887765

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.18  E-value=5.2e-06  Score=85.58  Aligned_cols=531  Identities=11%  Similarity=0.049  Sum_probs=294.1

Q ss_pred             hhcCCCCChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCC--------
Q 006580            7 KAHVNKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ--------   78 (640)
Q Consensus         7 ~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--------   78 (640)
                      +..|..||   |..+|+...+ -+++++.++...+.+..  +...-++.....+........+...+-.+.+        
T Consensus       505 kKvGyTPd---ymflLq~l~r-~sPD~~~qFa~~l~Q~~--~~~~die~I~DlFme~N~iQq~TSFLLdaLK~~~Pd~g~  578 (1666)
T KOG0985|consen  505 KKVGYTPD---YMFLLQQLKR-SSPDQALQFAMMLVQDE--EPLADIEQIVDLFMELNLIQQCTSFLLDALKLNSPDEGH  578 (1666)
T ss_pred             HHcCCCcc---HHHHHHHHHc-cChhHHHHHHHHhhccC--CCcccHHHHHHHHHHHHhhhhhHHHHHHHhcCCChhhhh
Confidence            45667777   3444555544 66777777777776643  1222233444444433333333332222111        


Q ss_pred             -------------CCh------------hhHHHHHHHHhcCCChhHHHHHhccCCC--CCcc-----hHHHHHHHHHhCC
Q 006580           79 -------------KNC------------ISWNICLRGLLKSDNLDTALKVFDEIPE--PDVV-----SWNSMISGYASCG  126 (640)
Q Consensus        79 -------------~~~------------~~~~~ll~~~~~~~~~~~A~~~~~~~~~--~~~~-----~y~~li~~~~~~~  126 (640)
                                   |++            .-+..+.+.|.++|-...|++.+..+..  +.++     .-.. +..|...-
T Consensus       579 LQTrLLE~NL~~aPqVADAILgN~mFtHyDra~IAqLCEKAGL~qraLehytDl~DIKR~vVhth~L~pEw-Lv~yFg~l  657 (1666)
T KOG0985|consen  579 LQTRLLEMNLVHAPQVADAILGNDMFTHYDRAEIAQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPEW-LVNYFGSL  657 (1666)
T ss_pred             HHHHHHHHHhccchHHHHHHHhccccccccHHHHHHHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHHH-HHHHHHhc
Confidence                         211            1356677888899999999988877653  1111     1111 22445556


Q ss_pred             ChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh---chhHHHHHHHHHHH----------hCCCCCchhHHHHHHHhhhcC
Q 006580          127 YSDYALEMFSKMQLQGVRPSGFTFSILLSTVS---SACHGKQIHGSMIR----------SGLSLSNVVLGNSLIDMYGKL  193 (640)
Q Consensus       127 ~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~---~~~~a~~~~~~~~~----------~~~~~~~~~~~~~li~~~~~~  193 (640)
                      .++.+.+.++.|...+++.|..+...+-.-+.   ..+.-.++|+....          .-.+..|+.+.-..|.+.++.
T Consensus       658 sve~s~eclkaml~~NirqNlQi~VQvatky~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt  737 (1666)
T KOG0985|consen  658 SVEDSLECLKAMLSANIRQNLQIVVQVATKYHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKT  737 (1666)
T ss_pred             CHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhh
Confidence            78899999999999988888776665555554   33444444443322          111556777888889999999


Q ss_pred             CChHHHHHHHhccCC-------------------C-----CeeeH-H------------HHHHHHHhcCChhHHHHHHHH
Q 006580          194 GVLYYAFGVFLNMEE-------------------L-----DIISW-N------------SLISGCFNSGYGELALDQFYS  236 (640)
Q Consensus       194 g~~~~A~~~~~~~~~-------------------~-----~~~~~-~------------~li~~~~~~~~~~~A~~~~~~  236 (640)
                      |++.+.+++.++-.-                   |     |..-+ +            ..|..|.+.=++...-.+.-.
T Consensus       738 ~QikEvERicresn~YdpErvKNfLkeAkL~DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~  817 (1666)
T KOG0985|consen  738 GQIKEVERICRESNCYDPERVKNFLKEAKLTDQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGA  817 (1666)
T ss_pred             ccHHHHHHHHhccccCCHHHHHHHHHhccccccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhh
Confidence            999999988766430                   1     11101 0            122233322222211111111


Q ss_pred             hHHCCCCCCcchHH-------------HHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHH-----
Q 006580          237 MRYSGYSPDEYTIS-------------IVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLE-----  298 (640)
Q Consensus       237 m~~~g~~p~~~t~~-------------~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~-----  298 (640)
                      +.+..  -+.....             -+..-+.+.+++..-...++..+..|. .|..++|+|...|..+++-.     
T Consensus       818 LLD~d--C~E~~ik~Li~~v~gq~~~deLv~EvEkRNRLklLlp~LE~~i~eG~-~d~a~hnAlaKIyIDSNNnPE~fLk  894 (1666)
T KOG0985|consen  818 LLDVD--CSEDFIKNLILSVRGQFPVDELVEEVEKRNRLKLLLPWLESLIQEGS-QDPATHNALAKIYIDSNNNPERFLK  894 (1666)
T ss_pred             hhcCC--CcHHHHHHHHHHHhccCChHHHHHHHHhhhhHHHHHHHHHHHHhccC-cchHHHhhhhheeecCCCChHHhcc
Confidence            11100  0111111             111122223333333334444444453 35566666665555443222     


Q ss_pred             -----------------------------------------------------------HHHHHHHh-----------cC
Q 006580          299 -----------------------------------------------------------DSVRLFEQ-----------LD  308 (640)
Q Consensus       299 -----------------------------------------------------------~A~~~~~~-----------~~  308 (640)
                                                                                 --.+++.+           +.
T Consensus       895 eN~yYDs~vVGkYCEKRDP~lA~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv  974 (1666)
T KOG0985|consen  895 ENPYYDSKVVGKYCEKRDPHLACVAYERGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVV  974 (1666)
T ss_pred             cCCcchhhHHhhhhcccCCceEEEeecccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHH
Confidence                                                                       11111110           00


Q ss_pred             ------CCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCC-CChhhHHHHH-hhCCCCChHHHHHHHHHHHHhCCCCc
Q 006580          309 ------RWDYAVINVMISTYGRYGFGEVALELFQLMLREDIR-PTEFTLSCVL-SSIPIPPVEHGSQFHSMAIKSGFDSN  380 (640)
Q Consensus       309 ------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~t~~~~l-~~~~~~~~~~a~~~~~~~~~~~~~~~  380 (640)
                            ..|+...+.-+.++...+-+.+-+++++++.-..-. .....+..++ -...+.+......+.+++-... .|+
T Consensus       975 ~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyD-a~~ 1053 (1666)
T KOG0985|consen  975 QTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYD-APD 1053 (1666)
T ss_pred             HhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCC-chh
Confidence                  013334445556666666666666666666532110 0111111111 1111122233333333322211 011


Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHhCCC-------------------------CChhHHHHHHHHHHhCCChHHHHHHH
Q 006580          381 AVVASSLMEMYAKTGSIDSSTEIFVKLDK-------------------------RDLVSWNTIMMGLTQNGRAAETLDVF  435 (640)
Q Consensus       381 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------------------------~~~~~~~~li~~~~~~g~~~~a~~~~  435 (640)
                            +.......+-+++|+.+|++...                         ..+..|+.+..+..+.|...+|++-|
T Consensus      1054 ------ia~iai~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSy 1127 (1666)
T KOG0985|consen 1054 ------IAEIAIENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESY 1127 (1666)
T ss_pred             ------HHHHHhhhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHH
Confidence                  11222233334444444443320                         23467999999999999999998877


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCH
Q 006580          436 EELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGC  515 (640)
Q Consensus       436 ~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  515 (640)
                      -+.      -|+..|..+++.+.+.|.|++-.+++...+++ .-.|...  +.|+-+|++.+++.+-++++    ..|+.
T Consensus      1128 ika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~id--~eLi~AyAkt~rl~elE~fi----~gpN~ 1194 (1666)
T KOG0985|consen 1128 IKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPYID--SELIFAYAKTNRLTELEEFI----AGPNV 1194 (1666)
T ss_pred             Hhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCccch--HHHHHHHHHhchHHHHHHHh----cCCCc
Confidence            332      35668999999999999999999999987776 5555544  57899999999999877766    36888


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHH
Q 006580          516 SIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVM  575 (640)
Q Consensus       516 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  575 (640)
                      .-......-|...|.++.|.-+|..        ..-|..|+..+...|++..|...-++.
T Consensus      1195 A~i~~vGdrcf~~~~y~aAkl~y~~--------vSN~a~La~TLV~LgeyQ~AVD~aRKA 1246 (1666)
T KOG0985|consen 1195 ANIQQVGDRCFEEKMYEAAKLLYSN--------VSNFAKLASTLVYLGEYQGAVDAARKA 1246 (1666)
T ss_pred             hhHHHHhHHHhhhhhhHHHHHHHHH--------hhhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            8888999999999999999888764        566888888888888888877655444

>PRK12370 invasion protein regulator; Provisional

Probab=99.17  E-value=6.4e-09  Score=108.46  Aligned_cols=178  Identities=8%  Similarity=0.030  Sum_probs=144.1

Q ss_pred             cCChHHHHHHHHhCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHHHHH
Q 006580          394 TGSIDSSTEIFVKLDK--R-DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD-RITLAAVLLACNYGGFVDKGMLV  469 (640)
Q Consensus       394 ~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~A~~~  469 (640)
                      .+++++|...+++..+  | +...+..+...+...|++++|+..|++..+.  .|+ ...+..+...+...|++++|+..
T Consensus       317 ~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~G~~~eAi~~  394 (553)
T PRK12370        317 QNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSEYIVGSLLFKQANLL--SPISADIKYYYGWNLFMAGQLEEALQT  394 (553)
T ss_pred             chHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            3457899999998873  3 6678888888899999999999999999995  555 45777888889999999999999


Q ss_pred             HHHhHHhhCCCCCh-hHHHHHHHHHHhcCChHHHHHHHHhCC--CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 006580          470 FSAMKEEYGVMPGE-EHYACIIDLLCQAGQLGKAIDITSTMP--FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQ  545 (640)
Q Consensus       470 ~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  545 (640)
                      +++..+.   .|+. ..+..+...+...|++++|.+.+++..  ..| ++..+..+...+...|+.++|...++++....
T Consensus       395 ~~~Al~l---~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~  471 (553)
T PRK12370        395 INECLKL---DPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE  471 (553)
T ss_pred             HHHHHhc---CCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc
Confidence            9998864   4543 233344555677899999999998875  345 45567788888899999999999999998888


Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          546 LPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       546 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      |.+......++..|...|  ++|...++.+.+.
T Consensus       472 ~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        472 ITGLIAVNLLYAEYCQNS--ERALPTIREFLES  502 (553)
T ss_pred             chhHHHHHHHHHHHhccH--HHHHHHHHHHHHH
Confidence            888888888888888888  4888888887664

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.17  E-value=5.4e-07  Score=81.79  Aligned_cols=442  Identities=10%  Similarity=0.022  Sum_probs=232.6

Q ss_pred             HHhcCCChhHHHHHhccCCCC----CcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh---chhH
Q 006580           90 GLLKSDNLDTALKVFDEIPEP----DVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS---SACH  162 (640)
Q Consensus        90 ~~~~~~~~~~A~~~~~~~~~~----~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~---~~~~  162 (640)
                      -+...+++..|+.+++--...    ...+--.+..++.+.|++++|+.++.-+.+.. .|+......+-.+..   ...+
T Consensus        31 dfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~e  109 (557)
T KOG3785|consen   31 DFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIE  109 (557)
T ss_pred             HHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHH
Confidence            344556666666665543311    11223345567778888888888888877643 333333322221111   4444


Q ss_pred             HHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCC
Q 006580          163 GKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGY  242 (640)
Q Consensus       163 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~  242 (640)
                      |+++-..      .+.++..-..|...-.+.++-++-..+-+++.... .---+|.......-.+++|++++......+ 
T Consensus       110 A~~~~~k------a~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~-EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn-  181 (557)
T KOG3785|consen  110 AKSIAEK------APKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTL-EDQLSLASVHYMRMHYQEAIDVYKRVLQDN-  181 (557)
T ss_pred             HHHHHhh------CCCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhH-HHHHhHHHHHHHHHHHHHHHHHHHHHHhcC-
Confidence            4443322      23333333444455556666655555554444221 222334444444556788888888877643 


Q ss_pred             CCCcchHHHHHH-HHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHH
Q 006580          243 SPDEYTISIVIN-ACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMIST  321 (640)
Q Consensus       243 ~p~~~t~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~  321 (640)
                       |+-...+.-+. +|.+..-++-+.+++.-.++. ++.+....|....-..+.=                          
T Consensus       182 -~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~--------------------------  233 (557)
T KOG3785|consen  182 -PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLI--------------------------  233 (557)
T ss_pred             -hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhh--------------------------
Confidence             44444444443 444555556666666555444 1222223332222222211                          


Q ss_pred             HHhCCChHHHHHHHHHHhhCCCCCChhhHHH-HHhh-CCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChH
Q 006580          322 YGRYGFGEVALELFQLMLREDIRPTEFTLSC-VLSS-IPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSID  398 (640)
Q Consensus       322 ~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~-~l~~-~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  398 (640)
                           ....|.+-.+.+.+.+-..  ..+.. ++.. +.. .+-+.|.+++--+.+.  .|...  -.|+-.|.+.+++.
T Consensus       234 -----ngr~ae~E~k~ladN~~~~--~~f~~~l~rHNLVvFrngEgALqVLP~L~~~--IPEAR--lNL~iYyL~q~dVq  302 (557)
T KOG3785|consen  234 -----NGRTAEDEKKELADNIDQE--YPFIEYLCRHNLVVFRNGEGALQVLPSLMKH--IPEAR--LNLIIYYLNQNDVQ  302 (557)
T ss_pred             -----ccchhHHHHHHHHhccccc--chhHHHHHHcCeEEEeCCccHHHhchHHHhh--ChHhh--hhheeeecccccHH
Confidence                 1111112122222111000  00000 0110 001 2233333333332221  12111  23566788899999


Q ss_pred             HHHHHHHhCCCCChhHHHHHHHHHHhCCC-------hHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccCCHHHHHHHH
Q 006580          399 SSTEIFVKLDKRDLVSWNTIMMGLTQNGR-------AAETLDVFEELLEEGLPPDRI-TLAAVLLACNYGGFVDKGMLVF  470 (640)
Q Consensus       399 ~A~~~~~~~~~~~~~~~~~li~~~~~~g~-------~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~A~~~~  470 (640)
                      +|..+.+++...++.-|-.-.-.++..|+       ..-|.+.|+-.-+.+..-|.. --.++..++.-..++++.+-++
T Consensus       303 eA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~Yl  382 (557)
T KOG3785|consen  303 EAISLCKDLDPTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYL  382 (557)
T ss_pred             HHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHH
Confidence            99999988875444433222222333333       444555555544444443332 1223444445556789999998


Q ss_pred             HHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHH-HHHHHHHHcCChHHHHHHHHHHHhcCC-
Q 006580          471 SAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWE-SILRASAIYGDVKLTENVAERMMDLQL-  546 (640)
Q Consensus       471 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~p-  546 (640)
                      +.+..- -...|. .--.+.++++..|++.+|+++|-.+.  .-.|..+|. .|...|.+.+.++.|..++-++  ..| 
T Consensus       383 nSi~sY-F~NdD~-Fn~N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~--~t~~  458 (557)
T KOG3785|consen  383 NSIESY-FTNDDD-FNLNLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKT--NTPS  458 (557)
T ss_pred             HHHHHH-hcCcch-hhhHHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhc--CCch
Confidence            888763 333333 33457899999999999999998887  112445554 4556667889999887775442  233 


Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCccC
Q 006580          547 PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKV  583 (640)
Q Consensus       547 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  583 (640)
                      ........++.-|.+.+.+=-|.+.|..+...++.|.
T Consensus       459 e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~pE  495 (557)
T KOG3785|consen  459 ERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTPE  495 (557)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCcc
Confidence            3334556778899999999999999999988766555

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.17  E-value=1.3e-08  Score=94.39  Aligned_cols=196  Identities=19%  Similarity=0.175  Sum_probs=130.9

Q ss_pred             hhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHH
Q 006580          313 AVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYA  392 (640)
Q Consensus       313 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  392 (640)
                      ..+..+...+...|++++|.+.+++..+..  |+                                 +...+..+...+.
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~--p~---------------------------------~~~~~~~la~~~~   76 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD--PD---------------------------------DYLAYLALALYYQ   76 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cc---------------------------------cHHHHHHHHHHHH
Confidence            345556666777777777777777765532  22                                 2233445566666


Q ss_pred             hcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCCHHHHHH
Q 006580          393 KTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPP-DRITLAAVLLACNYGGFVDKGML  468 (640)
Q Consensus       393 ~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~A~~  468 (640)
                      ..|++++|.+.+++..   ..+...+..+...+...|++++|.+.+++.......| ....+..+...+...|++++|..
T Consensus        77 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (234)
T TIGR02521        77 QLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEK  156 (234)
T ss_pred             HcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHH
Confidence            6777777777776655   2344566667777777888888888888877642222 23455566667778888888888


Q ss_pred             HHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 006580          469 VFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQ  545 (640)
Q Consensus       469 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  545 (640)
                      .+++..+.  .+.+...+..+...+...|++++|.+.+++..  .+.+...+..+...+...|+.+.|..+.+.+....
T Consensus       157 ~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  233 (234)
T TIGR02521       157 YLTRALQI--DPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKLF  233 (234)
T ss_pred             HHHHHHHh--CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            88877653  23345567777788888888888888887765  23356666677777777888888888877776553

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.

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.17  E-value=4.4e-09  Score=89.65  Aligned_cols=163  Identities=15%  Similarity=0.114  Sum_probs=139.8

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDR-ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDL  492 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~  492 (640)
                      +...|.-+|...|+...|..-+++.++.  .|+. .++..+...|.+.|..+.|.+.|+...+.  -+-+....|....-
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl--~p~~GdVLNNYG~F  112 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKALSL--APNNGDVLNNYGAF  112 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhc--CCCccchhhhhhHH
Confidence            4556777899999999999999999984  5655 58888889999999999999999988752  23346678888888


Q ss_pred             HHhcCChHHHHHHHHhCCCCC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHH
Q 006580          493 LCQAGQLGKAIDITSTMPFQP----GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAI  568 (640)
Q Consensus       493 ~~~~g~~~~A~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  568 (640)
                      +|..|++++|...|++....|    -..+|..+.....+.|+.+.|...+++.++.+|.++.....+.....+.|++..|
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            899999999999999987444    3568888888888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCC
Q 006580          569 VRVKKVMRKNGI  580 (640)
Q Consensus       569 ~~~~~~m~~~~~  580 (640)
                      ..+++.....+.
T Consensus       193 r~~~~~~~~~~~  204 (250)
T COG3063         193 RLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHhccc
Confidence            999999988775

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.16  E-value=2.1e-09  Score=95.99  Aligned_cols=226  Identities=13%  Similarity=0.083  Sum_probs=156.0

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcC
Q 006580          316 NVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTG  395 (640)
Q Consensus       316 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  395 (640)
                      +.+.++|.+.|.+.+|.+.|+.-.+....                                    +.+|-.|-.+|.+..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~------------------------------------~dTfllLskvY~rid  270 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPH------------------------------------PDTFLLLSKVYQRID  270 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCc------------------------------------hhHHHHHHHHHHHhc
Confidence            44566666666666666666665554222                                    223334555666666


Q ss_pred             ChHHHHHHHHhCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 006580          396 SIDSSTEIFVKLD--KR-DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSA  472 (640)
Q Consensus       396 ~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~  472 (640)
                      .++.|+.+|.+..  .| ++....-+...+-..++.++|.++|+...+.. +.+......+...|.-.++++-|+.++++
T Consensus       271 QP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRR  349 (478)
T KOG1129|consen  271 QPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRR  349 (478)
T ss_pred             cHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHH
Confidence            6666666666555  23 33333344555666677777777777777641 23333444555566666777777777777


Q ss_pred             hHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC---CCCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 006580          473 MKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP---FQPG--CSIWESILRASAIYGDVKLTENVAERMMDLQLP  547 (640)
Q Consensus       473 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  547 (640)
                      +.+. |+ -++..|+.+.-+|.-.++++-++.-|++..   -.|+  ..+|-.+.......||+..|.+.|+-++..+|+
T Consensus       350 iLqm-G~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~  427 (478)
T KOG1129|consen  350 ILQM-GA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ  427 (478)
T ss_pred             HHHh-cC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc
Confidence            7765 54 356667777777777777777777776654   2343  457888888888899999999999999999999


Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          548 SPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       548 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      +...+++|+-.-.+.|+.++|..+++...+..+
T Consensus       428 h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P  460 (478)
T KOG1129|consen  428 HGEALNNLAVLAARSGDILGARSLLNAAKSVMP  460 (478)
T ss_pred             hHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCc
Confidence            999999999999999999999999998887653

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.15  E-value=3.1e-06  Score=83.33  Aligned_cols=89  Identities=11%  Similarity=0.142  Sum_probs=55.6

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhc
Q 006580          418 IMMGLTQNGRAAETLDVFEELLEEGLPPDRI-TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQA  496 (640)
Q Consensus       418 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  496 (640)
                      +++.+-+.|+++.|...++.....  .|+.+ -|..=.+.+.+.|++++|..++++..+.  -.||...-+.-+.-..++
T Consensus       377 laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~el--D~aDR~INsKcAKYmLrA  452 (700)
T KOG1156|consen  377 LAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQEL--DTADRAINSKCAKYMLRA  452 (700)
T ss_pred             HHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhc--cchhHHHHHHHHHHHHHc
Confidence            455666777777777777777663  55553 4444556677777777777777766542  234444444555556677


Q ss_pred             CChHHHHHHHHhCC
Q 006580          497 GQLGKAIDITSTMP  510 (640)
Q Consensus       497 g~~~~A~~~~~~~~  510 (640)
                      ++.++|.++.....
T Consensus       453 n~i~eA~~~~skFT  466 (700)
T KOG1156|consen  453 NEIEEAEEVLSKFT  466 (700)
T ss_pred             cccHHHHHHHHHhh
Confidence            77777777665554

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.12  E-value=9e-07  Score=82.13  Aligned_cols=299  Identities=11%  Similarity=-0.007  Sum_probs=206.6

Q ss_pred             CCCChhhHHHHHHHHh-----chhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHH-
Q 006580          143 VRPSGFTFSILLSTVS-----SACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNS-  216 (640)
Q Consensus       143 ~~p~~~t~~~ll~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-  216 (640)
                      +.|...+....+.+.+     +-..+.+.+-.+.....++.|+.....+.+.+...|+..+|...|+....-|..+... 
T Consensus       190 ~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~M  269 (564)
T KOG1174|consen  190 VPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAM  269 (564)
T ss_pred             cCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhH
Confidence            4444444444455544     3444445555555544489999999999999999999999999999887554433222 


Q ss_pred             --HHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhc
Q 006580          217 --LISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKC  294 (640)
Q Consensus       217 --li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  294 (640)
                        ..-.+.+.|+.++...+...+.... +-+...|..-........+++.|..+-+..++.. +-+...+-.-...+...
T Consensus       270 D~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~  347 (564)
T KOG1174|consen  270 DLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIAL  347 (564)
T ss_pred             HHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhc
Confidence              2233456788888777777765521 1233334444445556778888888887777654 22334444445678888


Q ss_pred             CCHHHHHHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHH-hhCCC--CChHHHHHH
Q 006580          295 NRLEDSVRLFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVL-SSIPI--PPVEHGSQF  368 (640)
Q Consensus       295 g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l-~~~~~--~~~~~a~~~  368 (640)
                      ++.++|.-.|+....   .+..+|.-|+.+|...|.+.+|.-+-+...+. +..+..+++.+- ..|.-  ..-++|+.+
T Consensus       348 ~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf  426 (564)
T KOG1174|consen  348 ERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKF  426 (564)
T ss_pred             cchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHH
Confidence            999999999987653   47889999999999999999999877766543 333444544442 33333  566888888


Q ss_pred             HHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC--CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC
Q 006580          369 HSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD--KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD  446 (640)
Q Consensus       369 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  446 (640)
                      ++...+.. |.-....+.+.+.+...|..+++..++++..  .+|....+.|...+...+.+++|++.|.....  +.|+
T Consensus       427 ~ek~L~~~-P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr--~dP~  503 (564)
T KOG1174|consen  427 AEKSLKIN-PIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR--QDPK  503 (564)
T ss_pred             HHhhhccC-CccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCcc
Confidence            88777654 2224445677788888899999999888876  57888888888888888889999988888877  4554


Q ss_pred             H
Q 006580          447 R  447 (640)
Q Consensus       447 ~  447 (640)
                      .
T Consensus       504 ~  504 (564)
T KOG1174|consen  504 S  504 (564)
T ss_pred             c
Confidence            3

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.11  E-value=1.5e-08  Score=96.44  Aligned_cols=190  Identities=17%  Similarity=0.156  Sum_probs=129.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHH
Q 006580          382 VVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD-RITLAAVLLAC  457 (640)
Q Consensus       382 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~  457 (640)
                      ..+..+...|.+.|+.++|...|+...+   .+...|+.+...+...|++++|.+.|++..+  +.|+ ..++..+..++
T Consensus        65 ~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~--l~P~~~~a~~~lg~~l  142 (296)
T PRK11189         65 QLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLE--LDPTYNYAYLNRGIAL  142 (296)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHH
Confidence            4456667778888888888888887762   3567888888888889999999998888887  4565 45677777778


Q ss_pred             hccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHH
Q 006580          458 NYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTE  535 (640)
Q Consensus       458 ~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~  535 (640)
                      ...|++++|.+.++...+.   .|+..........+...+++++|.+.+.+..  ..|+  .|. ........|+...+ 
T Consensus       143 ~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~~~~--~~~-~~~~~~~lg~~~~~-  215 (296)
T PRK11189        143 YYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKLDKE--QWG-WNIVEFYLGKISEE-  215 (296)
T ss_pred             HHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhCCcc--ccH-HHHHHHHccCCCHH-
Confidence            8888999999888887754   4443322222223445678888888886643  2232  222 12222334554333 


Q ss_pred             HHHHHHH-------hcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          536 NVAERMM-------DLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       536 ~~~~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      ..++.+.       ++.|....+|..++..+.+.|++++|...|++..+.++
T Consensus       216 ~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        216 TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            2333333       33555667888999999999999999999988887653

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.11  E-value=1.3e-06  Score=86.72  Aligned_cols=336  Identities=13%  Similarity=0.057  Sum_probs=191.7

Q ss_pred             HHHhhhcCCChHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCch
Q 006580          186 LIDMYGKLGVLYYAFGVFLNM--EELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLD  263 (640)
Q Consensus       186 li~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~  263 (640)
                      -|..|.+.|....|.+....-  ...|......+..++.+..-+++|-++|+++..         +...+.++.+-.-+.
T Consensus       621 aiqlyika~~p~~a~~~a~n~~~l~~de~il~~ia~alik~elydkagdlfeki~d---------~dkale~fkkgdaf~  691 (1636)
T KOG3616|consen  621 AIQLYIKAGKPAKAARAALNDEELLADEEILEHIAAALIKGELYDKAGDLFEKIHD---------FDKALECFKKGDAFG  691 (1636)
T ss_pred             HHHHHHHcCCchHHHHhhcCHHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhC---------HHHHHHHHHcccHHH
Confidence            445555666555554443211  123334444444555555555666666655543         112233333333344


Q ss_pred             HHHHHHHHHHHhCCCCchhH-HHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCC
Q 006580          264 KGKQVFALSVKVGFLSNSIV-LSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLRED  342 (640)
Q Consensus       264 ~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  342 (640)
                      +|.++-+..    ++..+.. -..-...+...|+++.|+..|-+...     .-..+.+-.....|.+|+.+++.++...
T Consensus       692 kaielarfa----fp~evv~lee~wg~hl~~~~q~daainhfiea~~-----~~kaieaai~akew~kai~ildniqdqk  762 (1636)
T KOG3616|consen  692 KAIELARFA----FPEEVVKLEEAWGDHLEQIGQLDAAINHFIEANC-----LIKAIEAAIGAKEWKKAISILDNIQDQK  762 (1636)
T ss_pred             HHHHHHHhh----CcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhhh-----HHHHHHHHhhhhhhhhhHhHHHHhhhhc
Confidence            444333221    1111111 11222334445556666555543211     1123445566778888888888887653


Q ss_pred             CCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCC--ChhHHHHHH
Q 006580          343 IRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKR--DLVSWNTIM  419 (640)
Q Consensus       343 ~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~li  419 (640)
                      .  -..-|..+...++. |+++.|.++|.+.-         .++-.|.+|.+.|++++|.++-.+...|  ....|-+-.
T Consensus       763 ~--~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~e~~~~e~t~~~yiaka  831 (1636)
T KOG3616|consen  763 T--ASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEECHGPEATISLYIAKA  831 (1636)
T ss_pred             c--ccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHHhcCchhHHHHHHHhH
Confidence            2  23345566667777 88888888876532         2355778888888888888888887755  345566666


Q ss_pred             HHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCCh
Q 006580          420 MGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQL  499 (640)
Q Consensus       420 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  499 (640)
                      .-+-.+|++.+|.++|-...    .|+.     .+..|-+.|..+..+++..+-.-    ..-..+...+..-|...|++
T Consensus       832 edldehgkf~eaeqlyiti~----~p~~-----aiqmydk~~~~ddmirlv~k~h~----d~l~dt~~~f~~e~e~~g~l  898 (1636)
T KOG3616|consen  832 EDLDEHGKFAEAEQLYITIG----EPDK-----AIQMYDKHGLDDDMIRLVEKHHG----DHLHDTHKHFAKELEAEGDL  898 (1636)
T ss_pred             HhHHhhcchhhhhheeEEcc----CchH-----HHHHHHhhCcchHHHHHHHHhCh----hhhhHHHHHHHHHHHhccCh
Confidence            66777888888888774442    3443     35667788888887777664321    12234555667778888888


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHH
Q 006580          500 GKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKV  574 (640)
Q Consensus       500 ~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  574 (640)
                      ..|..-|-+..      -|.+.+..|...+-++.|.++.+   ..+-.|..-....+|+  ++=--+.|.+++.+
T Consensus       899 kaae~~flea~------d~kaavnmyk~s~lw~dayriak---tegg~n~~k~v~flwa--ksiggdaavkllnk  962 (1636)
T KOG3616|consen  899 KAAEEHFLEAG------DFKAAVNMYKASELWEDAYRIAK---TEGGANAEKHVAFLWA--KSIGGDAAVKLLNK  962 (1636)
T ss_pred             hHHHHHHHhhh------hHHHHHHHhhhhhhHHHHHHHHh---ccccccHHHHHHHHHH--HhhCcHHHHHHHHh
Confidence            88888776654      35566667777777776665543   2344455444444444  43333557777665

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.10  E-value=5.5e-08  Score=96.59  Aligned_cols=239  Identities=12%  Similarity=0.102  Sum_probs=134.8

Q ss_pred             chHHHHHHHHhccCCchHHHHHHHHHHHh-----CC-CCchh-HHHHHHHHHHhcCCHHHHHHHHHhcCC-------C--
Q 006580          247 YTISIVINACTKLRNLDKGKQVFALSVKV-----GF-LSNSI-VLSATIDLFSKCNRLEDSVRLFEQLDR-------W--  310 (640)
Q Consensus       247 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~--  310 (640)
                      .+...+...|...|+++.|+.+++..++.     |. .|... ..+.+...|...+++.+|..+|+++..       +  
T Consensus       200 ~~~~~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  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            35555777777777777777777766654     21 12222 223355566666666666666665432       1  


Q ss_pred             --ChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHH
Q 006580          311 --DYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLM  388 (640)
Q Consensus       311 --~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  388 (640)
                        -..+++.|..+|.+.|++++|...++...+-                           +..  ..+ ..         
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I---------------------------~~~--~~~-~~---------  320 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEI---------------------------YEK--LLG-AS---------  320 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHH---------------------------HHH--hhc-cC---------
Confidence              1224555555666666666666655544321                           111  000 00         


Q ss_pred             HHHHhcCChHHHHHHHHhCCCCCh-hHHHHHHHHHHhCCChHHHHHHHHHHHHC---CCCCCH----HHHHHHHHHHhcc
Q 006580          389 EMYAKTGSIDSSTEIFVKLDKRDL-VSWNTIMMGLTQNGRAAETLDVFEELLEE---GLPPDR----ITLAAVLLACNYG  460 (640)
Q Consensus       389 ~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~~----~~~~~ll~~~~~~  460 (640)
                                          .+.+ ..++.+...++..+++++|..++++..+.   -+.++.    .+++.|...|...
T Consensus       321 --------------------~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~  380 (508)
T KOG1840|consen  321 --------------------HPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKM  380 (508)
T ss_pred             --------------------hHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHh
Confidence                                0111 12233344445555555555555544331   112222    3566777777777


Q ss_pred             CCHHHHHHHHHHhHHhh----C--CCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--------CCCC-HHHHHHHHHHH
Q 006580          461 GFVDKGMLVFSAMKEEY----G--VMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--------FQPG-CSIWESILRAS  525 (640)
Q Consensus       461 ~~~~~A~~~~~~~~~~~----~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~-~~~~~~l~~~~  525 (640)
                      |++++|.+++++..+..    +  ..-....++.|...|.+.+++.+|.++|.+..        ..|+ ..+|..|...|
T Consensus       381 gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y  460 (508)
T KOG1840|consen  381 GKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALY  460 (508)
T ss_pred             cchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHH
Confidence            77777777777665531    1  11113456677777777777777777776654        3333 45788999999


Q ss_pred             HHcCChHHHHHHHHHHHhc
Q 006580          526 AIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       526 ~~~~~~~~a~~~~~~~~~~  544 (640)
                      ...|+++.|+++.+++...
T Consensus       461 ~~~g~~e~a~~~~~~~~~~  479 (508)
T KOG1840|consen  461 RAQGNYEAAEELEEKVLNA  479 (508)
T ss_pred             HHcccHHHHHHHHHHHHHH
Confidence            9999999999998888733

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.09  E-value=2.9e-06  Score=83.58  Aligned_cols=101  Identities=11%  Similarity=0.054  Sum_probs=82.1

Q ss_pred             CCChhHH--HHHHHHHHhcCChHHHHHHHHhCC-CCCCH-HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHH
Q 006580          480 MPGEEHY--ACIIDLLCQAGQLGKAIDITSTMP-FQPGC-SIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLL  555 (640)
Q Consensus       480 ~p~~~~~--~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  555 (640)
                      +|+...|  -.++..+-+.|+++.|..+++.+. ..|+. ..|..-...+...|+++.|..+++++.+++-+|..+-..-
T Consensus       366 ~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKc  445 (700)
T KOG1156|consen  366 PPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKC  445 (700)
T ss_pred             CchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHH
Confidence            4554444  456778889999999999999887 66653 3566667888889999999999999999998887777678


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          556 TQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       556 ~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      +.-..+.++.++|.++.......|.
T Consensus       446 AKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  446 AKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHccccHHHHHHHHHhhhccc
Confidence            8888899999999999999888775

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.05  E-value=1.5e-06  Score=84.56  Aligned_cols=416  Identities=12%  Similarity=0.064  Sum_probs=200.0

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCChh-hHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhh--cCCC
Q 006580          119 ISGYASCGYSDYALEMFSKMQLQGVRPSGF-TFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYG--KLGV  195 (640)
Q Consensus       119 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~--~~g~  195 (640)
                      ++-+...|++++|.+...+....+  ||.. .+..=+-++.+.+.-...+..+...+....+...+  +=.+||  +.+.
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~--pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~--fEKAYc~Yrlnk   94 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV--PDDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFF--FEKAYCEYRLNK   94 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC--CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhh--HHHHHHHHHccc
Confidence            445667788888998888888764  4332 22222222223333333332222222111111111  223333  5677


Q ss_pred             hHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcc-hHHHHHHHHhccCCchHHHHHHHHHHH
Q 006580          196 LYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEY-TISIVINACTKLRNLDKGKQVFALSVK  274 (640)
Q Consensus       196 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~  274 (640)
                      .++|+..++.....|..+...-.+.+.+.|++++|+++|+.+.+.+.+--.. .-..++.+-...    .+    +.+..
T Consensus        95 ~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l----~~----~~~q~  166 (652)
T KOG2376|consen   95 LDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAAL----QV----QLLQS  166 (652)
T ss_pred             HHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhh----hH----HHHHh
Confidence            7777777775554454455555566677777777777777776644321111 111111111000    00    01111


Q ss_pred             hCCCCchhHHHH---HHHHHHhcCCHHHHHHHHHhcC--------CCCh-----h-----hHHHHHHHHHhCCChHHHHH
Q 006580          275 VGFLSNSIVLSA---TIDLFSKCNRLEDSVRLFEQLD--------RWDY-----A-----VINVMISTYGRYGFGEVALE  333 (640)
Q Consensus       275 ~~~~~~~~~~~~---l~~~~~~~g~~~~A~~~~~~~~--------~~~~-----~-----~~~~li~~~~~~~~~~~a~~  333 (640)
                      ....| ..+|..   ....++..|++.+|+++++...        ..|.     .     .---|.-.+...|+..+|.+
T Consensus       167 v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~  245 (652)
T KOG2376|consen  167 VPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASS  245 (652)
T ss_pred             ccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence            11122 212222   3344556677777777666551        1110     0     11123344555666666666


Q ss_pred             HHHHHhhCCCCCChhhHHH---HHhhCCC-CChHHH--HHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhC
Q 006580          334 LFQLMLREDIRPTEFTLSC---VLSSIPI-PPVEHG--SQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKL  407 (640)
Q Consensus       334 ~~~~m~~~~~~p~~~t~~~---~l~~~~~-~~~~~a--~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  407 (640)
                      ++...++.. .+|......   -|-++.. .++...  ...++.                       ....-+......+
T Consensus       246 iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~-----------------------~~~~l~~~~l~~L  301 (652)
T KOG2376|consen  246 IYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKS-----------------------QVFKLAEFLLSKL  301 (652)
T ss_pred             HHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHH-----------------------HHHHhHHHHHHHH
Confidence            666666553 223221111   1111111 111110  000000                       0000111111111


Q ss_pred             C--CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh--ccCCHHHHHHHHHHhHHhhCCCCC-
Q 006580          408 D--KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACN--YGGFVDKGMLVFSAMKEEYGVMPG-  482 (640)
Q Consensus       408 ~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~--~~~~~~~A~~~~~~~~~~~~~~p~-  482 (640)
                      .  +......|..+-.+ ..+..+.+.++....-  +..|.. .+.+++..+.  +...+..+.+++....+.  .+-+ 
T Consensus       302 s~~qk~~i~~N~~lL~l-~tnk~~q~r~~~a~lp--~~~p~~-~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s  375 (652)
T KOG2376|consen  302 SKKQKQAIYRNNALLAL-FTNKMDQVRELSASLP--GMSPES-LFPILLQEATKVREKKHKKAIELLLQFADG--HPEKS  375 (652)
T ss_pred             HHHHHHHHHHHHHHHHH-HhhhHHHHHHHHHhCC--ccCchH-HHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchh
Confidence            1  11122222222222 1233344444333322  123333 3444444432  223577888888877663  2222 


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHH--------hCC-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc----CC---
Q 006580          483 EEHYACIIDLLCQAGQLGKAIDITS--------TMP-FQPGCSIWESILRASAIYGDVKLTENVAERMMDL----QL---  546 (640)
Q Consensus       483 ~~~~~~l~~~~~~~g~~~~A~~~~~--------~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~p---  546 (640)
                      ..+.-.++......|+++.|.+++.        .++ ..-.+.+...+...+.+.++.+.|..++..++.-    .+   
T Consensus       376 ~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~  455 (652)
T KOG2376|consen  376 KVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSI  455 (652)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccch
Confidence            4456667788899999999999998        444 3445667777777888878777777777777654    12   


Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          547 PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       547 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      .-..++..++..-.+.|+-++|..+++++.+
T Consensus       456 ~l~~~~~~aa~f~lr~G~~~ea~s~leel~k  486 (652)
T KOG2376|consen  456 ALLSLMREAAEFKLRHGNEEEASSLLEELVK  486 (652)
T ss_pred             HHHhHHHHHhHHHHhcCchHHHHHHHHHHHH
Confidence            2223344455555677999999999999987

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.02  E-value=6.3e-07  Score=79.44  Aligned_cols=382  Identities=13%  Similarity=0.030  Sum_probs=199.3

Q ss_pred             HHHHhhhcCCChHHHHHHHhccCCC---CeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHH-HHHHhccC
Q 006580          185 SLIDMYGKLGVLYYAFGVFLNMEEL---DIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIV-INACTKLR  260 (640)
Q Consensus       185 ~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~~~~~~~  260 (640)
                      +.+..+.+..++++|.+++..-.++   +....+.|..+|....++..|-+.++++-..  -|...-|..- ..++.+.+
T Consensus        15 aviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY~A~   92 (459)
T KOG4340|consen   15 AVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLYKAC   92 (459)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHHHhc
Confidence            3344444555566666655554432   3334455555666666666666666665542  2333322211 22334455


Q ss_pred             CchHHHHHHHHHHHhCCCCchhH--HHHHHHHHHhcCCHHHHHHHHHhcCC-CChhhHHHHHHHHHhCCChHHHHHHHHH
Q 006580          261 NLDKGKQVFALSVKVGFLSNSIV--LSATIDLFSKCNRLEDSVRLFEQLDR-WDYAVINVMISTYGRYGFGEVALELFQL  337 (640)
Q Consensus       261 ~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~  337 (640)
                      .+..|.++...|.+.   ++...  ...-.......+++..+..++++.+. .+..+.+.......+.|+++.|.+-|+.
T Consensus        93 i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqa  169 (459)
T KOG4340|consen   93 IYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQA  169 (459)
T ss_pred             ccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHH
Confidence            555555555554332   11111  11111122344556666666666653 4444444444445566666666666666


Q ss_pred             HhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCC-------------c------h---------HHHHHHHH
Q 006580          338 MLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDS-------------N------A---------VVASSLME  389 (640)
Q Consensus       338 m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~-------------~------~---------~~~~~l~~  389 (640)
                      ..+-+--.....|+..+..+.+++.+.|.+...++++.|+..             |      +         ..+|.-..
T Consensus       170 AlqvsGyqpllAYniALaHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaA  249 (459)
T KOG4340|consen  170 ALQVSGYQPLLAYNLALAHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAA  249 (459)
T ss_pred             HHhhcCCCchhHHHHHHHHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhh
Confidence            555432333445666666555566666666666666554321             1      1         11222233


Q ss_pred             HHHhcCChHHHHHHHHhCCC-----CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCCH
Q 006580          390 MYAKTGSIDSSTEIFVKLDK-----RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPP-DRITLAAVLLACNYGGFV  463 (640)
Q Consensus       390 ~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~  463 (640)
                      .+.+.++++.|.+.+-+|+.     .|++|...+.-.- ..+++.+..+-+.-+...  .| ...||..++-.||+..-+
T Consensus       250 Ieyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~--nPfP~ETFANlLllyCKNeyf  326 (459)
T KOG4340|consen  250 IEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQ--NPFPPETFANLLLLYCKNEYF  326 (459)
T ss_pred             hhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhc--CCCChHHHHHHHHHHhhhHHH
Confidence            45678999999999999983     4677766554322 245566666666666654  34 346899999999999989


Q ss_pred             HHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhc-CChHHHHHHHHhCCCCCC--HHHHHHHHHHHHHcCC---hHHHHHH
Q 006580          464 DKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQA-GQLGKAIDITSTMPFQPG--CSIWESILRASAIYGD---VKLTENV  537 (640)
Q Consensus       464 ~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~--~~~~~~l~~~~~~~~~---~~~a~~~  537 (640)
                      +.|-.++-+-....-.-.+...|+ |++++..+ -..++|.+-++.+.....  ......-++--..+++   ...+.+-
T Consensus       327 ~lAADvLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRklAi~vQe~r~~~dd~a~R~ai~~  405 (459)
T KOG4340|consen  327 DLAADVLAENAHLTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRKLAIQVQEARHNRDDEAIRKAVNE  405 (459)
T ss_pred             hHHHHHHhhCcchhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            988888764321100011233333 34444433 366777766655430000  0011111111111221   1223334


Q ss_pred             HHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          538 AERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       538 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      |++.+++.-   .....-++.|++..++..+++.|+.-.+-
T Consensus       406 Yd~~LE~YL---PVlMa~AkiyW~~~Dy~~vEk~Fr~Svef  443 (459)
T KOG4340|consen  406 YDETLEKYL---PVLMAQAKIYWNLEDYPMVEKIFRKSVEF  443 (459)
T ss_pred             HHHHHHHHH---HHHHHHHHhhccccccHHHHHHHHHHHhh
Confidence            444444322   23446678899999999999999876654

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.02  E-value=1.1e-08  Score=91.50  Aligned_cols=233  Identities=11%  Similarity=0.078  Sum_probs=182.0

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhC
Q 006580          280 NSIVLSATIDLFSKCNRLEDSVRLFEQLDR--WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSI  357 (640)
Q Consensus       280 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~  357 (640)
                      |..--+.+..+|.+.|.+.+|...|+.-.+  +-+.||-.|-+.|.+..++..|+.++.+-.+.  .|-.+||..     
T Consensus       222 dwwWk~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~-----  294 (478)
T KOG1129|consen  222 DWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLL-----  294 (478)
T ss_pred             hHHHHHHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhh-----
Confidence            444456788999999999999999887654  56778888999999999999999999987764  676777632     


Q ss_pred             CCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHH
Q 006580          358 PIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDV  434 (640)
Q Consensus       358 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~  434 (640)
                                                  -..+.+...++.++|.++++...+   .++....++...|.-.++++.|+.+
T Consensus       295 ----------------------------g~ARi~eam~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~Alry  346 (478)
T KOG1129|consen  295 ----------------------------GQARIHEAMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRY  346 (478)
T ss_pred             ----------------------------hhHHHHHHHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHH
Confidence                                        233445556677778888877763   3556666677788888999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC--hhHHHHHHHHHHhcCChHHHHHHHHhCC-C
Q 006580          435 FEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG--EEHYACIIDLLCQAGQLGKAIDITSTMP-F  511 (640)
Q Consensus       435 ~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~  511 (640)
                      |+++.+.|+ -+...|..+.-+|.-.+++|-++.-|++.... -..|+  ...|-.+.......|++.-|.+-|+-.. .
T Consensus       347 YRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlst-at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~  424 (478)
T KOG1129|consen  347 YRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTS  424 (478)
T ss_pred             HHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhh-ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhcc
Confidence            999999884 45667777777888888999999888887765 44454  4567778888888899999999988876 4


Q ss_pred             CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCh
Q 006580          512 QP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSP  549 (640)
Q Consensus       512 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  549 (640)
                      .| +...++.|.-.-.+.|+.++|..++..+....|.-.
T Consensus       425 d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P~m~  463 (478)
T KOG1129|consen  425 DAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMPDMA  463 (478)
T ss_pred             CcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCcccc
Confidence            44 566889998888899999999999999988887543

>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=98.99  E-value=1.4e-06  Score=87.80  Aligned_cols=285  Identities=14%  Similarity=0.064  Sum_probs=146.7

Q ss_pred             HHHhhhcCCChHHHHHHHhccCC--CCe-eeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHh----c
Q 006580          186 LIDMYGKLGVLYYAFGVFLNMEE--LDI-ISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACT----K  258 (640)
Q Consensus       186 li~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~----~  258 (640)
                      ....+...|++++|++.++.-..  .|. .........+.+.|+.++|..+++.+.+.+  |+...|...+..+.    .
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcc
Confidence            34455667777777777766543  232 334455667777777777777777777654  66666555555443    1


Q ss_pred             --cCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHH
Q 006580          259 --LRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQ  336 (640)
Q Consensus       259 --~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  336 (640)
                        ..+.+...++++.+...-  |.......+.-.+.....+.                              ..+...+.
T Consensus        88 ~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~------------------------------~~~~~yl~  135 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFK------------------------------ERLDEYLR  135 (517)
T ss_pred             cccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHH------------------------------HHHHHHHH
Confidence              123444455555554432  22221111111111101111                              12223333


Q ss_pred             HHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHh--------------CCCCch--HHHHHHHHHHHhcCChHH
Q 006580          337 LMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKS--------------GFDSNA--VVASSLMEMYAKTGSIDS  399 (640)
Q Consensus       337 ~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~--------------~~~~~~--~~~~~l~~~~~~~g~~~~  399 (640)
                      .+...|+++-   |+.+-..+.. ........++......              .-+|+.  .++.-+.+.|-..|++++
T Consensus       136 ~~l~KgvPsl---F~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~  212 (517)
T PF12569_consen  136 PQLRKGVPSL---FSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEK  212 (517)
T ss_pred             HHHhcCCchH---HHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHH
Confidence            3444443332   2222222222 2222222222222211              012333  233455666777777777


Q ss_pred             HHHHHHhCC--CCC-hhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHh
Q 006580          400 STEIFVKLD--KRD-LVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEE  476 (640)
Q Consensus       400 A~~~~~~~~--~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~  476 (640)
                      |.+++++..  .|+ +..|..-...+-..|++.+|.+.++..+... .-|...-+-.+..+.+.|++++|.+++....+.
T Consensus       213 Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~  291 (517)
T PF12569_consen  213 ALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTRE  291 (517)
T ss_pred             HHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCC
Confidence            777777665  233 4466666677777777777777777777642 233344445556667777777777777776654


Q ss_pred             hCCCCChhH------H--HHHHHHHHhcCChHHHHHHHHhC
Q 006580          477 YGVMPGEEH------Y--ACIIDLLCQAGQLGKAIDITSTM  509 (640)
Q Consensus       477 ~~~~p~~~~------~--~~l~~~~~~~g~~~~A~~~~~~~  509 (640)
                       +..|....      |  .....+|.+.|++..|++.|..+
T Consensus       292 -~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v  331 (517)
T PF12569_consen  292 -DVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAV  331 (517)
T ss_pred             -CCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence             43332211      1  22345677777777777666554

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 [], [].

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.99  E-value=2.2e-07  Score=88.62  Aligned_cols=186  Identities=11%  Similarity=0.021  Sum_probs=125.5

Q ss_pred             CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHH
Q 006580          360 PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK--R-DLVSWNTIMMGLTQNGRAAETLDVFE  436 (640)
Q Consensus       360 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~  436 (640)
                      |+.+.|...+....+.. |.++..++.+...+...|++++|...|+...+  | +...|..+..++...|++++|++.++
T Consensus        78 g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~  156 (296)
T PRK11189         78 GLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLL  156 (296)
T ss_pred             CCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            33344443333333332 44566778889999999999999999998863  4 46788888889999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHH--HHHHHHhCC----
Q 006580          437 ELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGK--AIDITSTMP----  510 (640)
Q Consensus       437 ~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~--A~~~~~~~~----  510 (640)
                      +..+.  .|+..........+...++.++|...+++...  ...|+... ..+..  ...|+..+  +.+.+.+..    
T Consensus       157 ~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--~~~~~~~~-~~~~~--~~lg~~~~~~~~~~~~~~~~~~~  229 (296)
T PRK11189        157 AFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE--KLDKEQWG-WNIVE--FYLGKISEETLMERLKAGATDNT  229 (296)
T ss_pred             HHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--hCCccccH-HHHHH--HHccCCCHHHHHHHHHhcCCCcH
Confidence            99984  56554222222234456789999999977654  33333322 22332  33455433  333333221    


Q ss_pred             -CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHH
Q 006580          511 -FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYS  553 (640)
Q Consensus       511 -~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  553 (640)
                       ..| ....|..+...+...|++++|...|+++++.+|++..-+.
T Consensus       230 ~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~e~~  274 (296)
T PRK11189        230 ELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFVEHR  274 (296)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHHHHH
Confidence             122 3468999999999999999999999999999986654444

>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=98.98  E-value=6.7e-08  Score=90.53  Aligned_cols=155  Identities=12%  Similarity=0.101  Sum_probs=107.1

Q ss_pred             HHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh----ccCCH
Q 006580          388 MEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACN----YGGFV  463 (640)
Q Consensus       388 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~----~~~~~  463 (640)
                      ..++...|++++|++++...  .+.......+..|.+.++++.|.+.++.|.+.  ..|. +...+..++.    ....+
T Consensus       109 A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD~-~l~qLa~awv~l~~g~e~~  183 (290)
T PF04733_consen  109 ATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DEDS-ILTQLAEAWVNLATGGEKY  183 (290)
T ss_dssp             HHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCCH-HHHHHHHHHHHHHHTTTCC
T ss_pred             HHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcH-HHHHHHHHHHHHHhCchhH
Confidence            34566678888888887765  45666667788889999999999999998873  4443 3344444433    23468


Q ss_pred             HHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCCh-HHHHHHHHH
Q 006580          464 DKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDV-KLTENVAER  540 (640)
Q Consensus       464 ~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~-~~a~~~~~~  540 (640)
                      .+|..+|+++.+  ...+++.+.+.+..+....|++++|.+++.+.. ..| ++.++-.++......|+. +.+.+.+.+
T Consensus       184 ~~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~q  261 (290)
T PF04733_consen  184 QDAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQ  261 (290)
T ss_dssp             CHHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHH
Confidence            888888888866  445677777888888888888888888887765 344 566777777777777766 667778888


Q ss_pred             HHhcCCCCh
Q 006580          541 MMDLQLPSP  549 (640)
Q Consensus       541 ~~~~~p~~~  549 (640)
                      +...+|.++
T Consensus       262 L~~~~p~h~  270 (290)
T PF04733_consen  262 LKQSNPNHP  270 (290)
T ss_dssp             CHHHTTTSH
T ss_pred             HHHhCCCCh
Confidence            777777764

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.

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.97  E-value=1.6e-05  Score=80.30  Aligned_cols=356  Identities=14%  Similarity=0.092  Sum_probs=179.7

Q ss_pred             HHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccC---
Q 006580          184 NSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLR---  260 (640)
Q Consensus       184 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~---  260 (640)
                      -++++..|-.|+.++|-++-++  ..|......|.+.|-..|++.+|..+|.+...         |...|+.|-..+   
T Consensus       942 fs~VrI~C~qGk~~kAa~iA~e--sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnAIRlcKEnd~~d 1010 (1416)
T KOG3617|consen  942 FSMVRIKCIQGKTDKAARIAEE--SGDKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNAIRLCKENDMKD 1010 (1416)
T ss_pred             hhheeeEeeccCchHHHHHHHh--cccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHHHHHHHhcCHHH
Confidence            5677888888999998888776  34667777888889999999999998877643         444444443322   


Q ss_pred             ------------CchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--------------CChhh
Q 006580          261 ------------NLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR--------------WDYAV  314 (640)
Q Consensus       261 ------------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------------~~~~~  314 (640)
                                  +.-.|.+.|++.   |.     -...-+..|-+.|.+.+|+++-=+-.+              .|+..
T Consensus      1011 ~L~nlal~s~~~d~v~aArYyEe~---g~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~l 1082 (1416)
T KOG3617|consen 1011 RLANLALMSGGSDLVSAARYYEEL---GG-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKL 1082 (1416)
T ss_pred             HHHHHHhhcCchhHHHHHHHHHHc---ch-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHH
Confidence                        222333333322   11     122344567788888888765332222              24444


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhC-CCCc----hHHHHHHHH
Q 006580          315 INVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSG-FDSN----AVVASSLME  389 (640)
Q Consensus       315 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~-~~~~----~~~~~~l~~  389 (640)
                      .+--..-|+...++++|..++-..++         |...+..|...++.-..++-+.|.-.. -.|+    ..+...+.+
T Consensus      1083 l~RcadFF~~~~qyekAV~lL~~ar~---------~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae 1153 (1416)
T KOG3617|consen 1083 LRRCADFFENNQQYEKAVNLLCLARE---------FSGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAE 1153 (1416)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHH---------HHHHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHH
Confidence            55555566777777777777655442         233333333322222222222221110 1111    234455666


Q ss_pred             HHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHH---------H----HHHHHHCCCCCCHHHHHHHHHH
Q 006580          390 MYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLD---------V----FEELLEEGLPPDRITLAAVLLA  456 (640)
Q Consensus       390 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~---------~----~~~m~~~g~~p~~~~~~~ll~~  456 (640)
                      .+.+.|.+..|-+-|...-..     -..+.++.+.|+.++..-         +    -+-+....+..|+.+.-.++.-
T Consensus      1154 ~c~qQG~Yh~AtKKfTQAGdK-----l~AMraLLKSGdt~KI~FFAn~sRqkEiYImAANyLQtlDWq~~pq~mK~I~tF 1228 (1416)
T KOG3617|consen 1154 LCLQQGAYHAATKKFTQAGDK-----LSAMRALLKSGDTQKIRFFANTSRQKEIYIMAANYLQTLDWQDNPQTMKDIETF 1228 (1416)
T ss_pred             HHHhccchHHHHHHHhhhhhH-----HHHHHHHHhcCCcceEEEEeeccccceeeeehhhhhhhcccccChHHHhhhHhh
Confidence            777777777776666544311     123445555555443210         0    0111222344444454444444


Q ss_pred             HhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCC-HHHHHHHH----------HHH
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPG-CSIWESIL----------RAS  525 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~l~----------~~~  525 (640)
                      |.+..-++.--.+|.....-     ....|..+-.   ..|-+++|-+-+.++..+.+ ...++.|-          ...
T Consensus      1229 YTKgqafd~LanFY~~cAqi-----Eiee~q~ydK---a~gAl~eA~kCl~ka~~k~~~~t~l~~Lq~~~a~vk~~l~~~ 1300 (1416)
T KOG3617|consen 1229 YTKGQAFDHLANFYKSCAQI-----EIEELQTYDK---AMGALEEAAKCLLKAEQKNMSTTGLDALQEDLAKVKVQLRKL 1300 (1416)
T ss_pred             hhcchhHHHHHHHHHHHHHh-----hHHHHhhhhH---HhHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHH
Confidence            44443333333333222110     1111111111   11233444444444431111 11222221          111


Q ss_pred             HH-cCChHHHHHHHHHHHhcC----C-CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          526 AI-YGDVKLTENVAERMMDLQ----L-PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       526 ~~-~~~~~~a~~~~~~~~~~~----p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      .. ..|....+.-..-+++.-    | +....|..|+..+....+|..|.+.+++|..+..
T Consensus      1301 q~~~eD~~~~i~qc~~lleep~ld~~Ir~~~~~a~lie~~v~~k~y~~AyRal~el~~k~p 1361 (1416)
T KOG3617|consen 1301 QIMKEDAADGIRQCTTLLEEPILDDIIRCTRLFALLIEDHVSRKNYKPAYRALTELQKKVP 1361 (1416)
T ss_pred             HHhhhhHHHHHHHHHHHhhCcCCCCcchhHHHHHHHHHHHHhhhhccHHHHHHHHHhhcCC
Confidence            11 124444444444444431    1 3346788999999999999999999999988753

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.97  E-value=8.9e-05  Score=76.91  Aligned_cols=365  Identities=14%  Similarity=0.073  Sum_probs=201.3

Q ss_pred             CCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCC---------------CChhhHHHHHHHHh
Q 006580           28 FKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ---------------KNCISWNICLRGLL   92 (640)
Q Consensus        28 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---------------~~~~~~~~ll~~~~   92 (640)
                      .-+++...+++..|...+++.+..+.-.+..-|...=-.+..+++|+....               .|+...-..|.+.|
T Consensus       656 ~lsve~s~eclkaml~~NirqNlQi~VQvatky~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~  735 (1666)
T KOG0985|consen  656 SLSVEDSLECLKAMLSANIRQNLQIVVQVATKYHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAAC  735 (1666)
T ss_pred             hcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHH
Confidence            446677778888888888888888777777777777677788888888764               46666777899999


Q ss_pred             cCCChhHHHHHhccCCC-------------------C------------CcchH------HHHHHHHHhCCChHHHHHHH
Q 006580           93 KSDNLDTALKVFDEIPE-------------------P------------DVVSW------NSMISGYASCGYSDYALEMF  135 (640)
Q Consensus        93 ~~~~~~~A~~~~~~~~~-------------------~------------~~~~y------~~li~~~~~~~~~~~a~~~~  135 (640)
                      +.|++.+..++.++-.-                   |            |...|      ...|..|.+.-++...-.+.
T Consensus       736 kt~QikEvERicresn~YdpErvKNfLkeAkL~DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~Vv  815 (1666)
T KOG0985|consen  736 KTGQIKEVERICRESNCYDPERVKNFLKEAKLTDQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVV  815 (1666)
T ss_pred             hhccHHHHHHHHhccccCCHHHHHHHHHhccccccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhh
Confidence            99999998888775430                   1            11111      11233444433333333333


Q ss_pred             HHHHHCCCCCChhhHHHHH-HHHh---------------chhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHH
Q 006580          136 SKMQLQGVRPSGFTFSILL-STVS---------------SACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYA  199 (640)
Q Consensus       136 ~~m~~~g~~p~~~t~~~ll-~~~~---------------~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  199 (640)
                      -.+.....  +......++ ...+               ++..-...++..+..|  ..+..++|+|...|..+++-.+-
T Consensus       816 G~LLD~dC--~E~~ik~Li~~v~gq~~~deLv~EvEkRNRLklLlp~LE~~i~eG--~~d~a~hnAlaKIyIDSNNnPE~  891 (1666)
T KOG0985|consen  816 GALLDVDC--SEDFIKNLILSVRGQFPVDELVEEVEKRNRLKLLLPWLESLIQEG--SQDPATHNALAKIYIDSNNNPER  891 (1666)
T ss_pred             hhhhcCCC--cHHHHHHHHHHHhccCChHHHHHHHHhhhhHHHHHHHHHHHHhcc--CcchHHHhhhhheeecCCCChHH
Confidence            33332211  112222222 2222               2333335566667776  45888999999999887654332


Q ss_pred             H-H---HHhc------cCCCCee-----------------------eHHHHHHHHHhcCChhHHH-----------HHHH
Q 006580          200 F-G---VFLN------MEELDII-----------------------SWNSLISGCFNSGYGELAL-----------DQFY  235 (640)
Q Consensus       200 ~-~---~~~~------~~~~~~~-----------------------~~~~li~~~~~~~~~~~A~-----------~~~~  235 (640)
                      . +   .++.      ..++|+.                       .|....+.+.+..+.+.=.           .+++
T Consensus       892 fLkeN~yYDs~vVGkYCEKRDP~lA~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiD  971 (1666)
T KOG0985|consen  892 FLKENPYYDSKVVGKYCEKRDPHLACVAYERGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLID  971 (1666)
T ss_pred             hcccCCcchhhHHhhhhcccCCceEEEeecccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHH
Confidence            1 0   1111      1112211                       1222333333444433211           2233


Q ss_pred             HhHHCCCC--CCcchHHHHHHHHhccCCchHHHHHHHHHHHhC--CCCchhHHHHHHHHH--------------------
Q 006580          236 SMRYSGYS--PDEYTISIVINACTKLRNLDKGKQVFALSVKVG--FLSNSIVLSATIDLF--------------------  291 (640)
Q Consensus       236 ~m~~~g~~--p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~--------------------  291 (640)
                      +..+.+++  .|+........++...+-..+-.++++.++-..  +.-+....|.|+-..                    
T Consensus       972 qVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa 1051 (1666)
T KOG0985|consen  972 QVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDA 1051 (1666)
T ss_pred             HHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCc
Confidence            33333332  244455556667766666666666666554321  111222223232222                    


Q ss_pred             -------HhcCCHHHHHHHHHhcCC-------------------------CChhhHHHHHHHHHhCCChHHHHHHHHHHh
Q 006580          292 -------SKCNRLEDSVRLFEQLDR-------------------------WDYAVINVMISTYGRYGFGEVALELFQLML  339 (640)
Q Consensus       292 -------~~~g~~~~A~~~~~~~~~-------------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  339 (640)
                             ...+-+++|..+|+...-                         ..+..|+.+..+-.+.|...+|++-|-+  
T Consensus      1052 ~~ia~iai~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyik-- 1129 (1666)
T KOG0985|consen 1052 PDIAEIAIENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIK-- 1129 (1666)
T ss_pred             hhHHHHHhhhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHh--
Confidence                   233344555555554321                         1334577777777777777777766643  


Q ss_pred             hCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHH
Q 006580          340 REDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIF  404 (640)
Q Consensus       340 ~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  404 (640)
                          .-|...|..++..+.+ |.++.-..++..+.+..-.|.+.  +.|+-+|++.+++.+.++.+
T Consensus      1130 ----adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1130 ----ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFI 1189 (1666)
T ss_pred             ----cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHh
Confidence                2355667777777777 77777777777777766555544  56777777777776655544

>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=98.96  E-value=1.2e-06  Score=88.35  Aligned_cols=124  Identities=16%  Similarity=0.136  Sum_probs=70.1

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHH
Q 006580          450 LAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG-EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASA  526 (640)
Q Consensus       450 ~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~  526 (640)
                      +..+...|...|++++|++++++..+.   .|+ +..|..-...|-+.|++.+|.+.++.+. ..+ |-.+=+-.+..+.
T Consensus       197 ~~~lAqhyd~~g~~~~Al~~Id~aI~h---tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~L  273 (517)
T PF12569_consen  197 LYFLAQHYDYLGDYEKALEYIDKAIEH---TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLL  273 (517)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHhc---CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHH
Confidence            344445566666666666666666542   333 4556666666666666666666666665 233 3334444455556


Q ss_pred             HcCChHHHHHHHHHHHhcCC---CC------hhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          527 IYGDVKLTENVAERMMDLQL---PS------PLPYSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       527 ~~~~~~~a~~~~~~~~~~~p---~~------~~~~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                      +.|+.++|...+......+.   .|      .......+.+|.+.|++..|++.+..+.
T Consensus       274 Ra~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~  332 (517)
T PF12569_consen  274 RAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVL  332 (517)
T ss_pred             HCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            66666666666666654431   11      1112345666677777777766554443

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 [], [].

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.95  E-value=3.3e-06  Score=81.49  Aligned_cols=216  Identities=10%  Similarity=0.057  Sum_probs=148.1

Q ss_pred             HHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCCC---hh-------HHHHH
Q 006580          350 LSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRD---LV-------SWNTI  418 (640)
Q Consensus       350 ~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~-------~~~~l  418 (640)
                      ...+..+... .+++.+.+-+.......  .++.-++....+|...|.+..+...-.+..+..   ..       .+..+
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            3445555555 77777777777777665  555556667777877777776665555443211   11       22223


Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChh-HHHHHHHHHHhcC
Q 006580          419 MMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEE-HYACIIDLLCQAG  497 (640)
Q Consensus       419 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g  497 (640)
                      ..+|.+.++++.|+..|.+.......|+..+         +....+++........   -+.|... -...=...+.+.|
T Consensus       305 g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls---------~lk~~Ek~~k~~e~~a---~~~pe~A~e~r~kGne~Fk~g  372 (539)
T KOG0548|consen  305 GNAYTKREDYEGAIKYYQKALTEHRTPDLLS---------KLKEAEKALKEAERKA---YINPEKAEEEREKGNEAFKKG  372 (539)
T ss_pred             hhhhhhHHhHHHHHHHHHHHhhhhcCHHHHH---------HHHHHHHHHHHHHHHH---hhChhHHHHHHHHHHHHHhcc
Confidence            4466677889999999988776545544322         2233444444443322   2333321 1122256678889


Q ss_pred             ChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHH
Q 006580          498 QLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVM  575 (640)
Q Consensus       498 ~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  575 (640)
                      ++..|+..+.++. ..| |...|..-..+|.+.|++..|+.-.+..++++|+....|..=+.++....+|++|.+.+++.
T Consensus       373 dy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~ea  452 (539)
T KOG0548|consen  373 DYPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEA  452 (539)
T ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999998877 455 77889999999999999999999999999999999999999888999999999999999887


Q ss_pred             HhCC
Q 006580          576 RKNG  579 (640)
Q Consensus       576 ~~~~  579 (640)
                      .+.+
T Consensus       453 le~d  456 (539)
T KOG0548|consen  453 LELD  456 (539)
T ss_pred             HhcC
Confidence            7755

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.94  E-value=1e-05  Score=83.61  Aligned_cols=541  Identities=14%  Similarity=0.041  Sum_probs=259.8

Q ss_pred             hHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCCCCh-----hhHHHHHHH
Q 006580           16 SYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNC-----ISWNICLRG   90 (640)
Q Consensus        16 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~ll~~   90 (640)
                      ..|..|-..+..-.+...|.++|+...+.+ ..+..........|++..+++.|..+.-..-+...     ..|-...-.
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~y  571 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPY  571 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccc
Confidence            467777777777778888999999988876 56677788888899999999999888544444222     233345556


Q ss_pred             HhcCCChhHHHHHhccCCC---CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh-----chhH
Q 006580           91 LLKSDNLDTALKVFDEIPE---PDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS-----SACH  162 (640)
Q Consensus        91 ~~~~~~~~~A~~~~~~~~~---~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~-----~~~~  162 (640)
                      +.+.++...|+.-|+...+   .|...|..+..+|.+.|++..|+++|.+....  .|+. +|.....+..     ....
T Consensus       572 yLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s-~y~~fk~A~~ecd~GkYke  648 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLS-KYGRFKEAVMECDNGKYKE  648 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHh-HHHHHHHHHHHHHhhhHHH
Confidence            7788899999999988764   46678889999999999999999999988764  4543 3333333222     5555


Q ss_pred             HHHHHHHHHHhCC-----CCCchhHHHHHHHhhhcCCChHHHHHHHhccCC-----------CCeeeHHHHHHHHHhcCC
Q 006580          163 GKQIHGSMIRSGL-----SLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEE-----------LDIISWNSLISGCFNSGY  226 (640)
Q Consensus       163 a~~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----------~~~~~~~~li~~~~~~~~  226 (640)
                      +...+...+....     ...-..++-.+...+.-.|-..+|.++|+.-.+           .+...|-.+-        
T Consensus       649 ald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~as--------  720 (1238)
T KOG1127|consen  649 ALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVAS--------  720 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHh--------
Confidence            5555555443310     111122222222222223333333333333211           0111111111        


Q ss_pred             hhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHH-----hCCCCchhHHHHHHHHHHh----cC--
Q 006580          227 GELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVK-----VGFLSNSIVLSATIDLFSK----CN--  295 (640)
Q Consensus       227 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~----~g--  295 (640)
                        +|..+|-... .. .|+.....++..-.-..+....-. ++-...+     ..+..+..+|-.|+.-|.+    .|  
T Consensus       721 --dac~~f~q~e-~~-~vn~h~l~il~~q~e~~~~l~~~d-~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et  795 (1238)
T KOG1127|consen  721 --DACYIFSQEE-PS-IVNMHYLIILSKQLEKTGALKKND-LLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGET  795 (1238)
T ss_pred             --HHHHHHHHhc-cc-chHHHHHHHHHHHHHhcccCcchh-HHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCc
Confidence              1222222222 01 222222222222122222220000 0000000     0111123333333333322    11  


Q ss_pred             --CHHHHHHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHH
Q 006580          296 --RLEDSVRLFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFH  369 (640)
Q Consensus       296 --~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~  369 (640)
                        +...|...+....+   .+...||+|.-. ...|.+.-|...|-+-.... +-...+|..+--.+.. .+++.|...+
T Consensus       796 ~~~~~~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af  873 (1238)
T KOG1127|consen  796 MKDACTAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAF  873 (1238)
T ss_pred             chhHHHHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHH
Confidence              12345555554432   456667766544 44455555555554433321 2223344333333444 6777777777


Q ss_pred             HHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhC-----C---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHH-
Q 006580          370 SMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKL-----D---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLE-  440 (640)
Q Consensus       370 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-----~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-  440 (640)
                      ....... |.+...+--........|+.-++..+|..-     .   .++..-|-....-...+|+.++-+...+++-. 
T Consensus       874 ~~~qSLd-P~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sA  952 (1238)
T KOG1127|consen  874 SSVQSLD-PLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSA  952 (1238)
T ss_pred             HhhhhcC-chhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhh
Confidence            6665543 223333322222233455555555555441     1   13333333333334455554443333222211 


Q ss_pred             --------CCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHH----HHHHHHHhcCChHHHHHHHHh
Q 006580          441 --------EGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYA----CIIDLLCQAGQLGKAIDITST  508 (640)
Q Consensus       441 --------~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~----~l~~~~~~~g~~~~A~~~~~~  508 (640)
                              .|.+-+...|........+.+.+..|.+...++..-....-+...|+    .+...++..|.++.|..-+..
T Consensus       953 s~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~ 1032 (1238)
T KOG1127|consen  953 SLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWK 1032 (1238)
T ss_pred             HHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcc
Confidence                    12233334555555555555555555554444332111122333333    223344555666655555544


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          509 MPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQL---PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       509 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      ....-+..+...-+.. .-.++++++.+.|++++.+..   +-......++.....+|.-+.|...+-+...
T Consensus      1033 ~~~evdEdi~gt~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~~ 1103 (1238)
T KOG1127|consen 1033 EWMEVDEDIRGTDLTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVKS 1103 (1238)
T ss_pred             cchhHHHHHhhhhHHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHHH
Confidence            4322233333333322 223566666666666666622   2223344445555555666666655444433

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.94  E-value=8e-05  Score=74.57  Aligned_cols=109  Identities=16%  Similarity=0.174  Sum_probs=71.4

Q ss_pred             HHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCCCChhhHHHHHHHHhcCCChhH
Q 006580           20 QLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDT   99 (640)
Q Consensus        20 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~   99 (640)
                      ..+.+..+...++.|..+++.+..+.  .-+..|..+...|+..|+++.|.++|-+..     .++-.|..|.++|+++.
T Consensus       737 kaieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~-----~~~dai~my~k~~kw~d  809 (1636)
T KOG3616|consen  737 KAIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD-----LFKDAIDMYGKAGKWED  809 (1636)
T ss_pred             HHHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc-----hhHHHHHHHhccccHHH
Confidence            34556677788888888888777664  233457777788888888888888887643     45566777778888888


Q ss_pred             HHHHhccCCCC--CcchHHHHHHHHHhCCChHHHHHHH
Q 006580          100 ALKVFDEIPEP--DVVSWNSMISGYASCGYSDYALEMF  135 (640)
Q Consensus       100 A~~~~~~~~~~--~~~~y~~li~~~~~~~~~~~a~~~~  135 (640)
                      |.++-++...|  .+..|-+-..-+-..|++.+|.++|
T Consensus       810 a~kla~e~~~~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  810 AFKLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            77777666544  2334544444455555555554444

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.93  E-value=7.4e-08  Score=93.28  Aligned_cols=217  Identities=12%  Similarity=0.076  Sum_probs=170.4

Q ss_pred             CCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCC---ChhHHHHHHHHHHhCCChHHHHHHH
Q 006580          359 IPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKR---DLVSWNTIMMGLTQNGRAAETLDVF  435 (640)
Q Consensus       359 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~  435 (640)
                      .|++..|.-.|+..++.. |.+...|..|.......++-..|+..+.+..+-   |......|.-.|...|.-..|++.+
T Consensus       298 nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~~L  376 (579)
T KOG1125|consen  298 NGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALKML  376 (579)
T ss_pred             cCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            377888887887777765 556777777888888888888888888888743   5667777777899999999999999


Q ss_pred             HHHHHCCCCCCHHHHHH--------HHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHH
Q 006580          436 EELLEEGLPPDRITLAA--------VLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITS  507 (640)
Q Consensus       436 ~~m~~~g~~p~~~~~~~--------ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  507 (640)
                      +.-+...  |.......        .-..+.....+....++|-++....+..+|+.....|.-.|--.|.+++|..-|+
T Consensus       377 ~~Wi~~~--p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~  454 (579)
T KOG1125|consen  377 DKWIRNK--PKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFE  454 (579)
T ss_pred             HHHHHhC--ccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHH
Confidence            9887642  11110000        0011222333455566666666654667899999999999999999999999999


Q ss_pred             hCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          508 TMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       508 ~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      .+. .+| |...||-|...++...+.++|+..|.+++++.|.-.....+|+-.|...|.|++|.+.|=.....
T Consensus       455 ~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  455 AALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            988 777 78899999999999999999999999999999999999999999999999999999988776654

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.92  E-value=1e-05  Score=81.67  Aligned_cols=244  Identities=10%  Similarity=0.001  Sum_probs=107.9

Q ss_pred             hhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCC-----------CCh-hhHHHHHHHHh
Q 006580           25 CLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ-----------KNC-ISWNICLRGLL   92 (640)
Q Consensus        25 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----------~~~-~~~~~ll~~~~   92 (640)
                      +..-|+.+.|.+-.+.+++.      .+|..+.+++.+.++++-|.-.+-.|.+           .|. ..-..+.-...
T Consensus       738 yvtiG~MD~AfksI~~IkS~------~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvAvLAi  811 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIKSD------SVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVAVLAI  811 (1416)
T ss_pred             EEEeccHHHHHHHHHHHhhh------HHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHHHHHH
Confidence            44556666666665555433      3567777777777666666666655543           111 11112222223


Q ss_pred             cCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHH
Q 006580           93 KSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIR  172 (640)
Q Consensus        93 ~~~~~~~A~~~~~~~~~~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~  172 (640)
                      +.|.+++|..++++-.+     |..|=+.|-..|.+++|+++-+.=-+-.++.+-+-|.--+.+-.+.+.|.+.|+..-.
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            45556666666555433     3333344455566666666554433322222222222223222233333333322110


Q ss_pred             hCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHH
Q 006580          173 SGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIV  252 (640)
Q Consensus       173 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~l  252 (640)
                      .     -..+...|.      .+........+.+.  |...|.-....+-..|+.+.|+.+|...++         |-++
T Consensus       887 h-----afev~rmL~------e~p~~~e~Yv~~~~--d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~  944 (1416)
T KOG3617|consen  887 H-----AFEVFRMLK------EYPKQIEQYVRRKR--DESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSM  944 (1416)
T ss_pred             h-----HHHHHHHHH------hChHHHHHHHHhcc--chHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhh
Confidence            0     000000000      00111111112221  223333333444445566666666555443         3444


Q ss_pred             HHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhc
Q 006580          253 INACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQL  307 (640)
Q Consensus       253 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  307 (640)
                      ++..|-.|+.++|.++-++   .   -|....-.|.+.|-..|++.+|+.+|.+.
T Consensus       945 VrI~C~qGk~~kAa~iA~e---s---gd~AAcYhlaR~YEn~g~v~~Av~FfTrA  993 (1416)
T KOG3617|consen  945 VRIKCIQGKTDKAARIAEE---S---GDKAACYHLARMYENDGDVVKAVKFFTRA  993 (1416)
T ss_pred             eeeEeeccCchHHHHHHHh---c---ccHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            4555555666665555432   1   23334444555666666666666655543

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.91  E-value=6.7e-07  Score=76.64  Aligned_cols=192  Identities=13%  Similarity=0.020  Sum_probs=162.0

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCCCC---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhcc
Q 006580          385 SSLMEMYAKTGSIDSSTEIFVKLDKR---DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDR-ITLAAVLLACNYG  460 (640)
Q Consensus       385 ~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~  460 (640)
                      ..|.-.|...|+...|..-+++..+.   +..+|..+...|.+.|..+.|.+.|++..+.  .|+. ...|....-+|..
T Consensus        39 lqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl--~p~~GdVLNNYG~FLC~q  116 (250)
T COG3063          39 LQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSL--APNNGDVLNNYGAFLCAQ  116 (250)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhc--CCCccchhhhhhHHHHhC
Confidence            45667899999999999999998843   4568888999999999999999999999984  5654 5777888888999


Q ss_pred             CCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHH
Q 006580          461 GFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVA  538 (640)
Q Consensus       461 ~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  538 (640)
                      |.+++|...|+.........--..+|..+.-+..+.|+++.|.+.|++.. ..| .+.....+.......|++..|...+
T Consensus       117 g~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~  196 (250)
T COG3063         117 GRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLYL  196 (250)
T ss_pred             CChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHHHH
Confidence            99999999999998874444446788899988999999999999999987 555 5678888999999999999999999


Q ss_pred             HHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          539 ERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       539 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      ++.....+.+.......+.+-...|+-+.+-++=..+...
T Consensus       197 ~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         197 ERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL  236 (250)
T ss_pred             HHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            9999998888888888888888899999888876666553

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.87  E-value=6.6e-06  Score=73.16  Aligned_cols=343  Identities=11%  Similarity=0.029  Sum_probs=193.3

Q ss_pred             HHHHHHHHHccCCchHHHHHHhcCCCC---ChhhHHHHHHHHhcCCChhHHHHHhccCCC--CCcchHHH-HHHHHHhCC
Q 006580           53 GNRCLDLYSRFGTSDDVLQLFDEIPQK---NCISWNICLRGLLKSDNLDTALKVFDEIPE--PDVVSWNS-MISGYASCG  126 (640)
Q Consensus        53 ~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~--~~~~~y~~-li~~~~~~~  126 (640)
                      +++.+..+.+..+++.|++++..-.+.   +....+.+...|-+..++..|-..++++..  |...-|.. -.+.+-+.+
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~A~   92 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLYKAC   92 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHhc
Confidence            445555555666666666666554442   333455555555566666666666665543  33222221 234445556


Q ss_pred             ChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhcc
Q 006580          127 YSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNM  206 (640)
Q Consensus       127 ~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  206 (640)
                      .+.+|+.+...|...   |+.                   +++.+            ..-....-..+++..+..+++..
T Consensus        93 i~ADALrV~~~~~D~---~~L-------------------~~~~l------------qLqaAIkYse~Dl~g~rsLveQl  138 (459)
T KOG4340|consen   93 IYADALRVAFLLLDN---PAL-------------------HSRVL------------QLQAAIKYSEGDLPGSRSLVEQL  138 (459)
T ss_pred             ccHHHHHHHHHhcCC---HHH-------------------HHHHH------------HHHHHHhcccccCcchHHHHHhc
Confidence            666666666555432   110                   00000            00111223467788888888888


Q ss_pred             C-CCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHH-
Q 006580          207 E-ELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVL-  284 (640)
Q Consensus       207 ~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-  284 (640)
                      + +.+..+.+...-...+.|+++.|++-|+...+.|--.....|+..+. ..+.|+.+.|.+...+++++|+...+..- 
T Consensus       139 p~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALa-Hy~~~qyasALk~iSEIieRG~r~HPElgI  217 (459)
T KOG4340|consen  139 PSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALA-HYSSRQYASALKHISEIIERGIRQHPELGI  217 (459)
T ss_pred             cCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhhcCCccCc
Confidence            7 46666666666666788999999999988877544444556766554 44678889999999988888764322110 


Q ss_pred             ---HHHHHHHHhcCCH-HHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCC-CCCChhhHHHHHhhCCC
Q 006580          285 ---SATIDLFSKCNRL-EDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLRED-IRPTEFTLSCVLSSIPI  359 (640)
Q Consensus       285 ---~~l~~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~t~~~~l~~~~~  359 (640)
                         +..+++-. .|+. ..+.+       .-+..+|.-...+.+.|+++.|.+.+.+|.-+. -..|.+|...+.-.-..
T Consensus       218 Gm~tegiDvrs-vgNt~~lh~S-------al~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~~  289 (459)
T KOG4340|consen  218 GMTTEGIDVRS-VGNTLVLHQS-------ALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNMD  289 (459)
T ss_pred             cceeccCchhc-ccchHHHHHH-------HHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhccc
Confidence               00000000 0000 00000       001223444445567888888888888886432 45677777665544434


Q ss_pred             CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCC-----ChhHHHHHHHHHHhCCChHHHHHH
Q 006580          360 PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKR-----DLVSWNTIMMGLTQNGRAAETLDV  434 (640)
Q Consensus       360 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~a~~~  434 (640)
                      +++..+..-+..+...+ |....++..++-.||++.-++-|-+++.+-...     +...|+.|=......-.+++|.+-
T Consensus       290 ~~p~~g~~KLqFLL~~n-PfP~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~LLdaLIt~qT~pEea~KK  368 (459)
T KOG4340|consen  290 ARPTEGFEKLQFLLQQN-PFPPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYDLLDALITCQTAPEEAFKK  368 (459)
T ss_pred             CCccccHHHHHHHHhcC-CCChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHHHHHHHHhCCCCHHHHHHH
Confidence            55555555566666554 455677888888999999999999988775532     334444332222233456666665


Q ss_pred             HHHHH
Q 006580          435 FEELL  439 (640)
Q Consensus       435 ~~~m~  439 (640)
                      ++.+.
T Consensus       369 L~~La  373 (459)
T KOG4340|consen  369 LDGLA  373 (459)
T ss_pred             HHHHH
Confidence            55444

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.86  E-value=0.00044  Score=78.18  Aligned_cols=366  Identities=14%  Similarity=0.035  Sum_probs=182.9

Q ss_pred             HHHHhhhcCCChHHHHHHHhccCCCCeee--HHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCc
Q 006580          185 SLIDMYGKLGVLYYAFGVFLNMEELDIIS--WNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNL  262 (640)
Q Consensus       185 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~  262 (640)
                      .....+...|++.+|..........+...  ...........|+++.+...++.+.......+..........+...|++
T Consensus       346 raa~~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~  425 (903)
T PRK04841        346 AAAEAWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRY  425 (903)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCH
Confidence            33445666777777776665554332111  1112233455677777777776653221122222333344455667888


Q ss_pred             hHHHHHHHHHHHhCCC------Cc--hhHHHHHHHHHHhcCCHHHHHHHHHhcCC----CCh----hhHHHHHHHHHhCC
Q 006580          263 DKGKQVFALSVKVGFL------SN--SIVLSATIDLFSKCNRLEDSVRLFEQLDR----WDY----AVINVMISTYGRYG  326 (640)
Q Consensus       263 ~~a~~~~~~~~~~~~~------~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~----~~~~~li~~~~~~~  326 (640)
                      +++...+..+.+.--.      +.  ......+...+...|+++.|...+++...    .+.    ...+.+...+...|
T Consensus       426 ~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G  505 (903)
T PRK04841        426 SEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKG  505 (903)
T ss_pred             HHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcC
Confidence            8888888776543111      11  11122233445567777777776665432    111    12344445556667


Q ss_pred             ChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHh
Q 006580          327 FGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVK  406 (640)
Q Consensus       327 ~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  406 (640)
                      ++++|...+.+.....-.....                             .........+...+...|+++.|...+++
T Consensus       506 ~~~~A~~~~~~al~~~~~~g~~-----------------------------~~~~~~~~~la~~~~~~G~~~~A~~~~~~  556 (903)
T PRK04841        506 ELARALAMMQQTEQMARQHDVY-----------------------------HYALWSLLQQSEILFAQGFLQAAYETQEK  556 (903)
T ss_pred             CHHHHHHHHHHHHHHHhhhcch-----------------------------HHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            7777666666654321000000                             00011223344445555666666555544


Q ss_pred             CCC-------C----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHC--CCCCC--HHHHHHHHHHHhccCCHHHHHHHHH
Q 006580          407 LDK-------R----DLVSWNTIMMGLTQNGRAAETLDVFEELLEE--GLPPD--RITLAAVLLACNYGGFVDKGMLVFS  471 (640)
Q Consensus       407 ~~~-------~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~--~~~~~~ll~~~~~~~~~~~A~~~~~  471 (640)
                      ...       +    ....+..+...+...|++++|...+++....  ...+.  ..++..+.......|++++|...+.
T Consensus       557 al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~  636 (903)
T PRK04841        557 AFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLN  636 (903)
T ss_pred             HHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            321       0    1112333444455567777777766665442  11121  1233334445566777777777766


Q ss_pred             HhHHhhCCCCChhHH-----HHHHHHHHhcCChHHHHHHHHhCCC-C-CCH----HHHHHHHHHHHHcCChHHHHHHHHH
Q 006580          472 AMKEEYGVMPGEEHY-----ACIIDLLCQAGQLGKAIDITSTMPF-Q-PGC----SIWESILRASAIYGDVKLTENVAER  540 (640)
Q Consensus       472 ~~~~~~~~~p~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~-~-~~~----~~~~~l~~~~~~~~~~~~a~~~~~~  540 (640)
                      ..............+     ...+..+...|+.+.|.+.+..... . ...    ..+..+..++...|+.++|...+++
T Consensus       637 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~  716 (903)
T PRK04841        637 RLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEE  716 (903)
T ss_pred             HHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            654321111110001     0112334456777777777665541 1 111    1134455566677777777777777


Q ss_pred             HHhcCC------CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          541 MMDLQL------PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       541 ~~~~~p------~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +.+...      ....++..++.++.+.|+.++|...+.+..+..
T Consensus       717 al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        717 LNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            766511      122355566777777777777777777776543

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.83  E-value=1.1e-05  Score=73.23  Aligned_cols=315  Identities=14%  Similarity=0.098  Sum_probs=172.6

Q ss_pred             CchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHH---HHHHhcCChhHHHHHHHHhHHCCCCCCcchHH-HHH
Q 006580          178 SNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLI---SGCFNSGYGELALDQFYSMRYSGYSPDEYTIS-IVI  253 (640)
Q Consensus       178 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~-~ll  253 (640)
                      .++.-.-.|.+.+...|++.+|+.-|....+-|+..|-++.   ..|...|+..-|+.-+.+..+  .+||-..-. .-.
T Consensus        36 advekhlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~ARiQRg  113 (504)
T KOG0624|consen   36 ADVEKHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAARIQRG  113 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHHHHHhc
Confidence            34444556667777788899999998888888887777765   467788888888888888776  567754322 223


Q ss_pred             HHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHH
Q 006580          254 NACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALE  333 (640)
Q Consensus       254 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  333 (640)
                      ..+.+.|.++.|+.-|+..++....  ..+.   ..++.+.-..++-.            .....+..+...|+...|+.
T Consensus       114 ~vllK~Gele~A~~DF~~vl~~~~s--~~~~---~eaqskl~~~~e~~------------~l~~ql~s~~~~GD~~~ai~  176 (504)
T KOG0624|consen  114 VVLLKQGELEQAEADFDQVLQHEPS--NGLV---LEAQSKLALIQEHW------------VLVQQLKSASGSGDCQNAIE  176 (504)
T ss_pred             hhhhhcccHHHHHHHHHHHHhcCCC--cchh---HHHHHHHHhHHHHH------------HHHHHHHHHhcCCchhhHHH
Confidence            3466788888888888888776432  1111   11111111111111            11223445566777788888


Q ss_pred             HHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC---CC
Q 006580          334 LFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD---KR  410 (640)
Q Consensus       334 ~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~  410 (640)
                      ....+.+.  .|-...+                                 +..-..+|...|++..|..-++...   ..
T Consensus       177 ~i~~llEi--~~Wda~l---------------------------------~~~Rakc~i~~~e~k~AI~Dlk~askLs~D  221 (504)
T KOG0624|consen  177 MITHLLEI--QPWDASL---------------------------------RQARAKCYIAEGEPKKAIHDLKQASKLSQD  221 (504)
T ss_pred             HHHHHHhc--CcchhHH---------------------------------HHHHHHHHHhcCcHHHHHHHHHHHHhcccc
Confidence            87777763  3333322                                 2222333344444444433332222   22


Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH-HH---HHH---------HHHHhccCCHHHHHHHHHHhHHhh
Q 006580          411 DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI-TL---AAV---------LLACNYGGFVDKGMLVFSAMKEEY  477 (640)
Q Consensus       411 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~---~~l---------l~~~~~~~~~~~A~~~~~~~~~~~  477 (640)
                      +...+-.+-..+...|+.+.++...++-++  +.||.. +|   -.+         +......++|.++++..+...+. 
T Consensus       222 nTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~-  298 (504)
T KOG0624|consen  222 NTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN-  298 (504)
T ss_pred             chHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc-
Confidence            333333333334444444444444444433  233332 11   000         01122345555555555555543 


Q ss_pred             CCCCC-----hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChh
Q 006580          478 GVMPG-----EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPL  550 (640)
Q Consensus       478 ~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  550 (640)
                        .|.     ...+..+-.++...|++.+|++...+.. +.| |+.++.--..+|.-...++.|+.-|+++.+.+++|..
T Consensus       299 --ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~  376 (504)
T KOG0624|consen  299 --EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTR  376 (504)
T ss_pred             --CCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHH
Confidence              233     1123334455566677777777777766 555 3667777777777777778888888888777776654


Q ss_pred             H
Q 006580          551 P  551 (640)
Q Consensus       551 ~  551 (640)
                      +
T Consensus       377 ~  377 (504)
T KOG0624|consen  377 A  377 (504)
T ss_pred             H
Confidence            4

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.81  E-value=1.3e-05  Score=72.81  Aligned_cols=189  Identities=6%  Similarity=0.026  Sum_probs=138.9

Q ss_pred             HHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHH
Q 006580          388 MEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVD  464 (640)
Q Consensus       388 ~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  464 (640)
                      +..+.-.|+...|......+.   ..|...|..-..+|...|++..|+.-++..-+.. .-+..++--+-..+...|+.+
T Consensus       162 l~s~~~~GD~~~ai~~i~~llEi~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~  240 (504)
T KOG0624|consen  162 LKSASGSGDCQNAIEMITHLLEIQPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAE  240 (504)
T ss_pred             HHHHhcCCchhhHHHHHHHHHhcCcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHH
Confidence            344556788888888887776   3578888888999999999999998888777642 333445556666777889988


Q ss_pred             HHHHHHHHhHHhhCCCCChh----HHHHH---------HHHHHhcCChHHHHHHHHhCC-CCCCH-----HHHHHHHHHH
Q 006580          465 KGMLVFSAMKEEYGVMPGEE----HYACI---------IDLLCQAGQLGKAIDITSTMP-FQPGC-----SIWESILRAS  525 (640)
Q Consensus       465 ~A~~~~~~~~~~~~~~p~~~----~~~~l---------~~~~~~~g~~~~A~~~~~~~~-~~~~~-----~~~~~l~~~~  525 (640)
                      .++...++..   .+.|+..    .|..|         +....+.++|.++++-.+... ..|..     ..+..+-..+
T Consensus       241 ~sL~~iRECL---KldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~  317 (504)
T KOG0624|consen  241 NSLKEIRECL---KLDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCY  317 (504)
T ss_pred             HHHHHHHHHH---ccCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecc
Confidence            8888877766   4566633    22222         122345677777777766654 45541     2233444455


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          526 AIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       526 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      ...+++.+|++.-.++++.+|+|..++..-+.+|.-...|++|+.-++...+.+.
T Consensus       318 ~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~  372 (504)
T KOG0624|consen  318 REDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNE  372 (504)
T ss_pred             cccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCc
Confidence            6678999999999999999999999999999999999999999999998877554

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.80  E-value=1.2e-05  Score=77.61  Aligned_cols=178  Identities=10%  Similarity=0.019  Sum_probs=117.4

Q ss_pred             HHHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccCCHHH
Q 006580          387 LMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI-TLAAVLLACNYGGFVDK  465 (640)
Q Consensus       387 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~  465 (640)
                      +..+|.+.++++.|...|.+...+...     -....+....++++...+...-  +.|... -...-...+.+.|++..
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~--~~pe~A~e~r~kGne~Fk~gdy~~  376 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAY--INPEKAEEEREKGNEAFKKGDYPE  376 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHh--hChhHHHHHHHHHHHHHhccCHHH
Confidence            445777778888888888875522111     1112233445555555554444  344432 12222456778899999


Q ss_pred             HHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 006580          466 GMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMD  543 (640)
Q Consensus       466 A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  543 (640)
                      |+..|.++..+  .+-|...|+...-+|.+.|.+..|++-.+... ..| ....|.--..++.-..+++.|.+.|++.++
T Consensus       377 Av~~YteAIkr--~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale  454 (539)
T KOG0548|consen  377 AVKHYTEAIKR--DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALE  454 (539)
T ss_pred             HHHHHHHHHhc--CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999998875  25567788888999999999999988777665 444 344455455555566789999999999999


Q ss_pred             cCCCChhHHHHHHHHHHhcCChHHHHHHHH
Q 006580          544 LQLPSPLPYSLLTQAYAMRGRWEAIVRVKK  573 (640)
Q Consensus       544 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  573 (640)
                      .+|.+......+..++..........++.+
T Consensus       455 ~dp~~~e~~~~~~rc~~a~~~~~~~ee~~~  484 (539)
T KOG0548|consen  455 LDPSNAEAIDGYRRCVEAQRGDETPEETKR  484 (539)
T ss_pred             cCchhHHHHHHHHHHHHHhhcCCCHHHHHH
Confidence            999998888877777765433333333333

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.78  E-value=8.3e-07  Score=78.50  Aligned_cols=147  Identities=7%  Similarity=0.058  Sum_probs=115.4

Q ss_pred             HHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCCh
Q 006580          420 MGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQL  499 (640)
Q Consensus       420 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  499 (640)
                      ..|...|+++.+....+.+..    |.        ..+...++.++++..++...+  .-+.+...|..+...|...|++
T Consensus        24 ~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~--~~P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         24 GSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCH
Confidence            457788888776444322211    11        012236677788877877765  3466788899999999999999


Q ss_pred             HHHHHHHHhCC-CCC-CHHHHHHHHHHH-HHcCC--hHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHH
Q 006580          500 GKAIDITSTMP-FQP-GCSIWESILRAS-AIYGD--VKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKV  574 (640)
Q Consensus       500 ~~A~~~~~~~~-~~~-~~~~~~~l~~~~-~~~~~--~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  574 (640)
                      ++|...+++.. ..| +...+..+..++ ...|+  .++|.++++++++.+|.++..+..++..+.+.|++++|+..|++
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            99999999887 556 777888888864 67676  59999999999999999999999999999999999999999999


Q ss_pred             HHhCCC
Q 006580          575 MRKNGI  580 (640)
Q Consensus       575 m~~~~~  580 (640)
                      +.+...
T Consensus       170 aL~l~~  175 (198)
T PRK10370        170 VLDLNS  175 (198)
T ss_pred             HHhhCC
Confidence            988764

>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=98.76  E-value=9.8e-08  Score=89.43  Aligned_cols=175  Identities=13%  Similarity=0.073  Sum_probs=126.4

Q ss_pred             CChHHHHHHHHhCC-CC----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 006580          395 GSIDSSTEIFVKLD-KR----DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLV  469 (640)
Q Consensus       395 g~~~~A~~~~~~~~-~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~  469 (640)
                      ++-+.+..-+++.. .+    +..........+...|++++|++++++-      .+.......+..+.+.++++.|.+.
T Consensus        80 ~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~  153 (290)
T PF04733_consen   80 SDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKE  153 (290)
T ss_dssp             TTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             cchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHH
Confidence            34455555554443 22    2222222234566679999999988643      3556677788999999999999999


Q ss_pred             HHHhHHhhCCCCChhHHHHHHHHH----HhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 006580          470 FSAMKEEYGVMPGEEHYACIIDLL----CQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMD  543 (640)
Q Consensus       470 ~~~~~~~~~~~p~~~~~~~l~~~~----~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  543 (640)
                      ++.|.+   ...| .+...+..++    .-.+.+.+|..+|+++.  ..+++.+++.+..++...|++++|+++++++++
T Consensus       154 l~~~~~---~~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~  229 (290)
T PF04733_consen  154 LKNMQQ---IDED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALE  229 (290)
T ss_dssp             HHHHHC---CSCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCC
T ss_pred             HHHHHh---cCCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            999874   3334 3344444443    33347999999999987  567889999999999999999999999999999


Q ss_pred             cCCCChhHHHHHHHHHHhcCCh-HHHHHHHHHHHhCC
Q 006580          544 LQLPSPLPYSLLTQAYAMRGRW-EAIVRVKKVMRKNG  579 (640)
Q Consensus       544 ~~p~~~~~~~~l~~~~~~~g~~-~~a~~~~~~m~~~~  579 (640)
                      .+|.++.+..+++-+....|+. +.+.+++..++...
T Consensus       230 ~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~  266 (290)
T PF04733_consen  230 KDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSN  266 (290)
T ss_dssp             C-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHT
T ss_pred             hccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhC
Confidence            9999999999999998999988 67888998887743

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.

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.74  E-value=3.3e-05  Score=76.69  Aligned_cols=198  Identities=11%  Similarity=-0.021  Sum_probs=124.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCC-CCCH--HHHHHHHH
Q 006580          382 VVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGL-PPDR--ITLAAVLL  455 (640)
Q Consensus       382 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~~--~~~~~ll~  455 (640)
                      .....+...+...|++++|...+++..+   .+...+..+...+...|++++|...+++...... .|+.  ..|..+..
T Consensus       115 ~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~  194 (355)
T cd05804         115 YLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLAL  194 (355)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHH
Confidence            3444556677888888888888888762   3456677788888888999999999888877421 1232  23456777


Q ss_pred             HHhccCCHHHHHHHHHHhHHhhCCCCChhHH-H--HHHHHHHhcCChHHHHHH---HHhCC-CCCC---HHHHHHHHHHH
Q 006580          456 ACNYGGFVDKGMLVFSAMKEEYGVMPGEEHY-A--CIIDLLCQAGQLGKAIDI---TSTMP-FQPG---CSIWESILRAS  525 (640)
Q Consensus       456 ~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~-~--~l~~~~~~~g~~~~A~~~---~~~~~-~~~~---~~~~~~l~~~~  525 (640)
                      .+...|++++|..++++........+..... .  .++..+...|....+.+.   ..... ..|.   .........++
T Consensus       195 ~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~  274 (355)
T cd05804         195 FYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALAL  274 (355)
T ss_pred             HHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            7888899999999998875321111222111 1  223333344432222222   11111 1111   12222456677


Q ss_pred             HHcCChHHHHHHHHHHHhcCCC---------ChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          526 AIYGDVKLTENVAERMMDLQLP---------SPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       526 ~~~~~~~~a~~~~~~~~~~~p~---------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ...|+.+.|..+++.+....-.         ........+.++...|++++|.+.+......+
T Consensus       275 ~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         275 AGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             hcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            7888999999999988765211         23445567778889999999999999887654

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=98.74  E-value=1.1e-06  Score=81.31  Aligned_cols=180  Identities=12%  Similarity=0.027  Sum_probs=106.9

Q ss_pred             chHHHHHHHHHHHhcCChHHHHHHHHhCCC--CC-h---hHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH----H
Q 006580          380 NAVVASSLMEMYAKTGSIDSSTEIFVKLDK--RD-L---VSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI----T  449 (640)
Q Consensus       380 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~----~  449 (640)
                      ....+..+...+.+.|+++.|...|+++..  |+ .   ..+..+..++...|++++|+..++++.+.  .|+..    +
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a  109 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL--HPNHPDADYA  109 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCchHHH
Confidence            344445555666666666666666665542  21 1   24455566666666666666666666653  23211    2


Q ss_pred             HHHHHHHHhcc--------CCHHHHHHHHHHhHHhhCCCCCh-hHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHH
Q 006580          450 LAAVLLACNYG--------GFVDKGMLVFSAMKEEYGVMPGE-EHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWES  520 (640)
Q Consensus       450 ~~~ll~~~~~~--------~~~~~A~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  520 (640)
                      +..+..++...        |++++|.+.++.+.+.   .|+. ..+..+....    .....   .        ......
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~~----~~~~~---~--------~~~~~~  171 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRMD----YLRNR---L--------AGKELY  171 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHHH----HHHHH---H--------HHHHHH
Confidence            33333334332        4566666666666543   2222 1111111100    00000   0        001124


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCC---hhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          521 ILRASAIYGDVKLTENVAERMMDLQLPS---PLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       521 l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +...+...|+++.|...++++++..|.+   +..+..++.++.+.|++++|..+++.+....
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            5567888999999999999999997654   5789999999999999999999999887654

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=98.71  E-value=6.2e-07  Score=74.93  Aligned_cols=94  Identities=14%  Similarity=-0.002  Sum_probs=70.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcC
Q 006580          486 YACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRG  563 (640)
Q Consensus       486 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  563 (640)
                      +..+...+...|++++|...|+... ..| +...|..+..++...|++++|...|+++++++|.++..+..++.++...|
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcC
Confidence            4455666777777777777777765 444 66777777777888888888888888888888888888888888888888


Q ss_pred             ChHHHHHHHHHHHhCC
Q 006580          564 RWEAIVRVKKVMRKNG  579 (640)
Q Consensus       564 ~~~~a~~~~~~m~~~~  579 (640)
                      ++++|...++...+..
T Consensus       107 ~~~eAi~~~~~Al~~~  122 (144)
T PRK15359        107 EPGLAREAFQTAIKMS  122 (144)
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            8888888887776654

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.70  E-value=2.1e-06  Score=91.50  Aligned_cols=201  Identities=12%  Similarity=0.102  Sum_probs=171.7

Q ss_pred             CCchHHHHHHHHHHHhcCChHHHHHHHHhCCC--------CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHH
Q 006580          378 DSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK--------RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRIT  449 (640)
Q Consensus       378 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  449 (640)
                      |.+...|-..|......++.++|++++++...        .-...|.+++..-...|.-+...++|+++.+-  --....
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHH
Confidence            45566777888888999999999999988773        12357888888888888888999999999883  223356


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC---CHHHHHHHHHHH
Q 006580          450 LAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP---GCSIWESILRAS  525 (640)
Q Consensus       450 ~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~---~~~~~~~l~~~~  525 (640)
                      |..|...|.+.+++++|.++++.|.++++  -....|..+++.+.+..+-+.|..++.++. .-|   ......-.+..-
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            88899999999999999999999999766  667789999999999999999999998876 333   455677777888


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCcc
Q 006580          526 AIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINK  582 (640)
Q Consensus       526 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  582 (640)
                      .+.||.+++..+|+..+...|.-...|+.+++.-.+.|+.+.++.+|++....++.+
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSI 1667 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCCh
Confidence            899999999999999999999999999999999999999999999999999988644

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.67  E-value=7.8e-07  Score=74.32  Aligned_cols=123  Identities=12%  Similarity=0.060  Sum_probs=100.8

Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-C
Q 006580          433 DVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-F  511 (640)
Q Consensus       433 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~  511 (640)
                      .++++..+  +.|+.  +..+..++...|++++|...|+....  --+.+...|..+..++.+.|++++|...|+... .
T Consensus        14 ~~~~~al~--~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         14 DILKQLLS--VDPET--VYASGYASWQEGDYSRAVIDFSWLVM--AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHH--cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            45666665  45654  44566777889999999999998875  334567788889999999999999999999987 4


Q ss_pred             CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHh
Q 006580          512 QP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAM  561 (640)
Q Consensus       512 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  561 (640)
                      .| ++..+..+..++...|++++|...++++++..|+++..+...+.+...
T Consensus        88 ~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~~  138 (144)
T PRK15359         88 DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQIM  138 (144)
T ss_pred             CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            55 788999999999999999999999999999999999999887766553

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.65  E-value=0.00028  Score=73.51  Aligned_cols=172  Identities=17%  Similarity=0.070  Sum_probs=109.5

Q ss_pred             CchHHHHHHhcCCCCCh---hhHHHHHHHHhcCCChhHHHHHhccCCC---CCcchHHHHHHHHHhCCChHHHHHHHHHH
Q 006580           65 TSDDVLQLFDEIPQKNC---ISWNICLRGLLKSDNLDTALKVFDEIPE---PDVVSWNSMISGYASCGYSDYALEMFSKM  138 (640)
Q Consensus        65 ~~~~a~~~~~~~~~~~~---~~~~~ll~~~~~~~~~~~A~~~~~~~~~---~~~~~y~~li~~~~~~~~~~~a~~~~~~m  138 (640)
                      +...|...|=+..+.|+   ..|..|...|+...+...|.+.|+...+   .+...+-.....|++..+++.|..+.-.-
T Consensus       473 ~~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~  552 (1238)
T KOG1127|consen  473 NSALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRA  552 (1238)
T ss_pred             hHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHH
Confidence            35555555544444332   3677777777777777777777776654   34556667777777777777777772222


Q ss_pred             HHCCCCCChhhHHHHHHHHh-----chhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeee
Q 006580          139 QLQGVRPSGFTFSILLSTVS-----SACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIIS  213 (640)
Q Consensus       139 ~~~g~~p~~~t~~~ll~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  213 (640)
                      -+. -+.-...++.+..+..     +...+..-|+...+.  .|.|...|..|..+|.++|++..|.++|.....-++..
T Consensus       553 ~qk-a~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~--dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s  629 (1238)
T KOG1127|consen  553 AQK-APAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRT--DPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLS  629 (1238)
T ss_pred             hhh-chHHHHHhhhhhccccccCccchhhHHHHHHHHhcC--CchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHh
Confidence            111 1111222333333333     455566666666666  68899999999999999999999999997776433332


Q ss_pred             HHH---HHHHHHhcCChhHHHHHHHHhHH
Q 006580          214 WNS---LISGCFNSGYGELALDQFYSMRY  239 (640)
Q Consensus       214 ~~~---li~~~~~~~~~~~A~~~~~~m~~  239 (640)
                      +..   .....+..|.+++|++.+.....
T Consensus       630 ~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  630 KYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            221   22344667889999888887754

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.63  E-value=9.4e-07  Score=72.19  Aligned_cols=118  Identities=7%  Similarity=0.004  Sum_probs=98.0

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 006580          483 EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       483 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      ....-.+...+...|++++|.++|+-.. ..| +...|-.|...|...|++++|+..|.++..++|+++.++..++.++.
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            3344556667788999999999999876 566 77889999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhCCCccCCceeeEEecCEEEEEecCCCCCCChHHHHHHHHHHHHHHH
Q 006580          561 MRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEME  623 (640)
Q Consensus       561 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  623 (640)
                      ..|+.+.|++.|+......                       ..+|+..++..+.+..++.+.
T Consensus       115 ~lG~~~~A~~aF~~Ai~~~-----------------------~~~~~~~~l~~~A~~~L~~l~  154 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRIC-----------------------GEVSEHQILRQRAEKMLQQLS  154 (157)
T ss_pred             HcCCHHHHHHHHHHHHHHh-----------------------ccChhHHHHHHHHHHHHHHhh
Confidence            9999999999999887743                       144666666666665665554

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.58  E-value=0.0001  Score=73.10  Aligned_cols=218  Identities=12%  Similarity=0.097  Sum_probs=134.3

Q ss_pred             CChHHHHHHHHHHHHhCCCCchHHHHH---HHHHHHhcCChHHHHHHHHhCCC--C-ChhHHHHHHHHHHhCCChHHHHH
Q 006580          360 PPVEHGSQFHSMAIKSGFDSNAVVASS---LMEMYAKTGSIDSSTEIFVKLDK--R-DLVSWNTIMMGLTQNGRAAETLD  433 (640)
Q Consensus       360 ~~~~~a~~~~~~~~~~~~~~~~~~~~~---l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~  433 (640)
                      |+.+.+..+++.+.+.. |.+...+..   +.......+..+.+.+.+.....  | .......+...+...|++++|..
T Consensus        57 g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~  135 (355)
T cd05804          57 GDLPKALALLEQLLDDY-PRDLLALKLHLGAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEE  135 (355)
T ss_pred             CCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHH
Confidence            56666666666555542 333333221   11112224555566666655332  2 22344455667889999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCCh--hHHHHHHHHHHhcCChHHHHHHHHhCC-
Q 006580          434 VFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGE--EHYACIIDLLCQAGQLGKAIDITSTMP-  510 (640)
Q Consensus       434 ~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~-  510 (640)
                      .+++..+.. +.+...+..+...+...|++++|...+++........|+.  ..|..+...+...|++++|...+++.. 
T Consensus       136 ~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~  214 (355)
T cd05804         136 AARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIA  214 (355)
T ss_pred             HHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            999999953 3345677788888999999999999999887642222332  346678889999999999999999975 


Q ss_pred             CCC---CHHHH-H--HHHHHHHHcCChHHHHHH---HHHHHhcCCCC--hhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          511 FQP---GCSIW-E--SILRASAIYGDVKLTENV---AERMMDLQLPS--PLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       511 ~~~---~~~~~-~--~l~~~~~~~~~~~~a~~~---~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ..|   ..... +  .++.-+...|..+.+.+.   ........|..  ...-...+.++...|+.++|...++.+....
T Consensus       215 ~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~  294 (355)
T cd05804         215 PSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRA  294 (355)
T ss_pred             cccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence            223   12111 1  223333444544444333   22211111221  2222367778889999999999999987644

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.55  E-value=0.00032  Score=79.23  Aligned_cols=328  Identities=8%  Similarity=-0.080  Sum_probs=196.7

Q ss_pred             HhhhcCCChHHHHHHHhccCC----CCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCC------CCCcc--hHHHHHHH
Q 006580          188 DMYGKLGVLYYAFGVFLNMEE----LDIISWNSLISGCFNSGYGELALDQFYSMRYSGY------SPDEY--TISIVINA  255 (640)
Q Consensus       188 ~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~------~p~~~--t~~~ll~~  255 (640)
                      ......|+.+.+...++.+..    .+..........+...|++++|...+......--      .+...  ....+...
T Consensus       382 ~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~  461 (903)
T PRK04841        382 WSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQV  461 (903)
T ss_pred             HHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHH
Confidence            344566788888888877741    2333334445556778999999999987754211      11111  11222234


Q ss_pred             HhccCCchHHHHHHHHHHHhCCCCch----hHHHHHHHHHHhcCCHHHHHHHHHhcCC-------CC--hhhHHHHHHHH
Q 006580          256 CTKLRNLDKGKQVFALSVKVGFLSNS----IVLSATIDLFSKCNRLEDSVRLFEQLDR-------WD--YAVINVMISTY  322 (640)
Q Consensus       256 ~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~--~~~~~~li~~~  322 (640)
                      +...|+++.|...++...+.-...+.    ...+.+...+...|+++.|...+++...       +.  ..++..+...+
T Consensus       462 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~  541 (903)
T PRK04841        462 AINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEIL  541 (903)
T ss_pred             HHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHH
Confidence            56789999999999988764212221    2345666778889999999998887653       11  12345566677


Q ss_pred             HhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCC---CchHHHHHHHHHHHhcCChHH
Q 006580          323 GRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFD---SNAVVASSLMEMYAKTGSIDS  399 (640)
Q Consensus       323 ~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~  399 (640)
                      ...|++++|...+++.....                              ...+..   .....+..+...+...|++++
T Consensus       542 ~~~G~~~~A~~~~~~al~~~------------------------------~~~~~~~~~~~~~~~~~la~~~~~~G~~~~  591 (903)
T PRK04841        542 FAQGFLQAAYETQEKAFQLI------------------------------EEQHLEQLPMHEFLLRIRAQLLWEWARLDE  591 (903)
T ss_pred             HHCCCHHHHHHHHHHHHHHH------------------------------HHhccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            88899999988887765420                              000000   011122334445555677777


Q ss_pred             HHHHHHhCCC------C--ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCC--CCCCH--HHH--HHHHHHHhccCCHHH
Q 006580          400 STEIFVKLDK------R--DLVSWNTIMMGLTQNGRAAETLDVFEELLEEG--LPPDR--ITL--AAVLLACNYGGFVDK  465 (640)
Q Consensus       400 A~~~~~~~~~------~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~--~~~--~~ll~~~~~~~~~~~  465 (640)
                      |...+.+...      +  ....+..+...+...|++++|...+++.....  .....  ...  ...+..+...|+.+.
T Consensus       592 A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  671 (903)
T PRK04841        592 AEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEA  671 (903)
T ss_pred             HHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHH
Confidence            7766665531      1  12234445566777888888888887775421  11111  010  111233445788888


Q ss_pred             HHHHHHHhHHhhCCCCC---hhHHHHHHHHHHhcCChHHHHHHHHhCC-------CCC-CHHHHHHHHHHHHHcCChHHH
Q 006580          466 GMLVFSAMKEEYGVMPG---EEHYACIIDLLCQAGQLGKAIDITSTMP-------FQP-GCSIWESILRASAIYGDVKLT  534 (640)
Q Consensus       466 A~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~-~~~~~~~l~~~~~~~~~~~~a  534 (640)
                      |...+...... .....   ...+..+..++...|+.++|...+++..       ..+ ...++..+..++...|+.++|
T Consensus       672 A~~~l~~~~~~-~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A  750 (903)
T PRK04841        672 AANWLRQAPKP-EFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEA  750 (903)
T ss_pred             HHHHHHhcCCC-CCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            88887665431 11111   1113456677888899999988888765       111 123566677788889999999


Q ss_pred             HHHHHHHHhcCC
Q 006580          535 ENVAERMMDLQL  546 (640)
Q Consensus       535 ~~~~~~~~~~~p  546 (640)
                      ...+.++++...
T Consensus       751 ~~~L~~Al~la~  762 (903)
T PRK04841        751 QRVLLEALKLAN  762 (903)
T ss_pred             HHHHHHHHHHhC
Confidence            999999998844

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.55  E-value=1.8e-05  Score=79.24  Aligned_cols=183  Identities=9%  Similarity=-0.031  Sum_probs=111.8

Q ss_pred             HHHHHHhcCChHHHHHHHHhCC--CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHH
Q 006580          387 LMEMYAKTGSIDSSTEIFVKLD--KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVD  464 (640)
Q Consensus       387 l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  464 (640)
                      .+.+|+..|+..+|..+...-.  .|+...|..+........-+++|.++.+.....       +-..+.....+.++++
T Consensus       430 vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs  502 (777)
T KOG1128|consen  430 VILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFS  502 (777)
T ss_pred             HHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHH
Confidence            3344444444444444443322  234444444444433333455555555443221       1111111223356777


Q ss_pred             HHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 006580          465 KGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMM  542 (640)
Q Consensus       465 ~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  542 (640)
                      ++.+.|+.-.+.  -+....+|-.+.-+..+.+++..|.+.|.... ..| +...||.+-.+|.+.++-.+|...+++++
T Consensus       503 ~~~~hle~sl~~--nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAl  580 (777)
T KOG1128|consen  503 EADKHLERSLEI--NPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEAL  580 (777)
T ss_pred             HHHHHHHHHhhc--CccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHh
Confidence            777777655442  12234566666666677777777777777765 566 45688888888888888888888888888


Q ss_pred             hcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          543 DLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       543 ~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      +-+-.+..+|.+.+-...+-|.|++|.+.+.++.+.
T Consensus       581 Kcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  581 KCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             hcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            888777888888888888888888888888887654

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.54  E-value=1.2e-05  Score=71.27  Aligned_cols=157  Identities=13%  Similarity=0.153  Sum_probs=121.0

Q ss_pred             HHHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHH
Q 006580          387 LMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKG  466 (640)
Q Consensus       387 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A  466 (640)
                      -+-.|...|+++......+.+..+.        ..+...++.++++..+++..+.. +.|...|..+...|...|++++|
T Consensus        22 ~~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A   92 (198)
T PRK10370         22 CVGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNA   92 (198)
T ss_pred             HHHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            3467888898887755544333221        01223667788888888888753 55667888888999999999999


Q ss_pred             HHHHHHhHHhhCCCCChhHHHHHHHHH-HhcCC--hHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 006580          467 MLVFSAMKEEYGVMPGEEHYACIIDLL-CQAGQ--LGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERM  541 (640)
Q Consensus       467 ~~~~~~~~~~~~~~p~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~  541 (640)
                      ...|++..+.  .+.+...+..+..++ .+.|+  .++|.+++++.. ..| +...+..+...+...|++++|...++++
T Consensus        93 ~~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~a  170 (198)
T PRK10370         93 LLAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKV  170 (198)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999988863  344677788888864 67787  599999999987 556 7789999999999999999999999999


Q ss_pred             HhcCCCChhHHHH
Q 006580          542 MDLQLPSPLPYSL  554 (640)
Q Consensus       542 ~~~~p~~~~~~~~  554 (640)
                      ++..|++..-+..
T Consensus       171 L~l~~~~~~r~~~  183 (198)
T PRK10370        171 LDLNSPRVNRTQL  183 (198)
T ss_pred             HhhCCCCccHHHH
Confidence            9999977655443

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.54  E-value=4.5e-06  Score=83.45  Aligned_cols=190  Identities=14%  Similarity=0.126  Sum_probs=161.8

Q ss_pred             CCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 006580          376 GFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLL  455 (640)
Q Consensus       376 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  455 (640)
                      +.+|-...-..+.+.+.+.|-...|..+|++.     ..|...|.+|+..|+..+|..+..+-.+  -+||...|..+.+
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGD  465 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGD  465 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhh
Confidence            45666677778889999999999999999985     4677788899999999999999988887  4899999999999


Q ss_pred             HHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHH
Q 006580          456 ACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKL  533 (640)
Q Consensus       456 ~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~  533 (640)
                      .....--+++|+++.+....+        .-..+.....+.++++++.+.|+.-. ..| ...+|-.+..+..+.++++.
T Consensus       466 v~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~  537 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQA  537 (777)
T ss_pred             hccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHH
Confidence            888888899999998876543        11122233345789999999998765 555 78899999999999999999


Q ss_pred             HHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          534 TENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       534 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      |...|-..+.++|++...|+++..+|.+.|+-.+|...+++..+-+.
T Consensus       538 av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~  584 (777)
T KOG1128|consen  538 AVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNY  584 (777)
T ss_pred             HHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCC
Confidence            99999999999999999999999999999999999999999988763

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.53  E-value=1.2e-05  Score=84.43  Aligned_cols=159  Identities=12%  Similarity=0.021  Sum_probs=109.8

Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHH
Q 006580          411 DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI-TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACI  489 (640)
Q Consensus       411 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l  489 (640)
                      ++..+-.|.....+.|++++|..+++...+  +.|+.. ....+...+.+.+++++|...+++...  .-+-+......+
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~~~  160 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREILLE  160 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHHHH
Confidence            466777777777788888888888888877  466664 566667777788888888888887765  333445566677


Q ss_pred             HHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHH
Q 006580          490 IDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEA  567 (640)
Q Consensus       490 ~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  567 (640)
                      ..++.+.|++++|..+|+++. ..| +..++-.+..++...|+.++|...|+++++...+-...|+.++      ++...
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~------~~~~~  234 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL------VDLNA  234 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH------HHHHH
Confidence            777788888888888888776 344 3667777777888888888888888888877655555555442      33333


Q ss_pred             HHHHHHHHHhCC
Q 006580          568 IVRVKKVMRKNG  579 (640)
Q Consensus       568 a~~~~~~m~~~~  579 (640)
                      -..+++.+.-.+
T Consensus       235 ~~~~~~~~~~~~  246 (694)
T PRK15179        235 DLAALRRLGVEG  246 (694)
T ss_pred             HHHHHHHcCccc
Confidence            444555554333

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.53  E-value=8.7e-06  Score=71.61  Aligned_cols=126  Identities=14%  Similarity=0.115  Sum_probs=69.1

Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcC
Q 006580          452 AVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYG  529 (640)
Q Consensus       452 ~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~  529 (640)
                      .+-..+...|+-+....+......  ..+.+......++....+.|++.+|+..+.+..  .++|...|+.+..+|.+.|
T Consensus        71 ~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          71 KLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHcc
Confidence            334444455555555555444332  222233344445555566666666666665554  3335556666666666666


Q ss_pred             ChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          530 DVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       530 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +.+.|...|.+++++.|.++.++++|+..|.-.|+++.|..++......+
T Consensus       149 r~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~  198 (257)
T COG5010         149 RFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP  198 (257)
T ss_pred             ChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            66666666666666666666666666666666666666666665555443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.52  E-value=1.8e-05  Score=69.64  Aligned_cols=155  Identities=17%  Similarity=0.108  Sum_probs=123.4

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHh
Q 006580          416 NTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQ  495 (640)
Q Consensus       416 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  495 (640)
                      ..+-..+...|+-+....+..+.... -+-|............+.|++.+|...+++...  .-++|...|+.+.-+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHH
Confidence            55566777778888777777775542 123334555577778888999999999988876  667888889999999999


Q ss_pred             cCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHH
Q 006580          496 AGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKK  573 (640)
Q Consensus       496 ~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  573 (640)
                      .|++++|..-|.+.. ..| ++...+.+...+.-.|+++.|..++..+....+.+..+-.+|+.+....|++++|..+..
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            999999988887776 444 677889999999999999999999999988888888888899989999999999887754

>PF12854 PPR_1: PPR repeat

Probab=98.51  E-value=1.9e-07  Score=55.15  Aligned_cols=33  Identities=21%  Similarity=0.543  Sum_probs=22.7

Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 006580          276 GFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLD  308 (640)
Q Consensus       276 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  308 (640)
                      |+.||..+|++||++|++.|++++|.++|++|+
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            566777777777777777777777777776663

>PLN02789 farnesyltranstransferase

Probab=98.51  E-value=5.2e-05  Score=72.23  Aligned_cols=183  Identities=9%  Similarity=0.037  Sum_probs=128.5

Q ss_pred             HHhcC-ChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCCh--HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHH
Q 006580          391 YAKTG-SIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRA--AETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVD  464 (640)
Q Consensus       391 ~~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~--~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  464 (640)
                      +...| ++++++..++++.+   .+..+|+.....+.+.|+.  ++++.+++++.+.. +-|..+|.....++...|+++
T Consensus        81 L~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~  159 (320)
T PLN02789         81 LEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWE  159 (320)
T ss_pred             HHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHH
Confidence            33445 46777777777663   3445566554445555553  67888888888742 345568888888888889999


Q ss_pred             HHHHHHHHhHHhhCCCCChhHHHHHHHHHHhc---CCh----HHHHHHHHhCC-CCC-CHHHHHHHHHHHHHc----CCh
Q 006580          465 KGMLVFSAMKEEYGVMPGEEHYACIIDLLCQA---GQL----GKAIDITSTMP-FQP-GCSIWESILRASAIY----GDV  531 (640)
Q Consensus       465 ~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~----~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~----~~~  531 (640)
                      ++++.++++.+. + +-+...|+.....+.+.   |..    ++++++..++. ..| |...|+.+...+...    ++.
T Consensus       160 eeL~~~~~~I~~-d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~  237 (320)
T PLN02789        160 DELEYCHQLLEE-D-VRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSD  237 (320)
T ss_pred             HHHHHHHHHHHH-C-CCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccc
Confidence            999999998875 3 33455666665555544   222    45666665554 555 788999998888773    345


Q ss_pred             HHHHHHHHHHHhcCCCChhHHHHHHHHHHhcC------------------ChHHHHHHHHHHH
Q 006580          532 KLTENVAERMMDLQLPSPLPYSLLTQAYAMRG------------------RWEAIVRVKKVMR  576 (640)
Q Consensus       532 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g------------------~~~~a~~~~~~m~  576 (640)
                      .+|.+...+++..+|.++.+...|+++|+...                  ..++|.++++.+.
T Consensus       238 ~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        238 PEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             hhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHHH
Confidence            67989999998999999999999999998642                  2367888888873

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.50  E-value=0.00011  Score=64.88  Aligned_cols=176  Identities=13%  Similarity=0.078  Sum_probs=106.1

Q ss_pred             HHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC
Q 006580          367 QFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD  446 (640)
Q Consensus       367 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  446 (640)
                      .+.+.+.......+......-...|++.|++++|++.......-.....  =...+.+..+.+-|.+.+++|.+-   -+
T Consensus        94 ~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~~lE~~Al--~VqI~lk~~r~d~A~~~lk~mq~i---de  168 (299)
T KOG3081|consen   94 SLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGENLEAAAL--NVQILLKMHRFDLAEKELKKMQQI---DE  168 (299)
T ss_pred             HHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccchHHHHHH--HHHHHHHHHHHHHHHHHHHHHHcc---ch
Confidence            3344444444444433333344567778888888887777332222222  234455667778888888888762   34


Q ss_pred             HHHHHHHHHHHhc----cCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHH
Q 006580          447 RITLAAVLLACNY----GGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWES  520 (640)
Q Consensus       447 ~~~~~~ll~~~~~----~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~  520 (640)
                      ..|.+.|..++.+    .+.+..|.-+|++|.+  +.+|+..+.+....++...|++++|..++++..  ...++.++..
T Consensus       169 d~tLtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~N  246 (299)
T KOG3081|consen  169 DATLTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLAN  246 (299)
T ss_pred             HHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHH
Confidence            5566666665543    3457777777777765  456777777777777777777777777777765  2335666655


Q ss_pred             HHHHHHHcCC-hHHHHHHHHHHHhcCCCCh
Q 006580          521 ILRASAIYGD-VKLTENVAERMMDLQLPSP  549 (640)
Q Consensus       521 l~~~~~~~~~-~~~a~~~~~~~~~~~p~~~  549 (640)
                      ++-.....|. .+-..+.+.++....|..+
T Consensus       247 liv~a~~~Gkd~~~~~r~l~QLk~~~p~h~  276 (299)
T KOG3081|consen  247 LIVLALHLGKDAEVTERNLSQLKLSHPEHP  276 (299)
T ss_pred             HHHHHHHhCCChHHHHHHHHHHHhcCCcch
Confidence            5555555553 3444566666666666553

>PF12854 PPR_1: PPR repeat

Probab=98.50  E-value=1.9e-07  Score=55.12  Aligned_cols=32  Identities=31%  Similarity=0.629  Sum_probs=16.2

Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHHhC
Q 006580          478 GVMPGEEHYACIIDLLCQAGQLGKAIDITSTM  509 (640)
Q Consensus       478 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  509 (640)
                      |+.||..+|+.||++|++.|++++|.++|++|
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            44455555555555555555555555555444

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.49  E-value=0.0016  Score=63.55  Aligned_cols=73  Identities=12%  Similarity=0.221  Sum_probs=50.8

Q ss_pred             CCchhhHHHHHHHHHccCCchHHHHHHhcCCC--C-ChhhHHHHHHHHhcCCChhHHHHHhccCCC--CCcchHHHHHH
Q 006580           47 NAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ--K-NCISWNICLRGLLKSDNLDTALKVFDEIPE--PDVVSWNSMIS  120 (640)
Q Consensus        47 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~--~~~~~y~~li~  120 (640)
                      +-|...|+.|+.-+.. ..++++++.++++..  | .+..|..-+..-.++++++..+++|.+...  -+...|..-|.
T Consensus        17 P~di~sw~~lire~qt-~~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~   94 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQT-QPIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLS   94 (656)
T ss_pred             CccHHHHHHHHHHHcc-CCHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHH
Confidence            5677788888886544 488888888888765  2 445677778888888888888888876542  45555555444

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.45  E-value=8.8e-05  Score=64.85  Aligned_cols=166  Identities=17%  Similarity=0.212  Sum_probs=107.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCCC--CC---hhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc
Q 006580          385 SSLMEMYAKTGSIDSSTEIFVKLDK--RD---LVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNY  459 (640)
Q Consensus       385 ~~l~~~~~~~g~~~~A~~~~~~~~~--~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  459 (640)
                      ..++-+...+|+.+.|...++.+..  |.   +.-...  .-+-..|++++|+++++.+.+.. +.|.+++-.=+...-.
T Consensus        56 EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lka--m~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka  132 (289)
T KOG3060|consen   56 EQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKA--MLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKA  132 (289)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHH--HHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHH
Confidence            3344444556666666666666542  11   111111  12334677888888888888764 4455566655555566


Q ss_pred             cCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcC---ChHHH
Q 006580          460 GGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYG---DVKLT  534 (640)
Q Consensus       460 ~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~---~~~~a  534 (640)
                      .|+.-+|++-+....+  .+..|.+.|.-+.+.|...|++++|.=-++++. ..| ++..+..+...+...|   +...+
T Consensus       133 ~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~a  210 (289)
T KOG3060|consen  133 QGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLELA  210 (289)
T ss_pred             cCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHH
Confidence            6777778777777776  556778888888888888888888888888876 566 5556666665554444   67778


Q ss_pred             HHHHHHHHhcCCCChhHHHHH
Q 006580          535 ENVAERMMDLQLPSPLPYSLL  555 (640)
Q Consensus       535 ~~~~~~~~~~~p~~~~~~~~l  555 (640)
                      .++|.+++++.|.+...+..+
T Consensus       211 rkyy~~alkl~~~~~ral~GI  231 (289)
T KOG3060|consen  211 RKYYERALKLNPKNLRALFGI  231 (289)
T ss_pred             HHHHHHHHHhChHhHHHHHHH
Confidence            888888888887665554443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.44  E-value=3.4e-05  Score=67.33  Aligned_cols=163  Identities=13%  Similarity=0.148  Sum_probs=131.9

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI-TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDL  492 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~  492 (640)
                      .|..++-+....|+.+.|...++++... + |.+. .-..-..-+-..|++++|+++++.+.++  -+.|..++..=+..
T Consensus        54 l~EqV~IAAld~~~~~lAq~C~~~L~~~-f-p~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~d--dpt~~v~~KRKlAi  129 (289)
T KOG3060|consen   54 LYEQVFIAALDTGRDDLAQKCINQLRDR-F-PGSKRVGKLKAMLLEATGNYKEAIEYYESLLED--DPTDTVIRKRKLAI  129 (289)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHh-C-CCChhHHHHHHHHHHHhhchhhHHHHHHHHhcc--CcchhHHHHHHHHH
Confidence            4555666777889999999999999986 3 5443 2222222345678999999999999985  36667777777777


Q ss_pred             HHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcC---ChHH
Q 006580          493 LCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRG---RWEA  567 (640)
Q Consensus       493 ~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g---~~~~  567 (640)
                      .-..|+.-+|++-+.+..  +..|...|..|...|...|++++|.-.+++++-..|.++..+..+++.+.-.|   +..-
T Consensus       130 lka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~  209 (289)
T KOG3060|consen  130 LKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLEL  209 (289)
T ss_pred             HHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHH
Confidence            888888889988887776  67799999999999999999999999999999999999999999999988776   4566


Q ss_pred             HHHHHHHHHhCCC
Q 006580          568 IVRVKKVMRKNGI  580 (640)
Q Consensus       568 a~~~~~~m~~~~~  580 (640)
                      |.+++.+..+...
T Consensus       210 arkyy~~alkl~~  222 (289)
T KOG3060|consen  210 ARKYYERALKLNP  222 (289)
T ss_pred             HHHHHHHHHHhCh
Confidence            7788888877665

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.40  E-value=5.8e-06  Score=68.85  Aligned_cols=96  Identities=14%  Similarity=0.225  Sum_probs=78.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHh
Q 006580          484 EHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAM  561 (640)
Q Consensus       484 ~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  561 (640)
                      .....+...+...|++++|.+.++.+. ..| +...|..+...+...|+++.|...++++++.+|+++..+..++.+|..
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~   97 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLA   97 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH
Confidence            445566677777888888888887765 334 677888888888888999999999999999999888999999999999


Q ss_pred             cCChHHHHHHHHHHHhCC
Q 006580          562 RGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       562 ~g~~~~a~~~~~~m~~~~  579 (640)
                      .|++++|...++...+..
T Consensus        98 ~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        98 LGEPESALKALDLAIEIC  115 (135)
T ss_pred             cCCHHHHHHHHHHHHHhc
Confidence            999999999998887754

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=98.40  E-value=7.2e-05  Score=78.81  Aligned_cols=142  Identities=10%  Similarity=0.072  Sum_probs=109.3

Q ss_pred             CCCchHHHHHHHHHHHhcCChHHHHHHHHhCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH-HHHH
Q 006580          377 FDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD--KR-DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI-TLAA  452 (640)
Q Consensus       377 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~  452 (640)
                      .+.++..+..|.....+.|.+++|..+++...  .| +...+..+...+.+.+++++|+..+++....  .|+.. ....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHH
Confidence            45667778888888888999999999998887  34 4556777888888899999999999988884  56654 5556


Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHH
Q 006580          453 VLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESIL  522 (640)
Q Consensus       453 ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~  522 (640)
                      +..++.+.|++++|..+|+++..  ..+-+...+..+..++...|+.++|...|++..  ..|....|+.++
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~--~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~  229 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSR--QHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH
Confidence            66778888999999999998886  233446778888888889999999999888876  455555555444

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.39  E-value=9.6e-05  Score=72.33  Aligned_cols=215  Identities=15%  Similarity=0.190  Sum_probs=150.4

Q ss_pred             HhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHhCCChHHHH
Q 006580          256 CTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMISTYGRYGFGEVAL  332 (640)
Q Consensus       256 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~  332 (640)
                      +.+.|++..|.-.|+..++.. +-+...|..|.......++-..|+..+++..+   .|..+.-+|.-.|...|.-..|+
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHH
Confidence            456777888888888887775 33667788888888888888888888877765   35556667777888888888888


Q ss_pred             HHHHHHhhCCCC--------CChhhHHHHHhhCCC-CChHHHHHHH-HHHHHhCCCCchHHHHHHHHHHHhcCChHHHHH
Q 006580          333 ELFQLMLREDIR--------PTEFTLSCVLSSIPI-PPVEHGSQFH-SMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTE  402 (640)
Q Consensus       333 ~~~~~m~~~~~~--------p~~~t~~~~l~~~~~-~~~~~a~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  402 (640)
                      ..|+.-+....+        ++..+-..  ..+.. ..+....++| +.....+..+|+.+...|.-.|--.|++++|..
T Consensus       374 ~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  374 KMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            888877553210        00000000  11122 2333444444 444455555777788888888888899999999


Q ss_pred             HHHhCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHH
Q 006580          403 IFVKLD--KR-DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI-TLAAVLLACNYGGFVDKGMLVFSAMKE  475 (640)
Q Consensus       403 ~~~~~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~A~~~~~~~~~  475 (640)
                      .|+...  +| |...||.|...++...+.++|+..|++.++  ++|+-+ ....|.-+|...|.+++|.+.|-....
T Consensus       452 cf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  452 CFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            998876  34 677899999888888889999999999888  678764 444555578888999988887766543

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.37  E-value=2.6e-05  Score=72.17  Aligned_cols=177  Identities=12%  Similarity=0.059  Sum_probs=120.3

Q ss_pred             hhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCc---hHHHHHHHHHHHhcCChHHHHHHHHhCCC--CC-hh---HHHH
Q 006580          348 FTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSN---AVVASSLMEMYAKTGSIDSSTEIFVKLDK--RD-LV---SWNT  417 (640)
Q Consensus       348 ~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~---~~~~  417 (640)
                      ..+......+.. |+.+.|...++.+.... +.+   ...+..+..++.+.|++++|...++++.+  |+ ..   .+..
T Consensus        34 ~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~  112 (235)
T TIGR03302        34 EELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYL  112 (235)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHH
Confidence            344444445555 99999999999988764 222   24567788899999999999999999873  32 22   4555


Q ss_pred             HHHHHHhC--------CChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHH
Q 006580          418 IMMGLTQN--------GRAAETLDVFEELLEEGLPPDRI-TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYAC  488 (640)
Q Consensus       418 li~~~~~~--------g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~  488 (640)
                      +..++...        |++++|.+.++++...  .|+.. ....+... ..   .      .... .        .....
T Consensus       113 ~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~-~~---~------~~~~-~--------~~~~~  171 (235)
T TIGR03302       113 RGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRM-DY---L------RNRL-A--------GKELY  171 (235)
T ss_pred             HHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHH-HH---H------HHHH-H--------HHHHH
Confidence            55566554        7889999999999884  55543 22111111 00   0      0000 0        01224


Q ss_pred             HHHHHHhcCChHHHHHHHHhCC-C---CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 006580          489 IIDLLCQAGQLGKAIDITSTMP-F---QP-GCSIWESILRASAIYGDVKLTENVAERMMDLQL  546 (640)
Q Consensus       489 l~~~~~~~g~~~~A~~~~~~~~-~---~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  546 (640)
                      +...+.+.|++++|...+++.. .   .| ....+..+..++...|++++|...++.+....|
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            5677889999999999888875 2   23 356888999999999999999998888776654

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).

>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=98.37  E-value=1e-05  Score=78.51  Aligned_cols=122  Identities=11%  Similarity=0.112  Sum_probs=100.7

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHH
Q 006580          450 LAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAI  527 (640)
Q Consensus       450 ~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~  527 (640)
                      ...|+..+...++++.|+.+++++.+.   .|+  ....++..+...++-.+|.+++.+.. ..| +...+......+..
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            345556666778888888888888765   244  44457777777888888888888876 344 77778888888999


Q ss_pred             cCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          528 YGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       528 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                      .++++.|+.+.+++.+..|.+..+|..|+.+|.+.|++++|+-.++.+.
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            9999999999999999999999999999999999999999999998774

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.36  E-value=0.00017  Score=69.37  Aligned_cols=137  Identities=15%  Similarity=0.106  Sum_probs=87.6

Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCCCHHHHHH-HHHHHhccCCHHHHHHHHHHhHHhhCCCCC-hhHHHHHHHHHHhcCC
Q 006580          421 GLTQNGRAAETLDVFEELLEEGLPPDRITLAA-VLLACNYGGFVDKGMLVFSAMKEEYGVMPG-EEHYACIIDLLCQAGQ  498 (640)
Q Consensus       421 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~-ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~  498 (640)
                      .+...|++++|+..++.+...  .|+...|.. ....+...++.++|.+.++++...   .|+ ....-.+.++|.+.|+
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l---~P~~~~l~~~~a~all~~g~  389 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALAL---DPNSPLLQLNLAQALLKGGK  389 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc---CCCccHHHHHHHHHHHhcCC
Confidence            445567777777777777664  455544443 345666777777777777776643   344 4445556677777777


Q ss_pred             hHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          499 LGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       499 ~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                      +.+|+.+++...  .+.|+..|..|..+|...|+..++...                 .+..|+-.|+|++|...+....
T Consensus       390 ~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A-----------------~AE~~~~~G~~~~A~~~l~~A~  452 (484)
T COG4783         390 PQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLA-----------------RAEGYALAGRLEQAIIFLMRAS  452 (484)
T ss_pred             hHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHH-----------------HHHHHHhCCCHHHHHHHHHHHH
Confidence            777777777665  333667777777777777766555443                 3345666777777777777776


Q ss_pred             hCC
Q 006580          577 KNG  579 (640)
Q Consensus       577 ~~~  579 (640)
                      ++.
T Consensus       453 ~~~  455 (484)
T COG4783         453 QQV  455 (484)
T ss_pred             Hhc
Confidence            654

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.34  E-value=0.0037  Score=61.06  Aligned_cols=77  Identities=16%  Similarity=0.063  Sum_probs=59.8

Q ss_pred             CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHh
Q 006580          110 PDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDM  189 (640)
Q Consensus       110 ~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  189 (640)
                      -|+.+|+.||+-+-.+ .++++.+.++++...                                  +|.....|..-+..
T Consensus        18 ~di~sw~~lire~qt~-~~~~~R~~YEq~~~~----------------------------------FP~s~r~W~~yi~~   62 (656)
T KOG1914|consen   18 YDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV----------------------------------FPSSPRAWKLYIER   62 (656)
T ss_pred             ccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc----------------------------------CCCCcHHHHHHHHH
Confidence            3677788888765555 788888888888765                                  78888888899999


Q ss_pred             hhcCCChHHHHHHHhccCC--CCeeeHHHHHHHH
Q 006580          190 YGKLGVLYYAFGVFLNMEE--LDIISWNSLISGC  221 (640)
Q Consensus       190 ~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~  221 (640)
                      -.+..+++..+++|.+...  -++..|..-|.--
T Consensus        63 El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~YV   96 (656)
T KOG1914|consen   63 ELASKDFESVEKLFSRCLVKVLNLDLWKLYLSYV   96 (656)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHHHH
Confidence            9999999999999998874  3667777766543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.33  E-value=0.0064  Score=63.20  Aligned_cols=506  Identities=12%  Similarity=0.065  Sum_probs=245.4

Q ss_pred             hcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHH--HccCCchHHHHHHhcCCC---CChhhHHHHHHHHhcCCChhHH
Q 006580           26 LSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLY--SRFGTSDDVLQLFDEIPQ---KNCISWNICLRGLLKSDNLDTA  100 (640)
Q Consensus        26 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~A  100 (640)
                      ...+.+..|.+-.+.+.+..  |+. .|...+.++  .+.|+.++|..+++....   .|..+...+-..|.+.++.++|
T Consensus        20 ld~~qfkkal~~~~kllkk~--Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~   96 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKH--PNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEA   96 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHC--CCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHH
Confidence            34577888888888887764  333 244444444  477888888888887654   3556777888888888888888


Q ss_pred             HHHhccCCC--CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh-------------chhHHHH
Q 006580          101 LKVFDEIPE--PDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS-------------SACHGKQ  165 (640)
Q Consensus       101 ~~~~~~~~~--~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~-------------~~~~a~~  165 (640)
                      ..+++...+  |+......+..+|+|.+++.+-.+.--+|.+ ..+-+.+.|-++++...             -...|..
T Consensus        97 ~~~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~  175 (932)
T KOG2053|consen   97 VHLYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLALAEK  175 (932)
T ss_pred             HHHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHHHHHH
Confidence            888888875  4444444555667777776654444333333 22334455555554443             1233444


Q ss_pred             HHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccC-----CCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHC
Q 006580          166 IHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNME-----ELDIISWNSLISGCFNSGYGELALDQFYSMRYS  240 (640)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  240 (640)
                      ..+.+++.++...+..-...-...+...|++++|..++..-.     .-+...-+.-+..+...+++.+..++-.++...
T Consensus       176 m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k  255 (932)
T KOG2053|consen  176 MVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEK  255 (932)
T ss_pred             HHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHh
Confidence            555555443111122222222333445566666666662211     112222334445555666666666666666655


Q ss_pred             CCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC-ChhhHHHHH
Q 006580          241 GYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRW-DYAVINVMI  319 (640)
Q Consensus       241 g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li  319 (640)
                      |  +|.  |.+.+..            ++ ++++....++...      .+...+..+...+..++.... .-.+|-+-+
T Consensus       256 ~--~Dd--y~~~~~s------------v~-klLe~~~~~~a~~------~~s~~~~l~~~~ek~~~~i~~~~Rgp~LA~l  312 (932)
T KOG2053|consen  256 G--NDD--YKIYTDS------------VF-KLLELLNKEPAEA------AHSLSKSLDECIEKAQKNIGSKSRGPYLARL  312 (932)
T ss_pred             C--Ccc--hHHHHHH------------HH-HHHHhcccccchh------hhhhhhhHHHHHHHHHHhhcccccCcHHHHH
Confidence            4  332  2222221            11 1111110111100      011112222222222222211 111222222


Q ss_pred             HHH---HhCCChHHHHHHHHHHhhCCCCC----Ch---------hhHHHHHhhCCC--CChHHHHHHHHHHHHhCCCCch
Q 006580          320 STY---GRYGFGEVALELFQLMLREDIRP----TE---------FTLSCVLSSIPI--PPVEHGSQFHSMAIKSGFDSNA  381 (640)
Q Consensus       320 ~~~---~~~~~~~~a~~~~~~m~~~~~~p----~~---------~t~~~~l~~~~~--~~~~~a~~~~~~~~~~~~~~~~  381 (640)
                      ...   -.-|+.+++...|-+-.  |-.|    |.         .-...++..+..  ++.....+.+.+-         
T Consensus       313 el~kr~~~~gd~ee~~~~y~~kf--g~kpcc~~Dl~~yl~~l~~~q~~~l~~~l~~~~~~~s~~~k~l~~h---------  381 (932)
T KOG2053|consen  313 ELDKRYKLIGDSEEMLSYYFKKF--GDKPCCAIDLNHYLGHLNIDQLKSLMSKLVLADDDSSGDEKVLQQH---------  381 (932)
T ss_pred             HHHHHhcccCChHHHHHHHHHHh--CCCcHhHhhHHHhhccCCHHHHHHHHHHhhccCCcchhhHHHHHHH---------
Confidence            222   23355555444332211  1111    11         111222222222  2222222211111         


Q ss_pred             HHHHHHHHHHHhcCC-----hHHHHHHHHhC----CC---------CC------h---hHHHHHHHHHHhCCChH---HH
Q 006580          382 VVASSLMEMYAKTGS-----IDSSTEIFVKL----DK---------RD------L---VSWNTIMMGLTQNGRAA---ET  431 (640)
Q Consensus       382 ~~~~~l~~~~~~~g~-----~~~A~~~~~~~----~~---------~~------~---~~~~~li~~~~~~g~~~---~a  431 (640)
                         ...+..-.-.|.     -+.-..++.+.    .+         |+      .   .+-+.|+..+.+.++..   +|
T Consensus       382 ---~c~l~~~rl~G~~~~l~ad~i~a~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~ea  458 (932)
T KOG2053|consen  382 ---LCVLLLLRLLGLYEKLPADSILAYVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEA  458 (932)
T ss_pred             ---HHHHHHHHHhhccccCChHHHHHHHHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence               001111111111     11111111111    11         11      1   14567778888888765   34


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-
Q 006580          432 LDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-  510 (640)
Q Consensus       432 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-  510 (640)
                      +-+++.-... -+-|..+-..+++.|+-.|-...|.+.|+.+--+ +++.|...|-. ...+...|++..+...+.... 
T Consensus       459 I~LLE~glt~-s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK-~IQ~DTlgh~~-~~~~~t~g~~~~~s~~~~~~lk  535 (932)
T KOG2053|consen  459 ITLLENGLTK-SPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIK-NIQTDTLGHLI-FRRAETSGRSSFASNTFNEHLK  535 (932)
T ss_pred             HHHHHHHhhc-CCccHHHHHHHHHHHHHhcCChhHHHHHHhcchH-HhhhccchHHH-HHHHHhcccchhHHHHHHHHHH
Confidence            4455554443 1334456667788899889999999999988766 77766655433 344566778777777776654 


Q ss_pred             -CCCCH-HHHHHHHHHHHHcCChHHHHHHHHHHHhcCC----CChhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          511 -FQPGC-SIWESILRASAIYGDVKLTENVAERMMDLQL----PSPLPYSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       511 -~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p----~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                       +..+. .+-.....+| +.|.+.+..++..-=..+.-    -....=+...+..+..++.++-...++.|.
T Consensus       536 fy~~~~kE~~eyI~~AY-r~g~ySkI~em~~fr~rL~~S~q~~a~~VE~~~l~ll~~~~~~~q~~~~~~~~~  606 (932)
T KOG2053|consen  536 FYDSSLKETPEYIALAY-RRGAYSKIPEMLAFRDRLMHSLQKWACRVENLQLSLLCNADRGTQLLKLLESMK  606 (932)
T ss_pred             HHhhhhhhhHHHHHHHH-HcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHhccc
Confidence             12111 1223333344 56766666555432222211    111223356667777888888888887776

>PLN02789 farnesyltranstransferase

Probab=98.32  E-value=0.00014  Score=69.38  Aligned_cols=190  Identities=11%  Similarity=0.057  Sum_probs=139.4

Q ss_pred             HHHHHHhcCChHHHHHHHHhCCCC---ChhHHHHHHHHHHhCC-ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC
Q 006580          387 LMEMYAKTGSIDSSTEIFVKLDKR---DLVSWNTIMMGLTQNG-RAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGF  462 (640)
Q Consensus       387 l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  462 (640)
                      +-..+...+..++|+.+..++.+.   +...|+.-...+...| ++++++..++++.+.. +-+..+++.....+.+.|.
T Consensus        43 ~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~  121 (320)
T PLN02789         43 FRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGP  121 (320)
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCc
Confidence            334455567888899888887743   4446665556666667 5799999999999853 2333456555444555555


Q ss_pred             --HHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHc---CC----h
Q 006580          463 --VDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIY---GD----V  531 (640)
Q Consensus       463 --~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~---~~----~  531 (640)
                        .+++..+++++.+.  -+-+...|.....++.+.|+++++++.++++. ..| +...|+.....+...   |.    .
T Consensus       122 ~~~~~el~~~~kal~~--dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~  199 (320)
T PLN02789        122 DAANKELEFTRKILSL--DAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMR  199 (320)
T ss_pred             hhhHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccH
Confidence              36788888888763  34567788888889999999999999999987 344 778888887766554   22    3


Q ss_pred             HHHHHHHHHHHhcCCCChhHHHHHHHHHHhc----CChHHHHHHHHHHHhCC
Q 006580          532 KLTENVAERMMDLQLPSPLPYSLLTQAYAMR----GRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       532 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~----g~~~~a~~~~~~m~~~~  579 (640)
                      +..+....++++.+|.|..+|..+..++...    ++..+|.++.......+
T Consensus       200 e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~  251 (320)
T PLN02789        200 DSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD  251 (320)
T ss_pred             HHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc
Confidence            5788888999999999999999999999873    45567888887766544

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.31  E-value=0.00023  Score=76.67  Aligned_cols=228  Identities=11%  Similarity=0.115  Sum_probs=167.6

Q ss_pred             hhHHHHHhhCCC-CChHHHHHHHHHHHHh-CCCC---chHHHHHHHHHHHhcCChHHHHHHHHhCCCC-C-hhHHHHHHH
Q 006580          348 FTLSCVLSSIPI-PPVEHGSQFHSMAIKS-GFDS---NAVVASSLMEMYAKTGSIDSSTEIFVKLDKR-D-LVSWNTIMM  420 (640)
Q Consensus       348 ~t~~~~l~~~~~-~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~-~~~~~~li~  420 (640)
                      ..|...|..... ++++.|+.+.+++... ++.-   -..+|.++++.-..-|.-+...++|++..+- | ...|..|..
T Consensus      1459 i~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L~~ 1538 (1710)
T KOG1070|consen 1459 ILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKLLG 1538 (1710)
T ss_pred             hHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            345555555555 7777777777666643 1111   1335667777777778888889999988742 3 457888999


Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChH
Q 006580          421 GLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLG  500 (640)
Q Consensus       421 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  500 (640)
                      .|.+.++.++|-++|+.|.+. +.-....|...+..+.+..+-+.|..++.+..+...-.-........+.+-.+.|+.+
T Consensus      1539 iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDae 1617 (1710)
T KOG1070|consen 1539 IYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAE 1617 (1710)
T ss_pred             HHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCch
Confidence            999999999999999999986 4556678889999999999999999999988763111113455666778888999999


Q ss_pred             HHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCChh-HHHHHHHHHHhcCChHHHHHHHHHH
Q 006580          501 KAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQ--LPSPL-PYSLLTQAYAMRGRWEAIVRVKKVM  575 (640)
Q Consensus       501 ~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~-~~~~l~~~~~~~g~~~~a~~~~~~m  575 (640)
                      .+..+|+...  .+.-...|+.++..-.++|+.+.+..+|++++.+.  |.... .|...+..=-..|+-+.++.+-.++
T Consensus      1618 RGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~VKarA 1697 (1710)
T KOG1070|consen 1618 RGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYVKARA 1697 (1710)
T ss_pred             hhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHHHHHH
Confidence            9999999987  44477899999999999999999999999999984  44433 3444444444557766665554444


Q ss_pred             H
Q 006580          576 R  576 (640)
Q Consensus       576 ~  576 (640)
                      .
T Consensus      1698 ~ 1698 (1710)
T KOG1070|consen 1698 K 1698 (1710)
T ss_pred             H
Confidence            3

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.30  E-value=0.00011  Score=70.51  Aligned_cols=127  Identities=16%  Similarity=0.123  Sum_probs=109.1

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCC-HHHHHHHHHHHHH
Q 006580          450 LAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPG-CSIWESILRASAI  527 (640)
Q Consensus       450 ~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~  527 (640)
                      |..-+ .+...|++++|+..++.+..  ..+-|+..+....+.+.+.++.++|.+.++++. ..|+ ...+-.+..++.+
T Consensus       310 YG~A~-~~~~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~  386 (484)
T COG4783         310 YGRAL-QTYLAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLK  386 (484)
T ss_pred             HHHHH-HHHHhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHh
Confidence            44333 34567899999999999887  445566667777899999999999999999988 6775 6677889999999


Q ss_pred             cCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          528 YGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       528 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      .|++.+|+.+++.....+|.++..|..|+.+|..+|+..++.....+.....
T Consensus       387 ~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~~  438 (484)
T COG4783         387 GGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYALA  438 (484)
T ss_pred             cCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHHhC
Confidence            9999999999999999999999999999999999999999999888776543

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.25  E-value=0.00026  Score=75.49  Aligned_cols=149  Identities=9%  Similarity=0.058  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 006580          382 VVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACN  458 (640)
Q Consensus       382 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  458 (640)
                      ..+..+..+|-+.|+.++|..+++++.+   .|+...|.+...|... +.++|++++.+....               +.
T Consensus       117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~---------------~i  180 (906)
T PRK14720        117 LALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR---------------FI  180 (906)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH---------------HH
Confidence            3445566666666777777777666652   3555666666666666 666666666666553               34


Q ss_pred             ccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHH
Q 006580          459 YGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVA  538 (640)
Q Consensus       459 ~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  538 (640)
                      ..+++..+.++|.++..  ..+.+...+..+.+.....-.            ...-..++-.+...|...++++++..++
T Consensus       181 ~~kq~~~~~e~W~k~~~--~~~~d~d~f~~i~~ki~~~~~------------~~~~~~~~~~l~~~y~~~~~~~~~i~iL  246 (906)
T PRK14720        181 KKKQYVGIEEIWSKLVH--YNSDDFDFFLRIERKVLGHRE------------FTRLVGLLEDLYEPYKALEDWDEVIYIL  246 (906)
T ss_pred             hhhcchHHHHHHHHHHh--cCcccchHHHHHHHHHHhhhc------------cchhHHHHHHHHHHHhhhhhhhHHHHHH
Confidence            44566666666666664  222222232222222211100            1223345555666777788889999999


Q ss_pred             HHHHhcCCCChhHHHHHHHHHH
Q 006580          539 ERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       539 ~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      +.+++.+|.|..+...++.+|.
T Consensus       247 K~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        247 KKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHhcCCcchhhHHHHHHHHH
Confidence            9999999988888888887776

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.23  E-value=0.00058  Score=72.93  Aligned_cols=236  Identities=12%  Similarity=0.067  Sum_probs=156.1

Q ss_pred             CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHh
Q 006580          110 PDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDM  189 (640)
Q Consensus       110 ~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  189 (640)
                      .+...+..|+..+...+++++|.++.+...+.  .|+                                ....|-.+...
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~--------------------------------~i~~yy~~G~l   74 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKK--------------------------------SISALYISGIL   74 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCc--------------------------------ceehHHHHHHH
Confidence            45567788888888888999999888876664  333                                33333333334


Q ss_pred             hhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHH
Q 006580          190 YGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVF  269 (640)
Q Consensus       190 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~  269 (640)
                      +...++.+++..+             .++.......++.-...+...|.+.  .-+...+..+..+|.+.|+.+++..+|
T Consensus        75 ~~q~~~~~~~~lv-------------~~l~~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~y  139 (906)
T PRK14720         75 SLSRRPLNDSNLL-------------NLIDSFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVW  139 (906)
T ss_pred             HHhhcchhhhhhh-------------hhhhhcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHH
Confidence            5555554443333             2334444444554444444455442  234457778888888999999999999


Q ss_pred             HHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhh
Q 006580          270 ALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFT  349 (640)
Q Consensus       270 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t  349 (640)
                      +.+++.. +-|..+.|.+...|... ++++|.+++.+.           +..|...+++..+.+++.++...  .|+...
T Consensus       140 er~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KA-----------V~~~i~~kq~~~~~e~W~k~~~~--~~~d~d  204 (906)
T PRK14720        140 ERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKA-----------IYRFIKKKQYVGIEEIWSKLVHY--NSDDFD  204 (906)
T ss_pred             HHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHH-----------HHHHHhhhcchHHHHHHHHHHhc--Ccccch
Confidence            9999887 55788889999999888 999999888764           34477778889999999988874  344332


Q ss_pred             HHHHHhhCCCCChHHHHHHHHHHHHh-CCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHHHHHHH
Q 006580          350 LSCVLSSIPIPPVEHGSQFHSMAIKS-GFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLT  423 (640)
Q Consensus       350 ~~~~l~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~  423 (640)
                      +              -..+.+.+..+ +..--..++-.+-..|-..++++++..+|+.+.+   .|.....-++.+|.
T Consensus       205 ~--------------f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        205 F--------------FLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             H--------------HHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            2              22333333332 3334455566677888888889999999988873   35556666666665

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.20  E-value=5.2e-05  Score=63.05  Aligned_cols=114  Identities=11%  Similarity=0.101  Sum_probs=89.3

Q ss_pred             HHHHHHHCCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-C
Q 006580          434 VFEELLEEGLPPDR-ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-F  511 (640)
Q Consensus       434 ~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~  511 (640)
                      .+++...  ..|+. .....+...+...|++++|.+.++.+...  .+.+...+..+...+.+.|++++|...++... .
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            4555555  35544 44556667788889999999999888763  34467788888889999999999999988875 3


Q ss_pred             CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhH
Q 006580          512 QP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLP  551 (640)
Q Consensus       512 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  551 (640)
                      .| +...+..+...+...|+++.|...++++++.+|.+...
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~  121 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEY  121 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchH
Confidence            44 67788888889999999999999999999999977553

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.14  E-value=0.00011  Score=61.61  Aligned_cols=84  Identities=12%  Similarity=0.071  Sum_probs=45.1

Q ss_pred             HHHHHhcCChHHHHHHHHhCC-CCCCH----HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCC
Q 006580          490 IDLLCQAGQLGKAIDITSTMP-FQPGC----SIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGR  564 (640)
Q Consensus       490 ~~~~~~~g~~~~A~~~~~~~~-~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  564 (640)
                      ...+...|++++|...|+.+. ..|+.    .....|...+...|++++|+..++.. ...+..+..+...+++|.+.|+
T Consensus        55 A~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~  133 (145)
T PF09976_consen   55 AKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQI-PDEAFKALAAELLGDIYLAQGD  133 (145)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhc-cCcchHHHHHHHHHHHHHHCCC
Confidence            344455555555555555544 22322    12333455555666666666666442 2233444556666666667777


Q ss_pred             hHHHHHHHHH
Q 006580          565 WEAIVRVKKV  574 (640)
Q Consensus       565 ~~~a~~~~~~  574 (640)
                      +++|...|+.
T Consensus       134 ~~~A~~~y~~  143 (145)
T PF09976_consen  134 YDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHHH
Confidence            7776666654

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.14  E-value=4.8e-06  Score=50.12  Aligned_cols=35  Identities=34%  Similarity=0.672  Sum_probs=32.8

Q ss_pred             chHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCh
Q 006580          113 VSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSG  147 (640)
Q Consensus       113 ~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~  147 (640)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999973

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=98.12  E-value=5.3e-06  Score=49.50  Aligned_cols=34  Identities=38%  Similarity=0.712  Sum_probs=32.0

Q ss_pred             cchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC
Q 006580          112 VVSWNSMISGYASCGYSDYALEMFSKMQLQGVRP  145 (640)
Q Consensus       112 ~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p  145 (640)
                      +.+||.++.+|++.|+++.|.++|++|++.|++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            3689999999999999999999999999999988

>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=98.09  E-value=1.3e-05  Score=57.33  Aligned_cols=65  Identities=18%  Similarity=0.190  Sum_probs=60.5

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcC-ChHHHHHHHHHHHhC
Q 006580          514 GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRG-RWEAIVRVKKVMRKN  578 (640)
Q Consensus       514 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~~  578 (640)
                      ++.+|..+...+...|++++|+..|+++++.+|.++..|..++.+|.+.| ++++|++.+++..+.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            46788999999999999999999999999999999999999999999999 799999999988764

...

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.08  E-value=7e-06  Score=49.38  Aligned_cols=34  Identities=47%  Similarity=0.948  Sum_probs=29.7

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC
Q 006580          413 VSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD  446 (640)
Q Consensus       413 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  446 (640)
                      .+||++|.+|++.|++++|.++|++|.+.|++||
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            3688899999999999999999999998888887

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.

>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=98.07  E-value=0.00016  Score=70.36  Aligned_cols=125  Identities=18%  Similarity=0.164  Sum_probs=104.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC
Q 006580          382 VVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGG  461 (640)
Q Consensus       382 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  461 (640)
                      .....|+..+...++++.|..+|+++.+.++.....++..+...++..+|++++++.... .+-+...+..-...|.+.+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcC
Confidence            344567777788899999999999999777777777888898899999999999999975 2345556666667788999


Q ss_pred             CHHHHHHHHHHhHHhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006580          462 FVDKGMLVFSAMKEEYGVMPG-EEHYACIIDLLCQAGQLGKAIDITSTMP  510 (640)
Q Consensus       462 ~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  510 (640)
                      +++.|..+.+++..   ..|+ ..+|..|..+|...|+++.|+..++.++
T Consensus       249 ~~~lAL~iAk~av~---lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  249 KYELALEIAKKAVE---LSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CHHHHHHHHHHHHH---hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999885   3555 5599999999999999999999999998

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>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=98.06  E-value=5.2e-05  Score=58.42  Aligned_cols=94  Identities=15%  Similarity=0.192  Sum_probs=77.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcC
Q 006580          486 YACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRG  563 (640)
Q Consensus       486 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  563 (640)
                      +..+...+...|++++|...+++.. ..| +...+..+...+...++++.|...++++.+..|.+...+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            4556677778888888888888765 344 45677788888888899999999999999999988888999999999999


Q ss_pred             ChHHHHHHHHHHHhCC
Q 006580          564 RWEAIVRVKKVMRKNG  579 (640)
Q Consensus       564 ~~~~a~~~~~~m~~~~  579 (640)
                      ++++|...++...+..
T Consensus        83 ~~~~a~~~~~~~~~~~   98 (100)
T cd00189          83 KYEEALEAYEKALELD   98 (100)
T ss_pred             hHHHHHHHHHHHHccC
Confidence            9999999998876543

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.03  E-value=0.00046  Score=57.97  Aligned_cols=126  Identities=16%  Similarity=0.139  Sum_probs=85.1

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC--hhHHHH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD---RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG--EEHYAC  488 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~--~~~~~~  488 (640)
                      .|..++..+ ..++...+...++.+.+.. +.+   ......+...+...|++++|...|+.+... ...|+  ......
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~   90 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHH
Confidence            344555555 4778888888888888752 222   123334456677888888888888888775 32222  123445


Q ss_pred             HHHHHHhcCChHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 006580          489 IIDLLCQAGQLGKAIDITSTMP-FQPGCSIWESILRASAIYGDVKLTENVAERMM  542 (640)
Q Consensus       489 l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  542 (640)
                      |...+...|++++|+..++... ....+..+......+...|++++|...|++++
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            6777888888888888887765 22245567777888888888888888888753

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.02  E-value=1.1e-05  Score=48.11  Aligned_cols=33  Identities=24%  Similarity=0.617  Sum_probs=26.1

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC
Q 006580          413 VSWNTIMMGLTQNGRAAETLDVFEELLEEGLPP  445 (640)
Q Consensus       413 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  445 (640)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            467788888888888888888888888877776

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.01  E-value=0.0015  Score=57.88  Aligned_cols=150  Identities=11%  Similarity=0.054  Sum_probs=113.5

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHH----
Q 006580          419 MMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLC----  494 (640)
Q Consensus       419 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~----  494 (640)
                      ...|+..|++++|++..+...    ..+....+  +..+.+..+.+-|.+.++.|.+-    .+..+.+.|..++.    
T Consensus       115 a~i~~~~~~~deAl~~~~~~~----~lE~~Al~--VqI~lk~~r~d~A~~~lk~mq~i----ded~tLtQLA~awv~la~  184 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLGE----NLEAAALN--VQILLKMHRFDLAEKELKKMQQI----DEDATLTQLAQAWVKLAT  184 (299)
T ss_pred             hHHhhcCCChHHHHHHHhccc----hHHHHHHH--HHHHHHHHHHHHHHHHHHHHHcc----chHHHHHHHHHHHHHHhc
Confidence            456888999999999887722    22333222  33455677889999999988752    34556666666554    


Q ss_pred             hcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHH-HH
Q 006580          495 QAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIV-RV  571 (640)
Q Consensus       495 ~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~-~~  571 (640)
                      -.+...+|.-+|+++.  ..|++.+.+.....+...|++++|+.+++.++..++.++.+..+++-+-...|+-.++. +.
T Consensus       185 ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~  264 (299)
T KOG3081|consen  185 GGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERN  264 (299)
T ss_pred             cchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHH
Confidence            3457889999999997  77899999999999999999999999999999999999999999888878888776554 45


Q ss_pred             HHHHHhC
Q 006580          572 KKVMRKN  578 (640)
Q Consensus       572 ~~~m~~~  578 (640)
                      +..++..
T Consensus       265 l~QLk~~  271 (299)
T KOG3081|consen  265 LSQLKLS  271 (299)
T ss_pred             HHHHHhc
Confidence            5555543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.00  E-value=0.0001  Score=59.63  Aligned_cols=94  Identities=16%  Similarity=-0.002  Sum_probs=55.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC-CCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC---hhHHHHHHH
Q 006580          486 YACIIDLLCQAGQLGKAIDITSTMP-FQPG----CSIWESILRASAIYGDVKLTENVAERMMDLQLPS---PLPYSLLTQ  557 (640)
Q Consensus       486 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~  557 (640)
                      +..++..+.+.|++++|.+.++.+. ..|+    ...+..+...+...|+++.|...+++++...|.+   +..+..++.
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            3444555555566666666655554 2222    2344556666666666777777777666665543   345666666


Q ss_pred             HHHhcCChHHHHHHHHHHHhCC
Q 006580          558 AYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       558 ~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ++.+.|++++|.+.++++.+..
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHHC
Confidence            6666777777777776666654

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.

>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=7.6e-06  Score=61.23  Aligned_cols=77  Identities=14%  Similarity=0.238  Sum_probs=50.6

Q ss_pred             CChHHHHHHHHhCC-CCC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHH
Q 006580          497 GQLGKAIDITSTMP-FQP---GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVK  572 (640)
Q Consensus       497 g~~~~A~~~~~~~~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  572 (640)
                      |++++|+.+++++. ..|   +...+..+...+.+.|++++|..++++ .+.+|.++.....++.++.+.|++++|++++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l   81 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKAL   81 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            55556666665554 222   344555567777777777777777777 5566666666667788888888888888877


Q ss_pred             HH
Q 006580          573 KV  574 (640)
Q Consensus       573 ~~  574 (640)
                      ++
T Consensus        82 ~~   83 (84)
T PF12895_consen   82 EK   83 (84)
T ss_dssp             HH
T ss_pred             hc
Confidence            65

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.98  E-value=0.00019  Score=70.19  Aligned_cols=89  Identities=10%  Similarity=0.097  Sum_probs=53.9

Q ss_pred             HHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHH
Q 006580          491 DLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAI  568 (640)
Q Consensus       491 ~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  568 (640)
                      ..+...|++++|++.|+++. ..| +...|..+..++...|++++|+..++++++++|.++..|..++.+|...|++++|
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA   89 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQTA   89 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHHH
Confidence            33445556666666665554 333 4555566666666666666666666666666666666666666666666666666


Q ss_pred             HHHHHHHHhCC
Q 006580          569 VRVKKVMRKNG  579 (640)
Q Consensus       569 ~~~~~~m~~~~  579 (640)
                      +..+++..+.+
T Consensus        90 ~~~~~~al~l~  100 (356)
T PLN03088         90 KAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHhC
Confidence            66666665543

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.97  E-value=2.8e-05  Score=54.78  Aligned_cols=59  Identities=17%  Similarity=0.183  Sum_probs=52.0

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          521 ILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       521 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +...+...|++++|...++++++.+|.++..+..++.++...|++++|..+++++.+..
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            45677889999999999999999999999999999999999999999999999987754

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.96  E-value=0.00017  Score=65.44  Aligned_cols=107  Identities=10%  Similarity=-0.034  Sum_probs=92.7

Q ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHc---CChHHHHHHHHHHHhcCCCChhHHH
Q 006580          479 VMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIY---GDVKLTENVAERMMDLQLPSPLPYS  553 (640)
Q Consensus       479 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~p~~~~~~~  553 (640)
                      -+-|...|..|...|.+.|+...|..-|.+..  ..+++..+..+..++..+   .+..++..++++++..+|.|.....
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~  231 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALS  231 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHH
Confidence            35678899999999999999999999999887  444788888888776543   3678999999999999999999999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCccCCc
Q 006580          554 LLTQAYAMRGRWEAIVRVKKVMRKNGINKVTG  585 (640)
Q Consensus       554 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  585 (640)
                      .|+..++..|++.+|...|+.|.+.....+|.
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~r  263 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLLPADDPR  263 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCCCCCch
Confidence            99999999999999999999999987655544

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.94  E-value=0.00011  Score=66.18  Aligned_cols=108  Identities=10%  Similarity=-0.011  Sum_probs=81.8

Q ss_pred             HhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCC-HHHHHHHHHHHHHcCChHHH
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPG-CSIWESILRASAIYGDVKLT  534 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a  534 (640)
                      +.+.+++.+|+..|.+..+  -.+-|...|..-..+|.+.|.++.|++-.+... +.|. ..+|..|..+|...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHH
Confidence            4567788888888887774  233455566667778888888888888887776 6664 55888888999999999999


Q ss_pred             HHHHHHHHhcCCCChhHHHHHHHHHHhcCChH
Q 006580          535 ENVAERMMDLQLPSPLPYSLLTQAYAMRGRWE  566 (640)
Q Consensus       535 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  566 (640)
                      ++.|+++++++|+|......|-++-.+.+...
T Consensus       169 ~~aykKaLeldP~Ne~~K~nL~~Ae~~l~e~~  200 (304)
T KOG0553|consen  169 IEAYKKALELDPDNESYKSNLKIAEQKLNEPK  200 (304)
T ss_pred             HHHHHhhhccCCCcHHHHHHHHHHHHHhcCCC
Confidence            99999999999988877777766655555544

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.89  E-value=0.00034  Score=56.54  Aligned_cols=105  Identities=10%  Similarity=0.018  Sum_probs=64.5

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCC----HHHHHHHHH
Q 006580          450 LAAVLLACNYGGFVDKGMLVFSAMKEEYGVMP-GEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPG----CSIWESILR  523 (640)
Q Consensus       450 ~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~  523 (640)
                      +..+...+...|++++|.+.++.+.+...-.+ ....+..+..++.+.|++++|.+.++.+. ..|+    ..++..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            33444555556666666666666654311111 12344456666666666666666666654 2232    456677777


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCChhHHHH
Q 006580          524 ASAIYGDVKLTENVAERMMDLQLPSPLPYSL  554 (640)
Q Consensus       524 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  554 (640)
                      .+...|+.+.|...++++++..|+++.....
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~  115 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKRYPGSSAAKLA  115 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHHCcCChhHHHH
Confidence            7788888888888888888888877655443

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.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.87  E-value=6.4e-05  Score=67.65  Aligned_cols=89  Identities=16%  Similarity=0.186  Sum_probs=81.0

Q ss_pred             HHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHH
Q 006580          491 DLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAI  568 (640)
Q Consensus       491 ~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  568 (640)
                      +-+.+.+++.+|+..|.++. +.| |+..|..=..+|.+.|.++.|.+-.+.++.++|....+|..|+.+|...|++++|
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHH
Confidence            44678899999999999987 666 8888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCC
Q 006580          569 VRVKKVMRKNG  579 (640)
Q Consensus       569 ~~~~~~m~~~~  579 (640)
                      ++.|++..+..
T Consensus       169 ~~aykKaLeld  179 (304)
T KOG0553|consen  169 IEAYKKALELD  179 (304)
T ss_pred             HHHHHhhhccC
Confidence            99998776643

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.79  E-value=0.00038  Score=60.46  Aligned_cols=94  Identities=13%  Similarity=0.075  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC-CCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHH
Q 006580          485 HYACIIDLLCQAGQLGKAIDITSTMP-FQPG----CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAY  559 (640)
Q Consensus       485 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  559 (640)
                      .+..+...+...|++++|...+++.. ..|+    ...+..+...+...|++++|...++++++..|.+...+..++.+|
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~  116 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIY  116 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            45555666666677777777766654 2222    356778888888889999999999999998888888888888888


Q ss_pred             HhcCC--------------hHHHHHHHHHHHhC
Q 006580          560 AMRGR--------------WEAIVRVKKVMRKN  578 (640)
Q Consensus       560 ~~~g~--------------~~~a~~~~~~m~~~  578 (640)
                      ...|+              +++|.+++++..+.
T Consensus       117 ~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~  149 (172)
T PRK02603        117 HKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRL  149 (172)
T ss_pred             HHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhh
Confidence            88776              45555555555543

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.77  E-value=0.043  Score=52.84  Aligned_cols=59  Identities=12%  Similarity=0.026  Sum_probs=36.3

Q ss_pred             HHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHH
Q 006580          422 LTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYAC  488 (640)
Q Consensus       422 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~  488 (640)
                      +..+|++.++.-.-..+.+  +.|+..+|..+.-++....++++|..++.      .++|+..+++.
T Consensus       472 Lysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~------~LP~n~~~~ds  530 (549)
T PF07079_consen  472 LYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQ------KLPPNERMRDS  530 (549)
T ss_pred             HHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHH------hCCCchhhHHH
Confidence            4456677666655555554  66766777666666666667777777665      44555555543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.74  E-value=4.7e-05  Score=44.13  Aligned_cols=31  Identities=45%  Similarity=0.803  Sum_probs=26.9

Q ss_pred             chHHHHHHHHHhCCChHHHHHHHHHHHHCCC
Q 006580          113 VSWNSMISGYASCGYSDYALEMFSKMQLQGV  143 (640)
Q Consensus       113 ~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~  143 (640)
                      ++||.++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4789999999999999999999999988774

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.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.72  E-value=0.00076  Score=56.07  Aligned_cols=150  Identities=12%  Similarity=0.017  Sum_probs=93.7

Q ss_pred             hCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHH
Q 006580          424 QNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAI  503 (640)
Q Consensus       424 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  503 (640)
                      +.=+++....-..+-.+  ..|+...-..|..++...|++.+|...|++...- -+..|....-.+.++....+++..|.
T Consensus        68 q~ldP~R~~Rea~~~~~--~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~d~a~lLglA~Aqfa~~~~A~a~  144 (251)
T COG4700          68 QKLDPERHLREATEELA--IAPTVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAHDAAMLLGLAQAQFAIQEFAAAQ  144 (251)
T ss_pred             HhcChhHHHHHHHHHHh--hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCCCHHHHHHHHHHHHhhccHHHHH
Confidence            33345544433333333  4566666666777777778888888877777663 34456667777777777777777777


Q ss_pred             HHHHhCC-CCC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          504 DITSTMP-FQP---GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       504 ~~~~~~~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      ..++++. ..|   ++.....+...+...|.+..|+..++.++...|. +..-...+..+.++|+.+++..-+..+.+
T Consensus       145 ~tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~ypg-~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         145 QTLEDLMEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAISYYPG-PQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             HHHHHHhhcCCccCCCCchHHHHHHHHhcCCchhHHHHHHHHHHhCCC-HHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            7777654 223   2334455667777777777777777777777663 22233344566777777777665554444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.72  E-value=0.00046  Score=59.77  Aligned_cols=93  Identities=10%  Similarity=-0.086  Sum_probs=74.4

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHH
Q 006580          483 EEHYACIIDLLCQAGQLGKAIDITSTMP-FQPG----CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQ  557 (640)
Q Consensus       483 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  557 (640)
                      ...|..++..+...|++++|+..+++.. ..|+    ..+|..+...+...|++++|...++++++..|.....+..++.
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            4456667777788888888888888875 3332    3478889999999999999999999999999988888888888


Q ss_pred             HHH-------hcCChHHHHHHHHHH
Q 006580          558 AYA-------MRGRWEAIVRVKKVM  575 (640)
Q Consensus       558 ~~~-------~~g~~~~a~~~~~~m  575 (640)
                      ++.       +.|++++|...+++.
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHH
Confidence            888       888888666655544

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.71  E-value=0.00082  Score=65.80  Aligned_cols=104  Identities=10%  Similarity=0.002  Sum_probs=71.0

Q ss_pred             HHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHH
Q 006580          456 ACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKL  533 (640)
Q Consensus       456 ~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~  533 (640)
                      .+...|++++|+..|+++.+.  -+.+...|..+..+|.+.|++++|+..++++. ..| +...|..+..+|...|++++
T Consensus        11 ~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~e   88 (356)
T PLN03088         11 EAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQT   88 (356)
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHH
Confidence            344566777777777766652  23345556666667777777777777777765 444 56677777788888888888


Q ss_pred             HHHHHHHHHhcCCCChhHHHHHHHHHHh
Q 006580          534 TENVAERMMDLQLPSPLPYSLLTQAYAM  561 (640)
Q Consensus       534 a~~~~~~~~~~~p~~~~~~~~l~~~~~~  561 (640)
                      |...++++++++|.++.....+..+..+
T Consensus        89 A~~~~~~al~l~P~~~~~~~~l~~~~~k  116 (356)
T PLN03088         89 AKAALEKGASLAPGDSRFTKLIKECDEK  116 (356)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            8888888888888887776666555433

>PRK15331 chaperone protein SicA; Provisional

Probab=97.70  E-value=0.00085  Score=55.45  Aligned_cols=88  Identities=7%  Similarity=-0.010  Sum_probs=78.5

Q ss_pred             HHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHH
Q 006580          490 IDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEA  567 (640)
Q Consensus       490 ~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  567 (640)
                      ..-+...|++++|..+|.-+. ..| +...|..|...+...+++++|...|..+..++++||..+...+.+|...|+.+.
T Consensus        44 Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~  123 (165)
T PRK15331         44 AYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHH
Confidence            344567899999999998876 444 777899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 006580          568 IVRVKKVMRK  577 (640)
Q Consensus       568 a~~~~~~m~~  577 (640)
                      |+..|+...+
T Consensus       124 A~~~f~~a~~  133 (165)
T PRK15331        124 ARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHh
Confidence            9999998776

>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=97.70  E-value=7.1e-05  Score=53.31  Aligned_cols=54  Identities=19%  Similarity=0.272  Sum_probs=46.4

Q ss_pred             HHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          526 AIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       526 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ...|++++|++.++++++.+|.+...+..++.+|.+.|++++|..+++++....
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~   55 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQD   55 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            467889999999999999999999999999999999999999999998777654

...

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.67  E-value=0.0017  Score=56.35  Aligned_cols=131  Identities=15%  Similarity=0.120  Sum_probs=80.9

Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHH
Q 006580          411 DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD--RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYAC  488 (640)
Q Consensus       411 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~  488 (640)
                      ....+..+...+...|++++|...|++..+.+..+.  ...+..+...+.+.|++++|...+++..+.  .+-+...+..
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~  111 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNN  111 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHH
Confidence            344566666777777888888888877776432222  245666666777777777777777776653  1223445555


Q ss_pred             HHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCC
Q 006580          489 IIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGR  564 (640)
Q Consensus       489 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  564 (640)
                      +..++...|+...+..-++...                  ..+++|.+++++++..+|++   |..++..+...|+
T Consensus       112 lg~~~~~~g~~~~a~~~~~~A~------------------~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        112 IAVIYHKRGEKAEEAGDQDEAE------------------ALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHHcCChHhHhhCHHHHH------------------HHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            5666666666555443332211                  12677888888988888877   5555555554443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.67  E-value=0.00018  Score=52.05  Aligned_cols=59  Identities=15%  Similarity=0.087  Sum_probs=53.6

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          522 LRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       522 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      ...|.+.++++.|.++++++++.+|.++..+...+.++.+.|++++|.+.++...+.+.
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            35678899999999999999999999999999999999999999999999999987654

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.65  E-value=0.0019  Score=60.92  Aligned_cols=134  Identities=14%  Similarity=0.193  Sum_probs=101.4

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHH
Q 006580          413 VSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLA-CNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIID  491 (640)
Q Consensus       413 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~-~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  491 (640)
                      .+|-.++....+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|..+|+...+.  +..+...|...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK--FPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHH
Confidence            467788888888888999999999998642 3334445444443 33457778899999999885  4567788889999


Q ss_pred             HHHhcCChHHHHHHHHhCC-CCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCh
Q 006580          492 LLCQAGQLGKAIDITSTMP-FQPG----CSIWESILRASAIYGDVKLTENVAERMMDLQLPSP  549 (640)
Q Consensus       492 ~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  549 (640)
                      .+.+.|+.+.|..+|++.. .-|.    ...|...+..-.+.|+++.+..+.+++.+..|.+.
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~  141 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDN  141 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhh
Confidence            9999999999999999987 3333    35899999999999999999999999999988743

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.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.65  E-value=6.9e-05  Score=43.40  Aligned_cols=31  Identities=35%  Similarity=0.763  Sum_probs=23.4

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHCCC
Q 006580          413 VSWNTIMMGLTQNGRAAETLDVFEELLEEGL  443 (640)
Q Consensus       413 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  443 (640)
                      ++|+.++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3677788888888888888888888777663

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.

>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=97.65  E-value=0.00061  Score=52.20  Aligned_cols=89  Identities=12%  Similarity=0.107  Sum_probs=42.3

Q ss_pred             HHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHH
Q 006580          456 ACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKL  533 (640)
Q Consensus       456 ~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~  533 (640)
                      .+...|++++|...++...+.  .+.+...+..+...+...|++++|.+.++... ..| +..++..+...+...|+++.
T Consensus         9 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (100)
T cd00189           9 LYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEE   86 (100)
T ss_pred             HHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhHHH
Confidence            333444444444444444331  11122334444444444555555555554433 122 33455555555666666666


Q ss_pred             HHHHHHHHHhcCC
Q 006580          534 TENVAERMMDLQL  546 (640)
Q Consensus       534 a~~~~~~~~~~~p  546 (640)
                      |...+.++++..|
T Consensus        87 a~~~~~~~~~~~~   99 (100)
T cd00189          87 ALEAYEKALELDP   99 (100)
T ss_pred             HHHHHHHHHccCC
Confidence            6666666655544

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.64  E-value=0.00014  Score=51.16  Aligned_cols=61  Identities=21%  Similarity=0.235  Sum_probs=50.3

Q ss_pred             HHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCh
Q 006580          489 IIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSP  549 (640)
Q Consensus       489 l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  549 (640)
                      +...+.+.|++++|.+.|+++. ..| +...|..+...+...|++++|...++++++.+|+++
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            4567788899999999998876 456 677889999999999999999999999999999875

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.63  E-value=0.0027  Score=65.04  Aligned_cols=64  Identities=19%  Similarity=0.257  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          515 CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       515 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +..+..+.......|++++|...++++++++| +...|..++.++...|+.++|...+++....+
T Consensus       420 ~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        420 PRIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            34454444444445666666666666666665 34556666666666666666666665555443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.52  E-value=0.00038  Score=51.96  Aligned_cols=80  Identities=16%  Similarity=0.212  Sum_probs=38.1

Q ss_pred             CCChHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC-hhHHHHHHHHHHhcCChHHH
Q 006580          425 NGRAAETLDVFEELLEEGL-PPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG-EEHYACIIDLLCQAGQLGKA  502 (640)
Q Consensus       425 ~g~~~~a~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A  502 (640)
                      .|+++.|+.+++++.+... .|+...+..+..++.+.|++++|+.+++. .   ...|+ ......+..++.+.|++++|
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            3556666666666665321 11223333355556666666666666655 1   11221 22333335555566666666


Q ss_pred             HHHHHh
Q 006580          503 IDITST  508 (640)
Q Consensus       503 ~~~~~~  508 (640)
                      ++.+++
T Consensus        78 i~~l~~   83 (84)
T PF12895_consen   78 IKALEK   83 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            655543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.50  E-value=0.022  Score=47.75  Aligned_cols=131  Identities=12%  Similarity=0.045  Sum_probs=68.2

Q ss_pred             CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHH
Q 006580          410 RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACI  489 (640)
Q Consensus       410 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l  489 (640)
                      |++..--.|..++...|++.+|...|++...--+.-|......+.++....++...|...++.+.+...-.-++...-.+
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~  166 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLF  166 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHH
Confidence            44444445556666666666666666666553334444555555566666666666666666655431111123334445


Q ss_pred             HHHHHhcCChHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 006580          490 IDLLCQAGQLGKAIDITSTMP-FQPGCSIWESILRASAIYGDVKLTENVAER  540 (640)
Q Consensus       490 ~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  540 (640)
                      ...|...|++++|..-|+... .-|++..-......+.++|+.+++..-+..
T Consensus       167 aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         167 ARTLAAQGKYADAESAFEVAISYYPGPQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            556666666666666665554 444444433333444455554444443333

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.50  E-value=0.092  Score=53.32  Aligned_cols=31  Identities=16%  Similarity=-0.066  Sum_probs=18.0

Q ss_pred             CCchhhHHHHHHHHHccCCchHHHHHHhcCC
Q 006580           47 NAHTYLGNRCLDLYSRFGTSDDVLQLFDEIP   77 (640)
Q Consensus        47 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   77 (640)
                      .|++..|..+.......-.++.|...|=+..
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~  719 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCG  719 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhc
Confidence            4666666666665555556666665555443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.46  E-value=0.011  Score=56.01  Aligned_cols=155  Identities=12%  Similarity=0.064  Sum_probs=114.9

Q ss_pred             HHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH--HhccCCHHHHHHHHHHhHHhhCCCCChhH------------
Q 006580          420 MGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLA--CNYGGFVDKGMLVFSAMKEEYGVMPGEEH------------  485 (640)
Q Consensus       420 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~--~~~~~~~~~A~~~~~~~~~~~~~~p~~~~------------  485 (640)
                      .++.-.|++++|...--..++.  .++. .+..++++  +-..++.+.|...|++..   .+.|+...            
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkl--d~~n-~~al~vrg~~~yy~~~~~ka~~hf~qal---~ldpdh~~sk~~~~~~k~le  250 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKL--DATN-AEALYVRGLCLYYNDNADKAINHFQQAL---RLDPDHQKSKSASMMPKKLE  250 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhc--ccch-hHHHHhcccccccccchHHHHHHHhhhh---ccChhhhhHHhHhhhHHHHH
Confidence            4566788999998887777663  2222 22333333  345678888888888765   33454322            


Q ss_pred             -HHHHHHHHHhcCChHHHHHHHHhCC-CCC-----CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHH
Q 006580          486 -YACIIDLLCQAGQLGKAIDITSTMP-FQP-----GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQA  558 (640)
Q Consensus       486 -~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  558 (640)
                       +..=.+-..+.|++.+|.+.+.+.. +.|     +...|.....+..+.|+..+|+.--+.+++++|.-...|..-+.+
T Consensus       251 ~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c  330 (486)
T KOG0550|consen  251 VKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANC  330 (486)
T ss_pred             HHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHH
Confidence             1122344678899999999999987 444     456677777788889999999999999999999989999999999


Q ss_pred             HHhcCChHHHHHHHHHHHhCCC
Q 006580          559 YAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       559 ~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      +...++|++|.+-++...+..-
T Consensus       331 ~l~le~~e~AV~d~~~a~q~~~  352 (486)
T KOG0550|consen  331 HLALEKWEEAVEDYEKAMQLEK  352 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcc
Confidence            9999999999999998876543

>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=97.45  E-value=0.00026  Score=50.34  Aligned_cols=61  Identities=18%  Similarity=0.218  Sum_probs=32.4

Q ss_pred             hcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHH
Q 006580          495 QAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLL  555 (640)
Q Consensus       495 ~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  555 (640)
                      ..|++++|+++|+++. ..| +...+..++..|.+.|++++|.++++++...+|+++..+..+
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~l~   65 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQQLL   65 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            3455555555555544 223 455555556666666666666666666666666554444433

...

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.44  E-value=0.00012  Score=43.07  Aligned_cols=34  Identities=18%  Similarity=0.372  Sum_probs=31.2

Q ss_pred             HHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHH
Q 006580          537 VAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVR  570 (640)
Q Consensus       537 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  570 (640)
                      +++++++++|+|+..|..|+.+|...|++++|++
T Consensus         1 ~y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    1 CYKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             ChHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            3688999999999999999999999999999863

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.41  E-value=0.13  Score=49.15  Aligned_cols=102  Identities=12%  Similarity=0.115  Sum_probs=49.7

Q ss_pred             HHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHH
Q 006580          388 MEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGM  467 (640)
Q Consensus       388 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~  467 (640)
                      +.-+...|+...|.++-.+..-|+-.-|-..+.+++..++|++-.++...      +-++.-|..++.+|.+.|+..+|.
T Consensus       184 i~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~eA~  257 (319)
T PF04840_consen  184 IRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKEAS  257 (319)
T ss_pred             HHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHHHH
Confidence            44444455555555555555555555555555555555555544433211      112244455555555555555555


Q ss_pred             HHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHH
Q 006580          468 LVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDIT  506 (640)
Q Consensus       468 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  506 (640)
                      .+...+.           +..-+..|.++|++.+|.+.-
T Consensus       258 ~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A  285 (319)
T PF04840_consen  258 KYIPKIP-----------DEERVEMYLKCGDYKEAAQEA  285 (319)
T ss_pred             HHHHhCC-----------hHHHHHHHHHCCCHHHHHHHH
Confidence            5544321           123344455555555554443

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

>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=97.39  E-value=0.00049  Score=49.09  Aligned_cols=65  Identities=17%  Similarity=0.201  Sum_probs=54.7

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcC-ChHHHHHHHHHHHhcCC
Q 006580          482 GEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYG-DVKLTENVAERMMDLQL  546 (640)
Q Consensus       482 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~p  546 (640)
                      +...|..+...+...|++++|+..|++.. ..| ++..|..+..++...| ++++|++.++++++++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            35677788888888899999999888876 455 6778889999999999 79999999999999887

...

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.39  E-value=0.044  Score=51.95  Aligned_cols=97  Identities=9%  Similarity=0.059  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCC-----CCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhh-CCCCC--hh
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLP-----PDRI-TLAAVLLACNYGGFVDKGMLVFSAMKEEY-GVMPG--EE  484 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-----p~~~-~~~~ll~~~~~~~~~~~A~~~~~~~~~~~-~~~p~--~~  484 (640)
                      ++..+...+.+.|++++|.++|++....-..     .+.. .|...+-++...|++..|.+.+++..... ++..+  ..
T Consensus       157 ~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~  236 (282)
T PF14938_consen  157 CLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYK  236 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHH
Confidence            3455667788888888888888887764322     1221 22233334556688888888888776431 22222  33


Q ss_pred             HHHHHHHHHHh--cCChHHHHHHHHhCC
Q 006580          485 HYACIIDLLCQ--AGQLGKAIDITSTMP  510 (640)
Q Consensus       485 ~~~~l~~~~~~--~g~~~~A~~~~~~~~  510 (640)
                      ....|+.++-.  ...+++|+.-|+.+.
T Consensus       237 ~~~~l~~A~~~~D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  237 FLEDLLEAYEEGDVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             HHHHHHHHHHTT-CCCHHHHCHHHTTSS
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcccC
Confidence            45556666643  235666666666665

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.38  E-value=0.0093  Score=61.19  Aligned_cols=141  Identities=12%  Similarity=0.040  Sum_probs=103.7

Q ss_pred             CCChhHHHHHHHHHHhC--C---ChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcc--------CCHHHHHHHHHHhH
Q 006580          409 KRDLVSWNTIMMGLTQN--G---RAAETLDVFEELLEEGLPPDRI-TLAAVLLACNYG--------GFVDKGMLVFSAMK  474 (640)
Q Consensus       409 ~~~~~~~~~li~~~~~~--g---~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~--------~~~~~A~~~~~~~~  474 (640)
                      ..+...|...+.+....  +   ....|..+|++..+  ..|+.. .+..+..++...        .++..+.+..+...
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            46888999998875442  2   37789999999999  477764 555554444321        12234444444333


Q ss_pred             HhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhH
Q 006580          475 EEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLP  551 (640)
Q Consensus       475 ~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  551 (640)
                      .......+...|..+.-.....|++++|...++++. ..|+...|..+...+...|+.++|.+.+++++.++|.++..
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt~  489 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENTL  489 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCchH
Confidence            221234455678877777777899999999999988 78898899999999999999999999999999999988753

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.38  E-value=0.0023  Score=62.71  Aligned_cols=119  Identities=12%  Similarity=0.095  Sum_probs=95.7

Q ss_pred             CCCchhHHHHHHHhhhcCCChHHHHHHHhccCC-C-----CeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchH
Q 006580          176 SLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEE-L-----DIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTI  249 (640)
Q Consensus       176 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~-----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~  249 (640)
                      .+-+......+++......+++.+..++-.... |     -..+..++++.|.+.|..+.++.+++.=..-|+-||..|+
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            455666667777777777778888887776652 2     2345679999999999999999999999999999999999


Q ss_pred             HHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhc
Q 006580          250 SIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKC  294 (640)
Q Consensus       250 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  294 (640)
                      +.+|..+.+.|++..|.++...|..++...+..++..-+.++.+.
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            999999999999999999999998888777777776666665554

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 [].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.38  E-value=0.0025  Score=60.10  Aligned_cols=129  Identities=12%  Similarity=0.066  Sum_probs=102.2

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHh-cCChHHHHHHHHhCC--CCCCHHHHHHHHHH
Q 006580          448 ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQ-AGQLGKAIDITSTMP--FQPGCSIWESILRA  524 (640)
Q Consensus       448 ~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  524 (640)
                      .+|..+++..-+.+..+.|..+|.+.++.  -..+...|......-.+ .++.+.|.++|+...  +..+...|...+..
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            46778888888888899999999999753  23345566666666444 566777999999987  66788999999999


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCCh---hHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          525 SAIYGDVKLTENVAERMMDLQLPSP---LPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       525 ~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      +...++.+.|..+|++++..-|.+.   ..|...+..=.+.|+.+.+.++.+++.+.
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            9999999999999999999866443   68999999889999999999999998764

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.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.37  E-value=0.0049  Score=53.31  Aligned_cols=63  Identities=19%  Similarity=0.174  Sum_probs=32.5

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 006580          413 VSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD--RITLAAVLLACNYGGFVDKGMLVFSAMKE  475 (640)
Q Consensus       413 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~~~~~~A~~~~~~~~~  475 (640)
                      ..|..+...+...|++++|+..|++.......|.  ..++..+...+...|++++|+..++....
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445555555556666666666666554321111  12444555555555666666665555543

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.36  E-value=0.0036  Score=47.69  Aligned_cols=79  Identities=14%  Similarity=0.178  Sum_probs=64.6

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHhccC--------CHHHHHHHHHHhHHhhCCCCChhHH
Q 006580          416 NTIMMGLTQNGRAAETLDVFEELLEEGL-PPDRITLAAVLLACNYGG--------FVDKGMLVFSAMKEEYGVMPGEEHY  486 (640)
Q Consensus       416 ~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~~--------~~~~A~~~~~~~~~~~~~~p~~~~~  486 (640)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ++-+.+.+|+.|... +++|+..+|
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~-~lKP~~etY  107 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN-KLKPNDETY  107 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh-ccCCcHHHH
Confidence            4456666777999999999999999999 899999999998876542        344677889999887 899999999


Q ss_pred             HHHHHHHHh
Q 006580          487 ACIIDLLCQ  495 (640)
Q Consensus       487 ~~l~~~~~~  495 (640)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            999887764

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=97.35  E-value=0.003  Score=61.97  Aligned_cols=78  Identities=14%  Similarity=0.138  Sum_probs=42.0

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHH
Q 006580          415 WNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLL  493 (640)
Q Consensus       415 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~  493 (640)
                      ..+++..|...|..+.++.+++.=..-|+-||..+++.|++.+.+.|++..|.++...|... +...+..++..-+.+|
T Consensus       106 ~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQ-e~~~~~~t~~L~l~~~  183 (429)
T PF10037_consen  106 HHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQ-EEFDNPSTQALALYSC  183 (429)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHh-hccCCchHHHHHHHHH
Confidence            34555555555555555555555555555566666666666666666665555555555544 3334444443333333

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=97.30  E-value=0.0095  Score=47.32  Aligned_cols=93  Identities=15%  Similarity=0.160  Sum_probs=66.4

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCC-ChhHHHHHHHHHH
Q 006580          418 IMMGLTQNGRAAETLDVFEELLEEGLPPDR--ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMP-GEEHYACIIDLLC  494 (640)
Q Consensus       418 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~  494 (640)
                      +..++-..|+.++|+.+|++....|.....  ..+..+...+...|++++|..+++.....+.-.+ +......+..++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            445677789999999999999998876653  3666777888899999999999998876521111 2223333445677


Q ss_pred             hcCChHHHHHHHHhCC
Q 006580          495 QAGQLGKAIDITSTMP  510 (640)
Q Consensus       495 ~~g~~~~A~~~~~~~~  510 (640)
                      ..|+.++|++.+-...
T Consensus        87 ~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   87 NLGRPKEALEWLLEAL  102 (120)
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            8888888888775543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.24  E-value=0.0039  Score=49.51  Aligned_cols=87  Identities=10%  Similarity=-0.090  Sum_probs=53.0

Q ss_pred             HHHHHhcCChHHHHHHHHhCC-CC--CC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC---ChhHHHHHHHHHHh
Q 006580          490 IDLLCQAGQLGKAIDITSTMP-FQ--PG--CSIWESILRASAIYGDVKLTENVAERMMDLQLP---SPLPYSLLTQAYAM  561 (640)
Q Consensus       490 ~~~~~~~g~~~~A~~~~~~~~-~~--~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~  561 (640)
                      ..++-..|+.++|+.++++.. ..  ..  ...+-.+.+.+...|++++|..++++.+...|+   +......++.++..
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHH
Confidence            344555666666666666554 11  11  234555666777777777777777777776665   44555555667777


Q ss_pred             cCChHHHHHHHHHHH
Q 006580          562 RGRWEAIVRVKKVMR  576 (640)
Q Consensus       562 ~g~~~~a~~~~~~m~  576 (640)
                      .|+.++|.+.+-...
T Consensus        88 ~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   88 LGRPKEALEWLLEAL  102 (120)
T ss_pred             CCCHHHHHHHHHHHH
Confidence            777777777664433

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.24  E-value=0.0056  Score=46.70  Aligned_cols=76  Identities=11%  Similarity=0.072  Sum_probs=55.0

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHCCC-CCChhhHHHHHHHHh-----------chhHHHHHHHHHHHhCCCCCchhHH
Q 006580          116 NSMISGYASCGYSDYALEMFSKMQLQGV-RPSGFTFSILLSTVS-----------SACHGKQIHGSMIRSGLSLSNVVLG  183 (640)
Q Consensus       116 ~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~t~~~ll~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~  183 (640)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.+           .+-....+++.++..+ ..|+..+|
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~-lKP~~etY  107 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNK-LKPNDETY  107 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhc-cCCcHHHH
Confidence            3455666667888888888888888888 788888888888887           2234456667777766 77777777


Q ss_pred             HHHHHhhhc
Q 006580          184 NSLIDMYGK  192 (640)
Q Consensus       184 ~~li~~~~~  192 (640)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            777766543

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 [, , ].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.22  E-value=0.2  Score=47.45  Aligned_cols=244  Identities=15%  Similarity=0.097  Sum_probs=158.3

Q ss_pred             HhCCChHHHHHHHHHHhhCCCCCChhh--HHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHH
Q 006580          323 GRYGFGEVALELFQLMLREDIRPTEFT--LSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDS  399 (640)
Q Consensus       323 ~~~~~~~~a~~~~~~m~~~~~~p~~~t--~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  399 (640)
                      .-.|+++.|.+-|+.|...   |....  +..+.-...+ |+.+.|..+-+..-..- +.-.....+.++..|..|+++.
T Consensus       131 l~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~  206 (531)
T COG3898         131 LLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDG  206 (531)
T ss_pred             HhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHH
Confidence            3457777777777777652   22221  1112222223 77777777766655442 2334556788899999999999


Q ss_pred             HHHHHHhCC-----CCChhH--HHHHHHHHH---hCCChHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHhccCCHHHHHH
Q 006580          400 STEIFVKLD-----KRDLVS--WNTIMMGLT---QNGRAAETLDVFEELLEEGLPPDRIT-LAAVLLACNYGGFVDKGML  468 (640)
Q Consensus       400 A~~~~~~~~-----~~~~~~--~~~li~~~~---~~g~~~~a~~~~~~m~~~g~~p~~~~-~~~ll~~~~~~~~~~~A~~  468 (640)
                      |+++.+.-.     ++++.-  --.|+.+-.   -..+...|...-.+..+  +.||... -..-..++.+.|+..++-.
T Consensus       207 AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~  284 (531)
T COG3898         207 ALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSK  284 (531)
T ss_pred             HHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhh
Confidence            999997655     344331  222222211   12356667766666655  6777753 3344578899999999999


Q ss_pred             HHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHH----HHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          469 VFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAI----DITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       469 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~----~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                      +++.+-+.   .|.+..+...+  +.+.|+.....    +-++.|. +.+......+..+....|++..|..-.+.+...
T Consensus       285 ilE~aWK~---ePHP~ia~lY~--~ar~gdta~dRlkRa~~L~slk-~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~  358 (531)
T COG3898         285 ILETAWKA---EPHPDIALLYV--RARSGDTALDRLKRAKKLESLK-PNNAESSLAVAEAALDAGEFSAARAKAEAAARE  358 (531)
T ss_pred             HHHHHHhc---CCChHHHHHHH--HhcCCCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHhccchHHHHHHHHHHhhh
Confidence            99988754   66666654433  35666533211    1223332 336677788888889999999999999988888


Q ss_pred             CCCChhHHHHHHHHHHhc-CChHHHHHHHHHHHhCC
Q 006580          545 QLPSPLPYSLLTQAYAMR-GRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       545 ~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~~  579 (640)
                      .|. ...|..|+++-... |+-.++..++.+..+.-
T Consensus       359 ~pr-es~~lLlAdIeeAetGDqg~vR~wlAqav~AP  393 (531)
T COG3898         359 APR-ESAYLLLADIEEAETGDQGKVRQWLAQAVKAP  393 (531)
T ss_pred             Cch-hhHHHHHHHHHhhccCchHHHHHHHHHHhcCC
Confidence            885 47788888887655 99999999998777654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.22  E-value=0.0034  Score=58.04  Aligned_cols=86  Identities=9%  Similarity=-0.123  Sum_probs=48.5

Q ss_pred             HhcCChHHHHHHHHhCC-CCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC---hhHHHHHHHHHHhcCCh
Q 006580          494 CQAGQLGKAIDITSTMP-FQPG----CSIWESILRASAIYGDVKLTENVAERMMDLQLPS---PLPYSLLTQAYAMRGRW  565 (640)
Q Consensus       494 ~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~  565 (640)
                      .+.|++++|...|+... ..|+    +..+--+...|...|+++.|...|+++++..|++   +..+..++.++...|++
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            34455555555555443 2222    2344455566666666666666666666665543   34444556666666677


Q ss_pred             HHHHHHHHHHHhCC
Q 006580          566 EAIVRVKKVMRKNG  579 (640)
Q Consensus       566 ~~a~~~~~~m~~~~  579 (640)
                      ++|.++++.+.+..
T Consensus       234 ~~A~~~~~~vi~~y  247 (263)
T PRK10803        234 AKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHHHHHHHHHC
Confidence            77777666666543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.17  E-value=0.082  Score=48.60  Aligned_cols=172  Identities=12%  Similarity=0.015  Sum_probs=96.9

Q ss_pred             HHHHHhcCChHHHHHHHHhCCC--CChh-H---HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc--
Q 006580          388 MEMYAKTGSIDSSTEIFVKLDK--RDLV-S---WNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNY--  459 (640)
Q Consensus       388 ~~~~~~~g~~~~A~~~~~~~~~--~~~~-~---~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~--  459 (640)
                      ...+.+.|++++|.+.|+.+..  |+.. .   .-.++.++.+.+++++|...+++..+....-....+...+.+.+.  
T Consensus        39 A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~  118 (243)
T PRK10866         39 AQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMA  118 (243)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhh
Confidence            3344556777777777777662  2221 1   123456667777788888888777774211112233333333321  


Q ss_pred             c---------------CC---HHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHH
Q 006580          460 G---------------GF---VDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESI  521 (640)
Q Consensus       460 ~---------------~~---~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l  521 (640)
                      .               .+   ...|+..|+.+.++   -|+.             .-..+|...+..+....- ..--..
T Consensus       119 ~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~---yP~S-------------~ya~~A~~rl~~l~~~la-~~e~~i  181 (243)
T PRK10866        119 LDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG---YPNS-------------QYTTDATKRLVFLKDRLA-KYELSV  181 (243)
T ss_pred             cchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH---CcCC-------------hhHHHHHHHHHHHHHHHH-HHHHHH
Confidence            0               11   12344445554443   1222             112233322222210000 001134


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCC---hhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          522 LRASAIYGDVKLTENVAERMMDLQLPS---PLPYSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       522 ~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                      ...|.+.|.+.-|..-++.+++..|..   ..+...++.+|.+.|..++|..+.+.+.
T Consensus       182 a~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        182 AEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            566888999999999999999997754   4566788899999999999999887664

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.15  E-value=0.0011  Score=42.07  Aligned_cols=42  Identities=24%  Similarity=0.394  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHH
Q 006580          516 SIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQ  557 (640)
Q Consensus       516 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  557 (640)
                      .+|..+..+|...|++++|+++++++++.+|+|+..+..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            467889999999999999999999999999999999888764

>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=97.14  E-value=0.0011  Score=48.67  Aligned_cols=62  Identities=13%  Similarity=0.164  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhc----CCC---ChhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          516 SIWESILRASAIYGDVKLTENVAERMMDL----QLP---SPLPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       516 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      .+++.+...|...|++++|+..++++++.    ++.   -..++..++.+|...|++++|++++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            46788888888899999999999888866    222   256788999999999999999999987754

...

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.12  E-value=0.29  Score=47.41  Aligned_cols=190  Identities=13%  Similarity=0.086  Sum_probs=110.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHhCC--CCChhHH-------HHHHHHHH----hCCChHHHHHHHHHHHHCCCCCCHH
Q 006580          382 VVASSLMEMYAKTGSIDSSTEIFVKLD--KRDLVSW-------NTIMMGLT----QNGRAAETLDVFEELLEEGLPPDRI  448 (640)
Q Consensus       382 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~-------~~li~~~~----~~g~~~~a~~~~~~m~~~g~~p~~~  448 (640)
                      ..+..++....+.++...|.+.+.-+.  .|+...-       ..+-+..+    ..-+...=+.+|+......  .|..
T Consensus       299 ~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~D--iDrq  376 (549)
T PF07079_consen  299 DRFGNLLSFKVKQVQTEEAKQYLALLKILDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYD--IDRQ  376 (549)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhc--ccHH
Confidence            355666777778888888877776655  3332211       11111222    1112333455666666643  3332


Q ss_pred             -HHHHHH---HHHhccCC-HHHHHHHHHHhHHhhCCCCChhHHHHHH----HHHHhc---CChH---HHHHHHHhCCCCC
Q 006580          449 -TLAAVL---LACNYGGF-VDKGMLVFSAMKEEYGVMPGEEHYACII----DLLCQA---GQLG---KAIDITSTMPFQP  513 (640)
Q Consensus       449 -~~~~ll---~~~~~~~~-~~~A~~~~~~~~~~~~~~p~~~~~~~l~----~~~~~~---g~~~---~A~~~~~~~~~~~  513 (640)
                       ....|+   .-+-+.|. -++|+.+++.+.+-  .+-|...-+.+.    ..|..+   ..+.   +-..++++..+.|
T Consensus       377 QLvh~L~~~Ak~lW~~g~~dekalnLLk~il~f--t~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~  454 (549)
T PF07079_consen  377 QLVHYLVFGAKHLWEIGQCDEKALNLLKLILQF--TNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTP  454 (549)
T ss_pred             HHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHh--ccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCc
Confidence             112222   23445555 77888888887652  222333322221    122211   1122   2333444444333


Q ss_pred             ----CHHHHHHHHHH--HHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          514 ----GCSIWESILRA--SAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       514 ----~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                          +...-|.|..|  +..+|++.++.-.-.-+.+..| ++.+|..++-++....++++|..++..+.
T Consensus       455 i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~LP  522 (549)
T PF07079_consen  455 ITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKLP  522 (549)
T ss_pred             ccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhCC
Confidence                34455566544  4678999999999888888888 89999999999999999999999997553

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.11  E-value=0.026  Score=53.54  Aligned_cols=160  Identities=14%  Similarity=0.180  Sum_probs=100.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCC-------CC--ChhHHHHHHHHHHhCCChHHHHHHHHHHHH----CCCCCCH--HH
Q 006580          385 SSLMEMYAKTGSIDSSTEIFVKLD-------KR--DLVSWNTIMMGLTQNGRAAETLDVFEELLE----EGLPPDR--IT  449 (640)
Q Consensus       385 ~~l~~~~~~~g~~~~A~~~~~~~~-------~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~~--~~  449 (640)
                      ......|-..+++++|.+.|.+..       .+  -...|......|.+. ++++|++.+++..+    .| .|+.  .+
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            334455666777777766665543       11  122445555555444 88888888877665    33 3333  36


Q ss_pred             HHHHHHHHhcc-CCHHHHHHHHHHhHHhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC----CCC----CHH
Q 006580          450 LAAVLLACNYG-GFVDKGMLVFSAMKEEYGVMPG----EEHYACIIDLLCQAGQLGKAIDITSTMP----FQP----GCS  516 (640)
Q Consensus       450 ~~~ll~~~~~~-~~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~----~~~  516 (640)
                      +..+...|... |++++|++.|++..+-+.....    ..++..+...+.+.|++++|.++|++..    ..+    +..
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            66777788888 8999999999987764322222    3356677888999999999999998764    111    121


Q ss_pred             -HHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 006580          517 -IWESILRASAIYGDVKLTENVAERMMDLQL  546 (640)
Q Consensus       517 -~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  546 (640)
                       .+-..+-.+...||...|...+++....+|
T Consensus       197 ~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~  227 (282)
T PF14938_consen  197 EYFLKAILCHLAMGDYVAARKALERYCSQDP  227 (282)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHGTTST
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence             223334455667899999999999998887

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.10  E-value=0.12  Score=47.54  Aligned_cols=53  Identities=13%  Similarity=-0.003  Sum_probs=29.7

Q ss_pred             HHHHhcCCHHHHHHHHHhcCCC--Ch-hh---HHHHHHHHHhCCChHHHHHHHHHHhhC
Q 006580          289 DLFSKCNRLEDSVRLFEQLDRW--DY-AV---INVMISTYGRYGFGEVALELFQLMLRE  341 (640)
Q Consensus       289 ~~~~~~g~~~~A~~~~~~~~~~--~~-~~---~~~li~~~~~~~~~~~a~~~~~~m~~~  341 (640)
                      ..+.+.|++++|.+.|+.+...  +. ..   .-.+..++.+.+++++|...+++..+.
T Consensus        40 ~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         40 QQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            3344556666666666665442  11 11   123445666677777777777776664

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.10  E-value=0.0029  Score=61.43  Aligned_cols=65  Identities=12%  Similarity=-0.039  Sum_probs=52.1

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChh---HHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          514 GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPL---PYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       514 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      +...|+.+..+|...|++++|+..++++++++|++..   +|.+++.+|...|+.++|+..+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5667888888888888888888888888888887764   4888888888888888888888887775

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.07  E-value=0.3  Score=46.70  Aligned_cols=51  Identities=12%  Similarity=0.023  Sum_probs=31.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHH
Q 006580          284 LSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALEL  334 (640)
Q Consensus       284 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  334 (640)
                      .+..+.-+...|+...|.++..+..-|+-.-|...+.+++..++|++-.++
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~f  230 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKF  230 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHH
Confidence            344455555666666666666666666666666666666666666655443

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

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.06  E-value=0.56  Score=49.59  Aligned_cols=100  Identities=14%  Similarity=0.098  Sum_probs=50.6

Q ss_pred             hcCCChhHHHHHhccCCCC-CcchHHHHHHHH--HhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh---chhHHHH
Q 006580           92 LKSDNLDTALKVFDEIPEP-DVVSWNSMISGY--ASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS---SACHGKQ  165 (640)
Q Consensus        92 ~~~~~~~~A~~~~~~~~~~-~~~~y~~li~~~--~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~---~~~~a~~  165 (640)
                      ...+++..|......+.+. ....|..++.++  .|.|+.++|..+++.....+.. |..|...+-.++.   ..+.+..
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 LDSSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVH   98 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHH
Confidence            4556777777777766542 223344555544  5777888888777766554333 4444433333333   3344444


Q ss_pred             HHHHHHHhCCCCCchhHHHHHHHhhhcCCC
Q 006580          166 IHGSMIRSGLSLSNVVLGNSLIDMYGKLGV  195 (640)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  195 (640)
                      +++.....  +|. ......+-.+|+|.+.
T Consensus        99 ~Ye~~~~~--~P~-eell~~lFmayvR~~~  125 (932)
T KOG2053|consen   99 LYERANQK--YPS-EELLYHLFMAYVREKS  125 (932)
T ss_pred             HHHHHHhh--CCc-HHHHHHHHHHHHHHHH
Confidence            44444443  222 3334444444444443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.05  E-value=0.027  Score=46.56  Aligned_cols=91  Identities=8%  Similarity=-0.039  Sum_probs=62.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC
Q 006580          385 SSLMEMYAKTGSIDSSTEIFVKLD--KR-DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGG  461 (640)
Q Consensus       385 ~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  461 (640)
                      -.+...+...|++++|..+|+-+.  .| +..-|-.|..++-..|++++|+..|....... +-|...+-.+..++...|
T Consensus        39 Y~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG  117 (157)
T PRK15363         39 YRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACD  117 (157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcC
Confidence            344555566777777777777665  23 45566677777777777777777777777743 334456667777777777


Q ss_pred             CHHHHHHHHHHhHHh
Q 006580          462 FVDKGMLVFSAMKEE  476 (640)
Q Consensus       462 ~~~~A~~~~~~~~~~  476 (640)
                      +.+.|.+.|+.....
T Consensus       118 ~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        118 NVCYAIKALKAVVRI  132 (157)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            777777777766654

>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=97.02  E-value=0.0095  Score=51.62  Aligned_cols=97  Identities=18%  Similarity=0.274  Sum_probs=74.9

Q ss_pred             HHHHHhC--CCCChhHHHHHHHHHHh-----CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC------------
Q 006580          401 TEIFVKL--DKRDLVSWNTIMMGLTQ-----NGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGG------------  461 (640)
Q Consensus       401 ~~~~~~~--~~~~~~~~~~li~~~~~-----~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~------------  461 (640)
                      ...|+..  ...+-.+|..++..|.+     +|..+=....++.|.+-|+.-|..+|+.|++.+=+..            
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            3444444  35677777777777764     4677888888999999999999999999999876532            


Q ss_pred             ----CHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCC
Q 006580          462 ----FVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQ  498 (640)
Q Consensus       462 ----~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  498 (640)
                          +.+-|++++++|... |+.||.+++..|++.+++.+.
T Consensus       114 hyp~Qq~c~i~lL~qME~~-gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENN-GVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHc-CCCCcHHHHHHHHHHhccccH
Confidence                345688889998876 999999999888888876654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>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=96.97  E-value=0.12  Score=40.73  Aligned_cols=141  Identities=9%  Similarity=0.090  Sum_probs=90.8

Q ss_pred             HHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHH
Q 006580          422 LTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGK  501 (640)
Q Consensus       422 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  501 (640)
                      ..-.|..++..++..+....   .+..-++.++-.....-+-+-..++++.+-+-+.+.|-. ....++..|...|.   
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~-NlKrVi~C~~~~n~---   84 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCG-NLKRVIECYAKRNK---   84 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S--THHHHHHHHHTT----
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCchhhc-chHHHHHHHHHhcc---
Confidence            44568888889998888763   345566666665556666677777777765544333321 22333444444433   


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 006580          502 AIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGIN  581 (640)
Q Consensus       502 A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  581 (640)
                                  +....+..+.+...+|+-+.-.+++..+.+.+..+|.....++.+|.+.|+..++.+++++.-++|++
T Consensus        85 ------------~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   85 ------------LSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             --------------HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             ------------hHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence                        34455667788889999999999999998877788999999999999999999999999999999974

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.96  E-value=0.21  Score=50.39  Aligned_cols=57  Identities=21%  Similarity=0.336  Sum_probs=35.6

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCCC--CChh-----------HHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 006580          385 SSLMEMYAKTGSIDSSTEIFVKLDK--RDLV-----------SWNTIMMGLTQNGRAAETLDVFEELLEE  441 (640)
Q Consensus       385 ~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~-----------~~~~li~~~~~~g~~~~a~~~~~~m~~~  441 (640)
                      .+++++....+++.+|..+-++.++  +++.           -|...-++|.+.|+..+|..+++++...
T Consensus       777 ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  777 KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence            3567777778888888888777774  3322           1222234566667777777777766553

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.96  E-value=0.0086  Score=56.85  Aligned_cols=64  Identities=9%  Similarity=-0.020  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          516 SIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       516 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      .++..|...+.+.+++..|+....+.++.+|+|..+...-+.+|...|+++.|+..|+++.+..
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~  321 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLE  321 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhC
Confidence            3456666667777777777777777777777777777777777777777777777777777643

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.94  E-value=0.004  Score=44.90  Aligned_cols=64  Identities=17%  Similarity=0.259  Sum_probs=52.5

Q ss_pred             HHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHH
Q 006580          491 DLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSL  554 (640)
Q Consensus       491 ~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  554 (640)
                      ..|.+.+++++|.+.++.+. ..| ++..|......+...|++++|.+.++++++..|.++.....
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~~   68 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARAL   68 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHHH
Confidence            56778888888888888877 445 67788888889999999999999999999999977665443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.92  E-value=0.018  Score=53.32  Aligned_cols=103  Identities=11%  Similarity=0.037  Sum_probs=65.8

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC----CHHHHHHHH
Q 006580          449 TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMP-GEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP----GCSIWESIL  522 (640)
Q Consensus       449 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~----~~~~~~~l~  522 (640)
                      .|...+....+.|++++|+..|+.+.+.+.-.+ ....+..+..+|...|++++|...|+.+. ..|    .+..+-.++
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            344444434455677777777777766421111 02345566677777777777777777664 222    244555566


Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCCCChhH
Q 006580          523 RASAIYGDVKLTENVAERMMDLQLPSPLP  551 (640)
Q Consensus       523 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  551 (640)
                      ..+...|+.+.|...|+++++..|.+...
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~yP~s~~a  253 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKKYPGTDGA  253 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcCCHHH
Confidence            67778889999999999999988876543

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.91  E-value=0.5  Score=47.85  Aligned_cols=86  Identities=14%  Similarity=0.147  Sum_probs=53.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCHH-----------
Q 006580          449 TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPGCS-----------  516 (640)
Q Consensus       449 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~-----------  516 (640)
                      +...+...+.+...+..|-++|.+|-+          ...+++.....+++++|..+-++.+ +.||+.           
T Consensus       749 ~l~~~a~ylk~l~~~gLAaeIF~k~gD----------~ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~D  818 (1081)
T KOG1538|consen  749 PLLLCATYLKKLDSPGLAAEIFLKMGD----------LKSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAEND  818 (1081)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHhcc----------HHHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhh
Confidence            344444444455556666677766643          2345666677777777777777766 444432           


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          517 IWESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       517 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                      -+...-.+|.+.|+..+|.++++++...
T Consensus       819 rFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  819 RFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence            1223345677888889999998887655

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.90  E-value=0.29  Score=43.74  Aligned_cols=132  Identities=8%  Similarity=-0.045  Sum_probs=74.5

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHH----
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACI----  489 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l----  489 (640)
                      .-+.++..+.-.|.+.-.+..+++.++..-+.+......|.+.-.+.|+.+.|..+|+...+. .-..+....+.+    
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~-~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKV-TQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHH-HhhhhccchhHHHHhh
Confidence            345566666667777777888888887654556666677777777888888888888866544 222222222222    


Q ss_pred             -HHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 006580          490 -IDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQL  546 (640)
Q Consensus       490 -~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  546 (640)
                       ...|.-++++.+|...+.+++  ...++...|.-.-...-.|+...|.+..+.+++..|
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P  317 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDP  317 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence             223334445555555555554  122333333333333334555555555555555555

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.81  E-value=0.028  Score=53.49  Aligned_cols=138  Identities=9%  Similarity=-0.037  Sum_probs=99.3

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCC
Q 006580          419 MMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQ  498 (640)
Q Consensus       419 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  498 (640)
                      ...|.+.|++..|..-|++..+.            +. +...-+.++......         .-..++..|..++.+.++
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~------------l~-~~~~~~~ee~~~~~~---------~k~~~~lNlA~c~lKl~~  272 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSF------------LE-YRRSFDEEEQKKAEA---------LKLACHLNLAACYLKLKE  272 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHH------------hh-ccccCCHHHHHHHHH---------HHHHHhhHHHHHHHhhhh
Confidence            35677777888887777776651            00 011111122111111         112356677888899999


Q ss_pred             hHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHH-HHHHHHH
Q 006580          499 LGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAI-VRVKKVM  575 (640)
Q Consensus       499 ~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a-~~~~~~m  575 (640)
                      +.+|++..+...  .++|+..+--=..+|...|+++.|...|+++++++|.|-.+-..|+.+-.+...+.+. .++|..|
T Consensus       273 ~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~m  352 (397)
T KOG0543|consen  273 YKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKIREYEEKEKKMYANM  352 (397)
T ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999888876  4557888888889999999999999999999999999999988888888777766555 7788888


Q ss_pred             HhC
Q 006580          576 RKN  578 (640)
Q Consensus       576 ~~~  578 (640)
                      -+.
T Consensus       353 F~k  355 (397)
T KOG0543|consen  353 FAK  355 (397)
T ss_pred             hhc
Confidence            654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.74  E-value=0.089  Score=46.85  Aligned_cols=132  Identities=4%  Similarity=-0.078  Sum_probs=104.7

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC---CCCC-----HHHHHHH
Q 006580          450 LAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP---FQPG-----CSIWESI  521 (640)
Q Consensus       450 ~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~-----~~~~~~l  521 (640)
                      ...++..+...|.+.-....+.++.+. .-+.++.....|+..-.+.|+.+.|...|++..   .+.|     .......
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~-~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKY-YPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHh-CCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            345566666778888888899998885 556678888899999999999999999999654   1222     2333344


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCcc
Q 006580          522 LRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINK  582 (640)
Q Consensus       522 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  582 (640)
                      ...+.-++++..|...+.+++..+|.++.+.++-+-+..-.|+..+|.+.++.|....+.+
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~  319 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRH  319 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCcc
Confidence            4556667899999999999999999999999988888888999999999999999876433

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.69  E-value=0.67  Score=44.96  Aligned_cols=145  Identities=10%  Similarity=0.061  Sum_probs=100.7

Q ss_pred             CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCC-CCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHH
Q 006580          310 WDYAVINVMISTYGRYGFGEVALELFQLMLRED-IRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLM  388 (640)
Q Consensus       310 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  388 (640)
                      .-..+|...+..-.+..-.+.|..+|-+..+.| +.++...+++++..++.|+...|..+|+.-...- +.++...+-.+
T Consensus       395 k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~~d~~ta~~ifelGl~~f-~d~~~y~~kyl  473 (660)
T COG5107         395 KLTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYATGDRATAYNIFELGLLKF-PDSTLYKEKYL  473 (660)
T ss_pred             hhhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhcCCcchHHHHHHHHHHhC-CCchHHHHHHH
Confidence            345567778887778778888888888888888 6677788888888877788888888876655432 33333345566


Q ss_pred             HHHHhcCChHHHHHHHHhCCC---CC--hhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 006580          389 EMYAKTGSIDSSTEIFVKLDK---RD--LVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLAC  457 (640)
Q Consensus       389 ~~~~~~g~~~~A~~~~~~~~~---~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  457 (640)
                      ..+...++-+.|..+|+....   .+  ...|..+|.--..-|+...+..+=++|..  +-|...+......-|
T Consensus       474 ~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~Sry  545 (660)
T COG5107         474 LFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFTSRY  545 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHHHHH
Confidence            677778888888888875442   12  34677777777777888777777777776  456555544444433

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.67  E-value=0.24  Score=47.87  Aligned_cols=160  Identities=19%  Similarity=0.196  Sum_probs=96.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHhCCCC-------ChhHHHHHHHHHHh---CCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 006580          386 SLMEMYAKTGSIDSSTEIFVKLDKR-------DLVSWNTIMMGLTQ---NGRAAETLDVFEELLEEGLPPDRITLAAVLL  455 (640)
Q Consensus       386 ~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  455 (640)
                      .++-.|-...+++...++.+.+...       ....-....-++.+   .|+.++|++++..+....-.++..+|..+.+
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            3444577777777777777777642       12222233445556   7888889988888666556777777777766


Q ss_pred             HHhc---------cCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCC-hH---HHHHHH---HhCC-----CCC-
Q 006580          456 ACNY---------GGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQ-LG---KAIDIT---STMP-----FQP-  513 (640)
Q Consensus       456 ~~~~---------~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~-~~---~A~~~~---~~~~-----~~~-  513 (640)
                      .|-.         ....++|+..|.+.-   .+.|+..+=-.++-.+...|. .+   +..++-   ....     ..+ 
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgF---e~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGF---EIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHH---cCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            5432         224667777777554   445654432233333333443 11   222222   1111     223 


Q ss_pred             -CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 006580          514 -GCSIWESILRASAIYGDVKLTENVAERMMDLQLPS  548 (640)
Q Consensus       514 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  548 (640)
                       +.-.+.+++.++.-.|++++|.+.++++.+..|+.
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~  338 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPA  338 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcc
Confidence             33345678888888999999999999999987765

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.64  E-value=0.08  Score=48.59  Aligned_cols=104  Identities=14%  Similarity=0.061  Sum_probs=81.1

Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcC---ChHHHHHHHHhCC-CCC-CHHHH
Q 006580          444 PPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAG---QLGKAIDITSTMP-FQP-GCSIW  518 (640)
Q Consensus       444 ~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~-~~~-~~~~~  518 (640)
                      +-|...|..|..+|...|+.+.|...|....+.  ..+++..+..+..++..+.   ...++.++|+++. ..| |+...
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL--~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRL--AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHH
Confidence            445678888888999999999999988888763  3455666777766654332   3568888898887 455 77788


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcCCCCh
Q 006580          519 ESILRASAIYGDVKLTENVAERMMDLQLPSP  549 (640)
Q Consensus       519 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  549 (640)
                      ..|...+...|++.+|...++.|++..|++.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~  261 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPADD  261 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCCCC
Confidence            8888899999999999999999999988664

>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=96.61  E-value=0.013  Score=49.17  Aligned_cols=62  Identities=26%  Similarity=0.304  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          516 SIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       516 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      .++..++..+...|+++.|..++++++..+|.+...|..++.+|...|+..+|.++++++..
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            35566777888999999999999999999999999999999999999999999999988853

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.57  E-value=1.1  Score=45.98  Aligned_cols=55  Identities=18%  Similarity=0.141  Sum_probs=29.3

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHH
Q 006580          278 LSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQL  337 (640)
Q Consensus       278 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  337 (640)
                      +.+....-.+.+++...|.-++|.+.+-+...|.     +.+..|...++|.+|.++-+.
T Consensus       849 pe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~pk-----aAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  849 PEDSELLPVMADMFTSVGMCDQAVEAYLRRSLPK-----AAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             CcccchHHHHHHHHHhhchHHHHHHHHHhccCcH-----HHHHHHHHHHHHHHHHHHHHh
Confidence            3444555556666666666666666554443332     233445555556666555443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.45  E-value=1.4  Score=45.76  Aligned_cols=113  Identities=11%  Similarity=0.053  Sum_probs=75.2

Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHH
Q 006580          445 PDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRA  524 (640)
Q Consensus       445 p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~  524 (640)
                      -...+.+--+.-+...|+..+|.++-++.+     -||...|..=+.++...+++++-+++-++..   .+.-|.-+..+
T Consensus       682 f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskk---sPIGy~PFVe~  753 (829)
T KOG2280|consen  682 FVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKK---SPIGYLPFVEA  753 (829)
T ss_pred             cccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC---CCCCchhHHHH
Confidence            333445555556667777777777655442     4677777777788888888888777776654   24456667778


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHH
Q 006580          525 SAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKK  573 (640)
Q Consensus       525 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  573 (640)
                      |.++|+.++|..++-+.-    +    +.....+|.+.|++.+|.+..-
T Consensus       754 c~~~~n~~EA~KYiprv~----~----l~ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  754 CLKQGNKDEAKKYIPRVG----G----LQEKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             HHhcccHHHHhhhhhccC----C----hHHHHHHHHHhccHHHHHHHHH
Confidence            888888888877765531    1    1256677788888887776543

>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=96.45  E-value=0.027  Score=48.93  Aligned_cols=31  Identities=23%  Similarity=0.321  Sum_probs=14.8

Q ss_pred             CChHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 006580          126 GYSDYALEMFSKMQLQGVRPSGFTFSILLST  156 (640)
Q Consensus       126 ~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~  156 (640)
                      |..+-....++.|.+-|+.-|..+|+.||..
T Consensus        66 GHVeFI~aAL~~M~efgv~kDL~~Y~~LLDv   96 (228)
T PF06239_consen   66 GHVEFIYAALKKMDEFGVEKDLEVYKALLDV   96 (228)
T ss_pred             ChHHHHHHHHHHHHHcCCcccHHHHHHHHHh
Confidence            4444444444455555555555555444443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.45  E-value=0.88  Score=43.35  Aligned_cols=267  Identities=13%  Similarity=0.015  Sum_probs=146.5

Q ss_pred             CCChhHHHHHhccCC---CCCcchHHHHHHH--HHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh-------chh
Q 006580           94 SDNLDTALKVFDEIP---EPDVVSWNSMISG--YASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS-------SAC  161 (640)
Q Consensus        94 ~~~~~~A~~~~~~~~---~~~~~~y~~li~~--~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~-------~~~  161 (640)
                      .|+-..|.+.-.+-.   ..|....-.|+.+  -.-.|+++.|.+-|+-|...     ..|-..=++++.       ..+
T Consensus        97 AGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d-----PEtRllGLRgLyleAqr~Gare  171 (531)
T COG3898          97 AGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD-----PETRLLGLRGLYLEAQRLGARE  171 (531)
T ss_pred             cCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC-----hHHHHHhHHHHHHHHHhcccHH
Confidence            455555555544332   2344443333332  23457777777777777652     222222222222       444


Q ss_pred             HHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccC-----CCCeee--HHHHHHHH---HhcCChhHHH
Q 006580          162 HGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNME-----ELDIIS--WNSLISGC---FNSGYGELAL  231 (640)
Q Consensus       162 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~--~~~li~~~---~~~~~~~~A~  231 (640)
                      .+.++-+.....  -|.-...+.+++...|..|+++.|+++++.-.     ++|+.-  -..|+.+-   .-.-+...|.
T Consensus       172 aAr~yAe~Aa~~--Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar  249 (531)
T COG3898         172 AARHYAERAAEK--APQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASAR  249 (531)
T ss_pred             HHHHHHHHHHhh--ccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHH
Confidence            555555555544  45566777888888888888888888887654     233221  11222211   1123345555


Q ss_pred             HHHHHhHHCCCCCCcc-hHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH----HHHHHh
Q 006580          232 DQFYSMRYSGYSPDEY-TISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDS----VRLFEQ  306 (640)
Q Consensus       232 ~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A----~~~~~~  306 (640)
                      +.-.+..+  +.||.. .-.....++.+.|++.++-.+++.+-+....|+.    .++..+.+.|+....    .+-+..
T Consensus       250 ~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~i----a~lY~~ar~gdta~dRlkRa~~L~s  323 (531)
T COG3898         250 DDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDI----ALLYVRARSGDTALDRLKRAKKLES  323 (531)
T ss_pred             HHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHH----HHHHHHhcCCCcHHHHHHHHHHHHh
Confidence            55444433  556655 3334456778888888888888888777555543    223344555653222    133455


Q ss_pred             cCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhC-CC-CChHHHHHHHHHHHHh
Q 006580          307 LDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSI-PI-PPVEHGSQFHSMAIKS  375 (640)
Q Consensus       307 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~-~~-~~~~~a~~~~~~~~~~  375 (640)
                      |...+..+.-.+..+-...|++..|..--+...+  ..|....|..+-..- +. ||-.++...+.+.++.
T Consensus       324 lk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         324 LKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             cCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            6666667766777777777777666655444443  355555554444332 22 6666666666655554

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.41  E-value=0.046  Score=51.83  Aligned_cols=129  Identities=10%  Similarity=0.034  Sum_probs=88.8

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHh---HHhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC--------CCCCH
Q 006580          448 ITLAAVLLACNYGGFVDKGMLVFSAM---KEEYGVMPG-EEHYACIIDLLCQAGQLGKAIDITSTMP--------FQPGC  515 (640)
Q Consensus       448 ~~~~~ll~~~~~~~~~~~A~~~~~~~---~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~~  515 (640)
                      ..|..|-+.|.-.|++++|+...+.-   .+.+|-+.. ...+..|.+++.-.|+++.|.+.++...        -.-..
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            35666666666678889888776542   222333222 3356777888888888988888887653        11134


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhc------CCCChhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          516 SIWESILRASAIYGDVKLTENVAERMMDL------QLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       516 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                      ...-+|...|.-..++++|+.+..+=+.+      .......+..|+.+|...|..++|..+.+.-.
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            45667778887778888888887765544      23556778899999999999999988776554

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.37  E-value=0.17  Score=45.20  Aligned_cols=163  Identities=15%  Similarity=0.110  Sum_probs=83.9

Q ss_pred             HHHHhcCChHHHHHHHHhCCC--C----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhc-
Q 006580          389 EMYAKTGSIDSSTEIFVKLDK--R----DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDR--ITLAAVLLACNY-  459 (640)
Q Consensus       389 ~~~~~~g~~~~A~~~~~~~~~--~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~-  459 (640)
                      ..+...|++.+|...|+.+..  |    -....-.++.++.+.|+++.|...++++++.  -|+.  ..+...+.+.+. 
T Consensus        13 ~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~--yP~~~~~~~A~Y~~g~~~~   90 (203)
T PF13525_consen   13 LEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL--YPNSPKADYALYMLGLSYY   90 (203)
T ss_dssp             HHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-TTHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhhHHHHHHHHHH
Confidence            344556667777776666652  2    1223445566677777777777777776663  2222  122222222211 


Q ss_pred             ------------cCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 006580          460 ------------GGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAI  527 (640)
Q Consensus       460 ------------~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~  527 (640)
                                  .+...+|...|+.+.++                |=.+....+|...+..+...- ...--.+...|.+
T Consensus        91 ~~~~~~~~~~~D~~~~~~A~~~~~~li~~----------------yP~S~y~~~A~~~l~~l~~~l-a~~e~~ia~~Y~~  153 (203)
T PF13525_consen   91 KQIPGILRSDRDQTSTRKAIEEFEELIKR----------------YPNSEYAEEAKKRLAELRNRL-AEHELYIARFYYK  153 (203)
T ss_dssp             HHHHHHH-TT---HHHHHHHHHHHHHHHH-----------------TTSTTHHHHHHHHHHHHHHH-HHHHHHHHHHHHC
T ss_pred             HhCccchhcccChHHHHHHHHHHHHHHHH----------------CcCchHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence                        11122344444444433                222222233333222221000 0011124567888


Q ss_pred             cCChHHHHHHHHHHHhcCCCChh---HHHHHHHHHHhcCChHHHHH
Q 006580          528 YGDVKLTENVAERMMDLQLPSPL---PYSLLTQAYAMRGRWEAIVR  570 (640)
Q Consensus       528 ~~~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~~  570 (640)
                      .|.+..|..-++.+++..|+.+.   ....++.+|.+.|..+.+..
T Consensus       154 ~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  154 RGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             TT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             cccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            99999999999999999887654   45677889999998885543

>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=96.30  E-value=0.065  Score=43.08  Aligned_cols=51  Identities=16%  Similarity=0.277  Sum_probs=42.0

Q ss_pred             CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHH
Q 006580          442 GLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDL  492 (640)
Q Consensus       442 g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~  492 (640)
                      ...|+..+..+++.+|+..|++..|+++++...+.++++-+...|..|++=
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            356888888888888888888888888888888888887777788777763

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.29  E-value=1.7  Score=45.13  Aligned_cols=58  Identities=9%  Similarity=-0.026  Sum_probs=37.4

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHH
Q 006580          280 NSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQL  337 (640)
Q Consensus       280 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  337 (640)
                      ...+.+-.+..+..-|+..+|.++-.+..-+|-..|-.-+.+++..++|++-+++-+.
T Consensus       683 ~dlSl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAks  740 (829)
T KOG2280|consen  683 VDLSLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKS  740 (829)
T ss_pred             ccCcHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhc
Confidence            3344455555666667777777777777767777776667777777777665554433

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.27  E-value=0.17  Score=48.16  Aligned_cols=130  Identities=11%  Similarity=-0.018  Sum_probs=72.8

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHH----HHCCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHh---hC-CCCChhH
Q 006580          415 WNTIMMGLTQNGRAAETLDVFEEL----LEEGLPP-DRITLAAVLLACNYGGFVDKGMLVFSAMKEE---YG-VMPGEEH  485 (640)
Q Consensus       415 ~~~li~~~~~~g~~~~a~~~~~~m----~~~g~~p-~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~---~~-~~p~~~~  485 (640)
                      |..|...|.-.|+++.|+..-+.=    ++-|-+. ....+..+.+++.-.|+++.|.+.|+.....   .| -.....+
T Consensus       198 ~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQs  277 (639)
T KOG1130|consen  198 YGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQS  277 (639)
T ss_pred             hcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHH
Confidence            444444455556666665543321    1222222 2235666666666667777777766653321   01 1122334


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC--------CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          486 YACIIDLLCQAGQLGKAIDITSTMP--------FQPGCSIWESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       486 ~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                      ..+|.+.|.-...+++|+.++.+-.        ..-....+-+|..++...|..++|+.+.++.++.
T Consensus       278 cYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~  344 (639)
T KOG1130|consen  278 CYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRS  344 (639)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            4456666666677777777765543        1223456667777888888888888777776655

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.27  E-value=0.036  Score=43.42  Aligned_cols=90  Identities=16%  Similarity=0.137  Sum_probs=71.4

Q ss_pred             HHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-CCCCh---hHHHHHHHHHHhcCC
Q 006580          491 DLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDL-QLPSP---LPYSLLTQAYAMRGR  564 (640)
Q Consensus       491 ~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~p~~~---~~~~~l~~~~~~~g~  564 (640)
                      -++...|+++.|++.|....  .+..++.||.-.+++.-+|+.++|+.-+++++++ ++...   ..|..-+..|-..|+
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            35677888888888888776  3447888999999999999999999999999988 45433   245566778888899


Q ss_pred             hHHHHHHHHHHHhCCC
Q 006580          565 WEAIVRVKKVMRKNGI  580 (640)
Q Consensus       565 ~~~a~~~~~~m~~~~~  580 (640)
                      -+.|..-|+..-+.|-
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            9999998888877763

>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=96.14  E-value=0.0075  Score=44.13  Aligned_cols=29  Identities=10%  Similarity=0.142  Sum_probs=19.7

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          516 SIWESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       516 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                      .++..+...+...|++++|++.+++++++
T Consensus        47 ~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen   47 NTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            45666667777777777777777776553

...

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.11  E-value=1.4  Score=42.38  Aligned_cols=160  Identities=9%  Similarity=-0.008  Sum_probs=91.0

Q ss_pred             CChhhHHHHHhhCCC--CChHHHHHHHHHHHHhCCCCchHHHHHHHH--HHHhcCChHHHHHHHHhCCCCChhH------
Q 006580          345 PTEFTLSCVLSSIPI--PPVEHGSQFHSMAIKSGFDSNAVVASSLME--MYAKTGSIDSSTEIFVKLDKRDLVS------  414 (640)
Q Consensus       345 p~~~t~~~~l~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~g~~~~A~~~~~~~~~~~~~~------  414 (640)
                      |.-.++..+-..|..  ++.+.|..+-..+.+..- .+  .+..+++  ++--.++.+.|...|.+...-++..      
T Consensus       166 pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~-~n--~~al~vrg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk~~  242 (486)
T KOG0550|consen  166 PACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDA-TN--AEALYVRGLCLYYNDNADKAINHFQQALRLDPDHQKSKSA  242 (486)
T ss_pred             chhhHHHHhhhhhhhhcccchhHHHHHHHHHhccc-ch--hHHHHhcccccccccchHHHHHHHhhhhccChhhhhHHhH
Confidence            333444444444444  777777766655555431 11  1112222  2233566777777777766432221      


Q ss_pred             ---------HHHHHHHHHhCCChHHHHHHHHHHHH---CCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC
Q 006580          415 ---------WNTIMMGLTQNGRAAETLDVFEELLE---EGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG  482 (640)
Q Consensus       415 ---------~~~li~~~~~~g~~~~a~~~~~~m~~---~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~  482 (640)
                               |..-..-..+.|++..|.+.|.+.+.   .+++|+...|........+.|+..+|+.-.+....   +.|.
T Consensus       243 ~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~---iD~s  319 (486)
T KOG0550|consen  243 SMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK---IDSS  319 (486)
T ss_pred             hhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh---cCHH
Confidence                     22222335677888888888888876   23445555666666777788888888887776553   2221


Q ss_pred             -hhHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006580          483 -EEHYACIIDLLCQAGQLGKAIDITSTMP  510 (640)
Q Consensus       483 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~  510 (640)
                       ...|..-..++...++|++|.+-++++.
T Consensus       320 yikall~ra~c~l~le~~e~AV~d~~~a~  348 (486)
T KOG0550|consen  320 YIKALLRRANCHLALEKWEEAVEDYEKAM  348 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             1122222345556678888888887765

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.98  E-value=0.35  Score=43.22  Aligned_cols=143  Identities=16%  Similarity=0.173  Sum_probs=81.5

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHCCCC-C-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHH
Q 006580          417 TIMMGLTQNGRAAETLDVFEELLEEGLP-P-DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLC  494 (640)
Q Consensus       417 ~li~~~~~~g~~~~a~~~~~~m~~~g~~-p-~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~  494 (640)
                      .....+...|++.+|.+.|+++...... | -......++.++.+.|+++.|...++.+.+.+.-.|... +...+.+.+
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~-~A~Y~~g~~   88 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKAD-YALYMLGLS   88 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHH-HHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchh-hHHHHHHHH
Confidence            3445667788888888888888874211 1 123555667788888888888888888887654444322 222222221


Q ss_pred             hcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhH-----------------HHHHHH
Q 006580          495 QAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLP-----------------YSLLTQ  557 (640)
Q Consensus       495 ~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~-----------------~~~l~~  557 (640)
                      ..+......                   ......+....|...++.++...|+++..                 -..++.
T Consensus        89 ~~~~~~~~~-------------------~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~  149 (203)
T PF13525_consen   89 YYKQIPGIL-------------------RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIAR  149 (203)
T ss_dssp             HHHHHHHHH--------------------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhCccch-------------------hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            111111100                   01122234456666666666666655432                 225688


Q ss_pred             HHHhcCChHHHHHHHHHHHhCC
Q 006580          558 AYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       558 ~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      .|.+.|.+..|..-++.+.+.-
T Consensus       150 ~Y~~~~~y~aA~~r~~~v~~~y  171 (203)
T PF13525_consen  150 FYYKRGKYKAAIIRFQYVIENY  171 (203)
T ss_dssp             HHHCTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHcccHHHHHHHHHHHHHHC
Confidence            9999999999999999998864

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.95  E-value=0.055  Score=52.88  Aligned_cols=62  Identities=13%  Similarity=0.052  Sum_probs=42.1

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCH----HHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          483 EEHYACIIDLLCQAGQLGKAIDITSTMP-FQPGC----SIWESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       483 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                      ...+..+..+|...|++++|+..|++.. ..|+.    .+|..+..+|...|+.++|+..++++++.
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            4556666667777777777777776654 55542    24677777777777777777777777776

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.90  E-value=0.82  Score=44.33  Aligned_cols=165  Identities=12%  Similarity=0.077  Sum_probs=106.1

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHhc---cCCHHHHHHHHHHhHHhhCCCCChhHHH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEG---LPPDRITLAAVLLACNY---GGFVDKGMLVFSAMKEEYGVMPGEEHYA  487 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g---~~p~~~~~~~ll~~~~~---~~~~~~A~~~~~~~~~~~~~~p~~~~~~  487 (640)
                      +...++-+|....+++..+++.+.|....   +.-....-....-++.+   .|+.++|++++..+... ...+++++|.
T Consensus       143 iv~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~-~~~~~~d~~g  221 (374)
T PF13281_consen  143 IVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLES-DENPDPDTLG  221 (374)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhc-cCCCChHHHH
Confidence            33456667999999999999999998741   11111122233445666   89999999999996665 6778888988


Q ss_pred             HHHHHHHh----c-----CChHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCC-h---HHHHHHH----HHHHhc----C
Q 006580          488 CIIDLLCQ----A-----GQLGKAIDITSTMP-FQPGCSIWESILRASAIYGD-V---KLTENVA----ERMMDL----Q  545 (640)
Q Consensus       488 ~l~~~~~~----~-----g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~-~---~~a~~~~----~~~~~~----~  545 (640)
                      .+...|..    .     ...++|++.|.+.- ..||...--.++..+...|. .   .+..++.    ..+.+.    .
T Consensus       222 L~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~  301 (374)
T PF13281_consen  222 LLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEK  301 (374)
T ss_pred             HHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccc
Confidence            88776532    2     24678888887764 55654432222223333332 1   1222222    111122    1


Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          546 LPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       546 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      -.+-..+.+++.+..-.|++++|.+..++|.+..
T Consensus       302 ~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  302 MQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence            2555667788999999999999999999998763

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.88  E-value=0.65  Score=47.52  Aligned_cols=161  Identities=12%  Similarity=0.019  Sum_probs=102.5

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCC-CCCCHH-----HHHHHHHHHhc----cCCHHHHHHHHHHhHHhhCCCCCh
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEG-LPPDRI-----TLAAVLLACNY----GGFVDKGMLVFSAMKEEYGVMPGE  483 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~-----~~~~ll~~~~~----~~~~~~A~~~~~~~~~~~~~~p~~  483 (640)
                      ....+++...-.|+-+.+++.+.+..+.+ +.-...     .|..++..++.    ..+.+.|.++++.+.++   -|+.
T Consensus       190 ~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s  266 (468)
T PF10300_consen  190 KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNS  266 (468)
T ss_pred             HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCc
Confidence            34455555666777777777777665522 221111     23333333332    45677888888888765   4665


Q ss_pred             hHHHHH-HHHHHhcCChHHHHHHHHhCC-C-----CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHH-H
Q 006580          484 EHYACI-IDLLCQAGQLGKAIDITSTMP-F-----QPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSL-L  555 (640)
Q Consensus       484 ~~~~~l-~~~~~~~g~~~~A~~~~~~~~-~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~-l  555 (640)
                      ..|... ...+...|++++|++.|+++. .     +.....+--+...+....++++|.+.+.++.+.+.-+...|.- .
T Consensus       267 ~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~  346 (468)
T PF10300_consen  267 ALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLA  346 (468)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHH
Confidence            554433 355667788888888888754 1     1123345556667778889999999999999887765555554 4


Q ss_pred             HHHHHhcCCh-------HHHHHHHHHHHh
Q 006580          556 TQAYAMRGRW-------EAIVRVKKVMRK  577 (640)
Q Consensus       556 ~~~~~~~g~~-------~~a~~~~~~m~~  577 (640)
                      +-++...|+.       ++|.+++++...
T Consensus       347 a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  347 AACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            4555677888       888888877754

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.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.88  E-value=2.4  Score=43.08  Aligned_cols=181  Identities=13%  Similarity=0.071  Sum_probs=119.6

Q ss_pred             chHHHHHHHHHHHhcCChHHHHHHHHhCCCCC---hhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 006580          380 NAVVASSLMEMYAKTGSIDSSTEIFVKLDKRD---LVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLA  456 (640)
Q Consensus       380 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  456 (640)
                      +...+...+..-.+.|+.+.+.-+|++..-|-   ...|-..+.-....|+.+-|..++....+--++-.+.+...-..-
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            34556666777778888888888888877442   234444444444558888888877776664333333332222233


Q ss_pred             HhccCCHHHHHHHHHHhHHhhCCCCChh-HHHHHHHHHHhcCChHHHH---HHHHhCC-CCCCHHHHHHHHHH-----HH
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYGVMPGEE-HYACIIDLLCQAGQLGKAI---DITSTMP-FQPGCSIWESILRA-----SA  526 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~---~~~~~~~-~~~~~~~~~~l~~~-----~~  526 (640)
                      +-..|+++.|..+++.+.+.  . |+.. .-..-+....+.|..+.+.   +++.... .+-+..+...+.--     +.
T Consensus       376 ~e~~~n~~~A~~~lq~i~~e--~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~  452 (577)
T KOG1258|consen  376 EESNGNFDDAKVILQRIESE--Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYK  452 (577)
T ss_pred             HHhhccHHHHHHHHHHHHhh--C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHH
Confidence            45678999999999999885  3 5532 3333355667788888877   5554443 33344444333322     33


Q ss_pred             HcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcC
Q 006580          527 IYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRG  563 (640)
Q Consensus       527 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  563 (640)
                      ..++.+.|..++.++.+..|++...|..++.....++
T Consensus       453 i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  453 IREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            4579999999999999999999999999998887766

>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=95.80  E-value=0.12  Score=43.46  Aligned_cols=72  Identities=19%  Similarity=0.298  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH----hhCCCCChhHH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKE----EYGVMPGEEHY  486 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~----~~~~~p~~~~~  486 (640)
                      ....++..+...|++++|+.+++.+.... +-|...|..++.++...|+...|.++|+.+.+    ..|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            34455666777888888888888887742 44566778888888888888888887776643    34777776553

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.76  E-value=0.3  Score=39.73  Aligned_cols=89  Identities=16%  Similarity=0.119  Sum_probs=59.5

Q ss_pred             HHHHhcCChHHHHHHHHhCC----CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChh---HHHHHHHHHHhc
Q 006580          491 DLLCQAGQLGKAIDITSTMP----FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPL---PYSLLTQAYAMR  562 (640)
Q Consensus       491 ~~~~~~g~~~~A~~~~~~~~----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~  562 (640)
                      ....+.|++++|.+.|+.+.    ..| ....--.|+.+|.+.++++.|...+++.++++|.++.   ++...+-++.++
T Consensus        18 ~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~~   97 (142)
T PF13512_consen   18 QEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYEQ   97 (142)
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHH
Confidence            33456777777777777765    222 3456677888999999999999999999999885543   333344444444


Q ss_pred             CC---------------hHHHHHHHHHHHhCC
Q 006580          563 GR---------------WEAIVRVKKVMRKNG  579 (640)
Q Consensus       563 g~---------------~~~a~~~~~~m~~~~  579 (640)
                      ..               ..+|..-|+.+.+.-
T Consensus        98 ~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~y  129 (142)
T PF13512_consen   98 DEGSLQSFFRSDRDPTPARQAFRDFEQLVRRY  129 (142)
T ss_pred             hhhHHhhhcccccCcHHHHHHHHHHHHHHHHC
Confidence            44               556666666666543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.73  E-value=2.2  Score=41.59  Aligned_cols=134  Identities=11%  Similarity=0.078  Sum_probs=95.0

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHH
Q 006580          412 LVSWNTIMMGLTQNGRAAETLDVFEELLEEG-LPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACII  490 (640)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~  490 (640)
                      ...|-..+..-.+..-.+.|..+|-+..+.| +.++...+++++..++ .|+...|..+|+.=...  ++.+..--...+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            3456666777667777888888888888877 5667777777777655 47788888888765543  233333344556


Q ss_pred             HHHHhcCChHHHHHHHHhCC--CCCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 006580          491 DLLCQAGQLGKAIDITSTMP--FQPG--CSIWESILRASAIYGDVKLTENVAERMMDLQLPS  548 (640)
Q Consensus       491 ~~~~~~g~~~~A~~~~~~~~--~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  548 (640)
                      .-+.+.++-+.|..+|+...  +..+  -.+|..++..-...|++..+..+-+++.+..|..
T Consensus       474 ~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQe  535 (660)
T COG5107         474 LFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQE  535 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcH
Confidence            66777888888888888654  2223  4578888888888888888888888888887754

>PRK11906 transcriptional regulator; Provisional

Probab=95.61  E-value=0.18  Score=49.55  Aligned_cols=62  Identities=10%  Similarity=-0.053  Sum_probs=30.1

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHH
Q 006580          514 GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVM  575 (640)
Q Consensus       514 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  575 (640)
                      |+.....+..+..-.++++.|...++++..++|+.+.+|...++.+.-.|+.++|.+.+++.
T Consensus       337 Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~a  398 (458)
T PRK11906        337 DGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKS  398 (458)
T ss_pred             CHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44444444444444444555555555555555555555555555555555555555544443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.58  E-value=3.1  Score=45.91  Aligned_cols=77  Identities=13%  Similarity=0.169  Sum_probs=45.8

Q ss_pred             HHHHHHhcCChHHHHHHHHhCCCCChhHH---HHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCH
Q 006580          387 LMEMYAKTGSIDSSTEIFVKLDKRDLVSW---NTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFV  463 (640)
Q Consensus       387 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  463 (640)
                      -+.+|..+|+|++|..+...+..+-....   ..|+.-+...+++-+|-+++.+...   .|.     ..+..+++...|
T Consensus       971 Al~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~s---d~~-----~av~ll~ka~~~ 1042 (1265)
T KOG1920|consen  971 ALKAYKECGDWREALSLAAQLSEGKDELVILAEELVSRLVEQRKHYEAAKILLEYLS---DPE-----EAVALLCKAKEW 1042 (1265)
T ss_pred             HHHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhc---CHH-----HHHHHHhhHhHH
Confidence            45667777778887777777764322222   5566777777888787777776654   222     122234444555


Q ss_pred             HHHHHHHH
Q 006580          464 DKGMLVFS  471 (640)
Q Consensus       464 ~~A~~~~~  471 (640)
                      ++|..+-.
T Consensus      1043 ~eAlrva~ 1050 (1265)
T KOG1920|consen 1043 EEALRVAS 1050 (1265)
T ss_pred             HHHHHHHH
Confidence            55555443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.49  E-value=0.11  Score=47.01  Aligned_cols=58  Identities=12%  Similarity=0.034  Sum_probs=28.4

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          521 ILRASAIYGDVKLTENVAERMMDLQL---PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       521 l~~~~~~~~~~~~a~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      |..++...|+++.|...|..+.+..|   ..+..+.-|+.+..+.|+.++|..+|+.+.++
T Consensus       184 LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         184 LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            33444444555555555555554433   22344445555555555555555555555444

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.37  E-value=2.9  Score=41.58  Aligned_cols=140  Identities=14%  Similarity=0.049  Sum_probs=69.9

Q ss_pred             hCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHH
Q 006580          324 RYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEI  403 (640)
Q Consensus       324 ~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  403 (640)
                      +..+...-++.-++..+  +.||-.+.-.++..-....+.++..++++..+.|-.       .+-.....+..-......
T Consensus       180 RERnp~aRIkaA~eALe--i~pdCAdAYILLAEEeA~Ti~Eae~l~rqAvkAgE~-------~lg~s~~~~~~g~~~e~~  250 (539)
T PF04184_consen  180 RERNPQARIKAAKEALE--INPDCADAYILLAEEEASTIVEAEELLRQAVKAGEA-------SLGKSQFLQHHGHFWEAW  250 (539)
T ss_pred             hcCCHHHHHHHHHHHHH--hhhhhhHHHhhcccccccCHHHHHHHHHHHHHHHHH-------hhchhhhhhcccchhhhh
Confidence            34444444444444443  456665554444433335677777777777765410       000000000000000000


Q ss_pred             HHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHhccCCHHHHHHHHHHh
Q 006580          404 FVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPP--DRITLAAVLLACNYGGFVDKGMLVFSAM  473 (640)
Q Consensus       404 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~~~~~ll~~~~~~~~~~~A~~~~~~~  473 (640)
                      ..+-..+-+..-..+..+..+.|+.++|++.+++|.+.. ++  +......|+.++...+.+.++..++.+.
T Consensus       251 ~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~-p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  251 HRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEF-PNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             hccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhC-CccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            111111122233445666667788888888888777642 22  2235566777777777777777777765

The molecular function of this protein is uncertain.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.24  E-value=2.2  Score=39.35  Aligned_cols=32  Identities=16%  Similarity=0.049  Sum_probs=16.8

Q ss_pred             cCCCChhHHHHHHHHHHhcCChHHHHHHHHHH
Q 006580          544 LQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVM  575 (640)
Q Consensus       544 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  575 (640)
                      .+|+|...-..++..+...|+.++|.+.+=.+
T Consensus       231 adPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~  262 (304)
T COG3118         231 ADPDDVEAALALADQLHLVGRNEAALEHLLAL  262 (304)
T ss_pred             hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            35555555555555555555555555544333

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.21  E-value=1.5  Score=36.33  Aligned_cols=126  Identities=8%  Similarity=0.002  Sum_probs=67.3

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHH
Q 006580          415 WNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLC  494 (640)
Q Consensus       415 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~  494 (640)
                      ...++..+...+.+.....+++.+...+ ..+...++.++..|++. +..+.+..++.       ..+.......+..|.
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~-~~~~ll~~l~~-------~~~~yd~~~~~~~c~   80 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY-DPQKEIERLDN-------KSNHYDIEKVGKLCE   80 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH-CHHHHHHHHHh-------ccccCCHHHHHHHHH
Confidence            3445566666666777777777776655 34555666666666654 23333344331       122233344556666


Q ss_pred             hcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHc-CChHHHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 006580          495 QAGQLGKAIDITSTMPFQPGCSIWESILRASAIY-GDVKLTENVAERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       495 ~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      +.+.++++.-++.++.      -+...+..+... ++++.|.+.+++     +.++..|..++..+.
T Consensus        81 ~~~l~~~~~~l~~k~~------~~~~Al~~~l~~~~d~~~a~~~~~~-----~~~~~lw~~~~~~~l  136 (140)
T smart00299       81 KAKLYEEAVELYKKDG------NFKDAIVTLIEHLGNYEKAIEYFVK-----QNNPELWAEVLKALL  136 (140)
T ss_pred             HcCcHHHHHHHHHhhc------CHHHHHHHHHHcccCHHHHHHHHHh-----CCCHHHHHHHHHHHH
Confidence            6666666666666654      122222333333 666666666655     234556666555443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.19  E-value=1.6  Score=40.29  Aligned_cols=172  Identities=11%  Similarity=0.063  Sum_probs=116.9

Q ss_pred             hHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHh
Q 006580          397 IDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEE  476 (640)
Q Consensus       397 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~  476 (640)
                      -+...+.++++..+....--.-.......|+..+|..+|+...... +-+...-..+..+|...|+.+.|..++..+-..
T Consensus       119 esqlr~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~  197 (304)
T COG3118         119 ESQLRQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQ  197 (304)
T ss_pred             HHHHHHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCccc
Confidence            3355566666665422222233445678899999999999998852 333456667889999999999999999976442


Q ss_pred             hCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC--CChhHHH
Q 006580          477 YGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQL--PSPLPYS  553 (640)
Q Consensus       477 ~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p--~~~~~~~  553 (640)
                       .-.........-+..+.+.....+...+-.+.-..| |...--.+...+...|+.+.|.+.+-.++..+.  .+...-.
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 -AQDKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARK  276 (304)
T ss_pred             -chhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHH
Confidence             111111122234555666666555555555554456 777778888899999999999998888887744  6677788


Q ss_pred             HHHHHHHhcCChHHHHH
Q 006580          554 LLTQAYAMRGRWEAIVR  570 (640)
Q Consensus       554 ~l~~~~~~~g~~~~a~~  570 (640)
                      .|+..+..-|.-+.+..
T Consensus       277 ~lle~f~~~g~~Dp~~~  293 (304)
T COG3118         277 TLLELFEAFGPADPLVL  293 (304)
T ss_pred             HHHHHHHhcCCCCHHHH
Confidence            88888888875544433

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.18  E-value=0.27  Score=45.59  Aligned_cols=159  Identities=13%  Similarity=0.043  Sum_probs=115.1

Q ss_pred             HhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHH----HHHHHhcCC
Q 006580          423 TQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACI----IDLLCQAGQ  498 (640)
Q Consensus       423 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l----~~~~~~~g~  498 (640)
                      -.+|+..+|...++++.+. .+.|...+.-.=.+|...|+.+.-...++++...  -.|+...|..+    .-++..+|-
T Consensus       114 ~~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~  190 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGI  190 (491)
T ss_pred             hccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhcc
Confidence            3578888899999999885 5667777777778899999999988888888763  24555444333    334568899


Q ss_pred             hHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC----CChhHHHHHHHHHHhcCChHHHHHHH
Q 006580          499 LGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQL----PSPLPYSLLTQAYAMRGRWEAIVRVK  572 (640)
Q Consensus       499 ~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p----~~~~~~~~l~~~~~~~g~~~~a~~~~  572 (640)
                      +++|++.-++.. +.| |.-...++.-.+.-.|+.+++.+...+--..-.    .-...|-..+-.+...+.++.|+++|
T Consensus       191 y~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  191 YDDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             chhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            999999998887 444 666667777777788899999998877544411    22334556666778889999999999


Q ss_pred             HHHHhCCCccCC
Q 006580          573 KVMRKNGINKVT  584 (640)
Q Consensus       573 ~~m~~~~~~~~~  584 (640)
                      ++=.-+...++.
T Consensus       271 D~ei~k~l~k~D  282 (491)
T KOG2610|consen  271 DREIWKRLEKDD  282 (491)
T ss_pred             HHHHHHHhhccc
Confidence            876544444443

>PRK11906 transcriptional regulator; Provisional

Probab=95.17  E-value=1.4  Score=43.56  Aligned_cols=143  Identities=6%  Similarity=0.002  Sum_probs=97.6

Q ss_pred             hHHHHHHHHHHHH-CCCCCCHH-HHHHHHHHHhc---------cCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhc
Q 006580          428 AAETLDVFEELLE-EGLPPDRI-TLAAVLLACNY---------GGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQA  496 (640)
Q Consensus       428 ~~~a~~~~~~m~~-~g~~p~~~-~~~~ll~~~~~---------~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  496 (640)
                      .+.|+.+|.+... ..+.|+.. .|..+..++..         .....+|.+.-+...+  --+-|+.....+..++.-.
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAve--ld~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSD--ITTVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHhh
Confidence            5678888888883 22566643 44444433221         2234456666665554  2345667777777777888


Q ss_pred             CChHHHHHHHHhCC-CCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhH--HHHHHHHHHhcCChHHHHHHH
Q 006580          497 GQLGKAIDITSTMP-FQPG-CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLP--YSLLTQAYAMRGRWEAIVRVK  572 (640)
Q Consensus       497 g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~--~~~l~~~~~~~g~~~~a~~~~  572 (640)
                      ++++.|...|++.. ..|| ..+|......+.-.|+.++|.+.++++++++|....+  ....++.|+.. ..++|++++
T Consensus       352 ~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~~~~  430 (458)
T PRK11906        352 GQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPN-PLKNNIKLY  430 (458)
T ss_pred             cchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCC-chhhhHHHH
Confidence            88999999999987 6774 5677777788888999999999999999999955433  33444456644 466677765


Q ss_pred             H
Q 006580          573 K  573 (640)
Q Consensus       573 ~  573 (640)
                      -
T Consensus       431 ~  431 (458)
T PRK11906        431 Y  431 (458)
T ss_pred             h
Confidence            4

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.17  E-value=0.063  Score=31.40  Aligned_cols=33  Identities=15%  Similarity=0.209  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 006580          516 SIWESILRASAIYGDVKLTENVAERMMDLQLPS  548 (640)
Q Consensus       516 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  548 (640)
                      ..|..+...+...|++++|++.++++++++|.|
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            345566666777777777777777777776653

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 ....

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.16  E-value=1.9  Score=38.48  Aligned_cols=159  Identities=13%  Similarity=0.085  Sum_probs=88.9

Q ss_pred             hHHHHHHHHhCCCCC--hhHHHHHHHHHHhCCChHHHHHHHHHHHH--CCCCCCHH--HHHHHHHHHhccCCHHHHHHHH
Q 006580          397 IDSSTEIFVKLDKRD--LVSWNTIMMGLTQNGRAAETLDVFEELLE--EGLPPDRI--TLAAVLLACNYGGFVDKGMLVF  470 (640)
Q Consensus       397 ~~~A~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~g~~p~~~--~~~~ll~~~~~~~~~~~A~~~~  470 (640)
                      ++.|--+.+++.+-+  +..|+.-...|..+|.++-|-..+++.-+  .++.|+..  .|..-+......++...|.   
T Consensus        74 yEqaamLake~~klsEvvdl~eKAs~lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~---  150 (308)
T KOG1585|consen   74 YEQAAMLAKELSKLSEVVDLYEKASELYVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAF---  150 (308)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHH---
Confidence            344444444444322  23455555666677776666655555433  22344432  2222222222222222222   


Q ss_pred             HHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-------CCCCH-HHHHHHHHHHHHcCChHHHHHHHHHHH
Q 006580          471 SAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-------FQPGC-SIWESILRASAIYGDVKLTENVAERMM  542 (640)
Q Consensus       471 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~  542 (640)
                                   ..+......+.+..++++|-..+.+-.       .-|+. ..+-+.+-.+....|+..|+..++.--
T Consensus       151 -------------el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~  217 (308)
T KOG1585|consen  151 -------------ELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCS  217 (308)
T ss_pred             -------------HHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchh
Confidence                         234455566777777777776665543       12222 234555556666779999999998866


Q ss_pred             hc----CCCChhHHHHHHHHHHhcCChHHHHHHH
Q 006580          543 DL----QLPSPLPYSLLTQAYAMRGRWEAIVRVK  572 (640)
Q Consensus       543 ~~----~p~~~~~~~~l~~~~~~~g~~~~a~~~~  572 (640)
                      +.    .|.+..+...|+.+| ..|+.+++.+++
T Consensus       218 qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  218 QIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             cCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            55    456777788887666 478888887765

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.06  E-value=2.6  Score=38.33  Aligned_cols=198  Identities=16%  Similarity=0.116  Sum_probs=133.9

Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHhCC-----CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 006580          381 AVVASSLMEMYAKTGSIDSSTEIFVKLD-----KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLL  455 (640)
Q Consensus       381 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  455 (640)
                      ..........+...+++..+...+....     ......+......+...+++..+.+.+.........+. ........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHH
Confidence            3455556666777777777777766653     23445566666667777778888888888877433331 22222222


Q ss_pred             -HHhccCCHHHHHHHHHHhHHhhCC--CCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC--CHHHHHHHHHHHHHcC
Q 006580          456 -ACNYGGFVDKGMLVFSAMKEEYGV--MPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP--GCSIWESILRASAIYG  529 (640)
Q Consensus       456 -~~~~~~~~~~A~~~~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~--~~~~~~~l~~~~~~~~  529 (640)
                       .+...|+++.|...+...... ..  ......+......+...++.+++...+.+.. ..+  ....+..+...+...+
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         138 GALYELGDYEEALELYEKALEL-DPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc-CCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcc
Confidence             677888888888888887431 11  1223344444445667788888888888776 333  3667778888888888


Q ss_pred             ChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          530 DVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       530 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      +++.|...+..+....|.....+..+...+...|.++++...++.......
T Consensus       217 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  267 (291)
T COG0457         217 KYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDP  267 (291)
T ss_pred             cHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCc
Confidence            889999999999888887666667777777777778888888887776543

>PRK15331 chaperone protein SicA; Provisional

Probab=95.02  E-value=0.95  Score=37.88  Aligned_cols=86  Identities=9%  Similarity=-0.025  Sum_probs=66.4

Q ss_pred             HHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHH
Q 006580          456 ACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKL  533 (640)
Q Consensus       456 ~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~  533 (640)
                      -+-..|++++|..+|+-+..- + ..+..-+..|..++...+++++|+..|....  ..-|+...-.....+...|+.+.
T Consensus        46 ~~y~~Gk~~eA~~~F~~L~~~-d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~  123 (165)
T PRK15331         46 EFYNQGRLDEAETFFRFLCIY-D-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh-C-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHH
Confidence            345789999999999987753 2 3345567788888888999999999987765  23355556667778888999999


Q ss_pred             HHHHHHHHHh
Q 006580          534 TENVAERMMD  543 (640)
Q Consensus       534 a~~~~~~~~~  543 (640)
                      |...|+.+++
T Consensus       124 A~~~f~~a~~  133 (165)
T PRK15331        124 ARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHh
Confidence            9999998887

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=95.02  E-value=2.9  Score=41.20  Aligned_cols=150  Identities=6%  Similarity=-0.082  Sum_probs=85.9

Q ss_pred             CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC--hh
Q 006580          410 RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPP---DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG--EE  484 (640)
Q Consensus       410 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p---~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~--~~  484 (640)
                      ....+|..+...+.+.|+++.|...+.++...+..+   .......-...+-..|+..+|+..++..... ....+  ..
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~-~~~~~~~~~  222 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC-RLSKNIDSI  222 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH-Hhhhccccc
Confidence            355678888899999999999999999888743221   2233334455566778889999988887763 11111  11


Q ss_pred             HHHHHHHHHHhcCChHHHHHH-HHhCCCCCCHHHHHHHHHHHHHc------CChHHHHHHHHHHHhcCCCChhHHHHHHH
Q 006580          485 HYACIIDLLCQAGQLGKAIDI-TSTMPFQPGCSIWESILRASAIY------GDVKLTENVAERMMDLQLPSPLPYSLLTQ  557 (640)
Q Consensus       485 ~~~~l~~~~~~~g~~~~A~~~-~~~~~~~~~~~~~~~l~~~~~~~------~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  557 (640)
                      ....+...+..  ..+..... ........-...+..+..-+...      ++.+.+...|.++.+..|.....|..++.
T Consensus       223 ~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~  300 (352)
T PF02259_consen  223 SNAELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWAL  300 (352)
T ss_pred             cHHHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHH
Confidence            11111111000  00000000 00000000122333344444444      78899999999999999988888888877


Q ss_pred             HHHhc
Q 006580          558 AYAMR  562 (640)
Q Consensus       558 ~~~~~  562 (640)
                      .+.+.
T Consensus       301 ~~~~~  305 (352)
T PF02259_consen  301 FNDKL  305 (352)
T ss_pred             HHHHH
Confidence            76554

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.01  E-value=0.053  Score=31.79  Aligned_cols=32  Identities=16%  Similarity=0.146  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 006580          516 SIWESILRASAIYGDVKLTENVAERMMDLQLP  547 (640)
Q Consensus       516 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  547 (640)
                      .+|..+...+...|++++|+..++++++++|.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            35666777777777777777777777777764

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 ....

>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=95.00  E-value=0.64  Score=46.80  Aligned_cols=76  Identities=21%  Similarity=0.379  Sum_probs=35.8

Q ss_pred             HHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHH
Q 006580          493 LCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVK  572 (640)
Q Consensus       493 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  572 (640)
                      ..+.|+++.|.++.++..   +...|..|......+|+++.|++.+++.        .-+..|.-.|.-.|+.+.-.++.
T Consensus       328 Al~lg~L~~A~~~a~~~~---~~~~W~~Lg~~AL~~g~~~lAe~c~~k~--------~d~~~L~lLy~~~g~~~~L~kl~  396 (443)
T PF04053_consen  328 ALQLGNLDIALEIAKELD---DPEKWKQLGDEALRQGNIELAEECYQKA--------KDFSGLLLLYSSTGDREKLSKLA  396 (443)
T ss_dssp             HHHCT-HHHHHHHCCCCS---THHHHHHHHHHHHHTTBHHHHHHHHHHC--------T-HHHHHHHHHHCT-HHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHhcC---cHHHHHHHHHHHHHcCCHHHHHHHHHhh--------cCccccHHHHHHhCCHHHHHHHH
Confidence            344555555555444432   4445555555555555555555555552        23444444555555554444444


Q ss_pred             HHHHhCC
Q 006580          573 KVMRKNG  579 (640)
Q Consensus       573 ~~m~~~~  579 (640)
                      +....+|
T Consensus       397 ~~a~~~~  403 (443)
T PF04053_consen  397 KIAEERG  403 (443)
T ss_dssp             HHHHHTT
T ss_pred             HHHHHcc
Confidence            4444433

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.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.67  E-value=1.9  Score=42.88  Aligned_cols=150  Identities=10%  Similarity=0.035  Sum_probs=88.5

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCC
Q 006580          419 MMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQ  498 (640)
Q Consensus       419 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  498 (640)
                      |.-.-+..+++.-++.-++..+  +.||..+.-.++ +--......++.+++++..+. +    ...+..- ......|.
T Consensus       175 Mq~AWRERnp~aRIkaA~eALe--i~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkA-g----E~~lg~s-~~~~~~g~  245 (539)
T PF04184_consen  175 MQKAWRERNPQARIKAAKEALE--INPDCADAYILL-AEEEASTIVEAEELLRQAVKA-G----EASLGKS-QFLQHHGH  245 (539)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHH--hhhhhhHHHhhc-ccccccCHHHHHHHHHHHHHH-H----HHhhchh-hhhhcccc
Confidence            3333455567777777777776  567665433333 223345678888888876654 1    0011000 00001111


Q ss_pred             hHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC--CChhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          499 LGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQL--PSPLPYSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       499 ~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p--~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                      .   .+.+..-...|-..+-..|...+.+.|+.++|.+.++.+++..|  ++..+...|+..+...+.+.++..++.+..
T Consensus       246 ~---~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd  322 (539)
T PF04184_consen  246 F---WEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD  322 (539)
T ss_pred             h---hhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence            1   11111100123344445677777888999999999999988766  356788889999999999999999888875


Q ss_pred             hCCC
Q 006580          577 KNGI  580 (640)
Q Consensus       577 ~~~~  580 (640)
                      +...
T Consensus       323 Di~l  326 (539)
T PF04184_consen  323 DISL  326 (539)
T ss_pred             cccC
Confidence            5433

The molecular function of this protein is uncertain.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.65  E-value=0.37  Score=43.62  Aligned_cols=110  Identities=18%  Similarity=0.177  Sum_probs=84.2

Q ss_pred             HHHHHHhCC--CCChhHHHHHHHHHHh-----CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC-----------
Q 006580          400 STEIFVKLD--KRDLVSWNTIMMGLTQ-----NGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGG-----------  461 (640)
Q Consensus       400 A~~~~~~~~--~~~~~~~~~li~~~~~-----~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~-----------  461 (640)
                      .+..|....  ++|-.+|.+.+..+..     .+..+-....++.|.+-|+.-|..+|..|++.+-+..           
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            345566665  6777888888877754     3567777788899999999999999999999876643           


Q ss_pred             -----CHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCCh-HHHHHHHHhCC
Q 006580          462 -----FVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQL-GKAIDITSTMP  510 (640)
Q Consensus       462 -----~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~  510 (640)
                           +-+=++.++++|... |+.||.++-..|++++.+.+.. .+..+++--|+
T Consensus       133 ~HYP~QQ~C~I~vLeqME~h-GVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEWH-GVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             hhCchhhhHHHHHHHHHHHc-CCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence                 223478999999887 9999999999999999998864 34444444443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.62  E-value=0.35  Score=38.11  Aligned_cols=25  Identities=12%  Similarity=0.008  Sum_probs=15.5

Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCCC
Q 006580          523 RASAIYGDVKLTENVAERMMDLQLP  547 (640)
Q Consensus       523 ~~~~~~~~~~~a~~~~~~~~~~~p~  547 (640)
                      ..|...|+.+.|..-|+.+.+++.+
T Consensus       123 ~lyRl~g~dd~AR~DFe~AA~LGS~  147 (175)
T KOG4555|consen  123 LLYRLLGNDDAARADFEAAAQLGSK  147 (175)
T ss_pred             HHHHHhCchHHHHHhHHHHHHhCCH
Confidence            3455666667777666666666543

>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=94.57  E-value=0.4  Score=38.61  Aligned_cols=93  Identities=14%  Similarity=0.173  Sum_probs=48.5

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 006580          446 DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRAS  525 (640)
Q Consensus       446 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~  525 (640)
                      |..++..++.++++.|+.+....+++..   +|+.++...-         .+.      +-..-+..|+..++.+++.+|
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~---WgI~~~~~~~---------~~~------~~~~spl~Pt~~lL~AIv~sf   62 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSV---WGIDVNGKKK---------EGD------YPPSSPLYPTSRLLIAIVHSF   62 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHh---cCCCCCCccc---------cCc------cCCCCCCCCCHHHHHHHHHHH
Confidence            3455666666777777776666666533   2443332110         000      000111456666666666666


Q ss_pred             HHcCChHHHHHHHHHHHhcCC--CChhHHHHHH
Q 006580          526 AIYGDVKLTENVAERMMDLQL--PSPLPYSLLT  556 (640)
Q Consensus       526 ~~~~~~~~a~~~~~~~~~~~p--~~~~~~~~l~  556 (640)
                      +..+++..|.++++...+..|  -+...|..|.
T Consensus        63 ~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll   95 (126)
T PF12921_consen   63 GYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLL   95 (126)
T ss_pred             HhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            666666666666666666533  2234455444

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.56  E-value=1.3  Score=41.73  Aligned_cols=161  Identities=13%  Similarity=0.042  Sum_probs=82.7

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHH-CCCCCCH---HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC----hhH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLE-EGLPPDR---ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG----EEH  485 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p~~---~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~----~~~  485 (640)
                      .|..+..++-+.-++.+++.+-+.-.. .|..|..   ....++..++...+.++++++.|+...+-..-..|    ...
T Consensus        85 a~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqv  164 (518)
T KOG1941|consen   85 AYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQV  164 (518)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeeh
Confidence            344444444444444444444433332 2222211   22334455566666677777777665432111111    235


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC-----CC-CC------HHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCC---
Q 006580          486 YACIIDLLCQAGQLGKAIDITSTMP-----FQ-PG------CSIWESILRASAIYGDVKLTENVAERMMDL--QLPS---  548 (640)
Q Consensus       486 ~~~l~~~~~~~g~~~~A~~~~~~~~-----~~-~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~p~~---  548 (640)
                      +..|...|.+..++++|.-+..++.     .. .|      ..+.-.+.-++...|.+..|.+.-+++.++  ...|   
T Consensus       165 cv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~  244 (518)
T KOG1941|consen  165 CVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRAL  244 (518)
T ss_pred             hhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHH
Confidence            6667777777777776665554432     11 11      112223445566677777777777776655  2222   


Q ss_pred             -hhHHHHHHHHHHhcCChHHHHHHHHH
Q 006580          549 -PLPYSLLTQAYAMRGRWEAIVRVKKV  574 (640)
Q Consensus       549 -~~~~~~l~~~~~~~g~~~~a~~~~~~  574 (640)
                       ......++++|-..|+.+.|..-++.
T Consensus       245 ~arc~~~~aDIyR~~gd~e~af~rYe~  271 (518)
T KOG1941|consen  245 QARCLLCFADIYRSRGDLERAFRRYEQ  271 (518)
T ss_pred             HHHHHHHHHHHHHhcccHhHHHHHHHH
Confidence             33344677777777777766654443

>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=94.40  E-value=0.99  Score=45.48  Aligned_cols=156  Identities=15%  Similarity=0.185  Sum_probs=99.2

Q ss_pred             HHhcCCChhHHHHHhc--cCC-CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHH
Q 006580           90 GLLKSDNLDTALKVFD--EIP-EPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQI  166 (640)
Q Consensus        90 ~~~~~~~~~~A~~~~~--~~~-~~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~  166 (640)
                      ...-.++++++.+..+  ++. .-...-.+.++.-+-+.|.++.|+++.++-..                          
T Consensus       270 ~av~~~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~~--------------------------  323 (443)
T PF04053_consen  270 TAVLRGDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTDPDH--------------------------  323 (443)
T ss_dssp             HHHHTT-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS-HHH--------------------------
T ss_pred             HHHHcCChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCChHH--------------------------
Confidence            3345667777544443  111 11244477778888888888888877655432                          


Q ss_pred             HHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCc
Q 006580          167 HGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDE  246 (640)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~  246 (640)
                                         --....+.|+++.|.++.++..  +...|..|.....+.|+++-|...|.+..+       
T Consensus       324 -------------------rFeLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d-------  375 (443)
T PF04053_consen  324 -------------------RFELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD-------  375 (443)
T ss_dssp             -------------------HHHHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT--------
T ss_pred             -------------------HhHHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC-------
Confidence                               1234456788888888877766  556899999999999999999999988765       


Q ss_pred             chHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhc
Q 006580          247 YTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQL  307 (640)
Q Consensus       247 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  307 (640)
                        |..|+-.|...|+.++-.++.+.....|-      ++....++.-.|+.++..+++.+.
T Consensus       376 --~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  376 --FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             --HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             --ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHHHHHHc
Confidence              56677777888888888888777776652      444555566667777777776554

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.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.39  E-value=1  Score=41.07  Aligned_cols=92  Identities=12%  Similarity=0.068  Sum_probs=48.5

Q ss_pred             cCCHHHHHHHHHHhHHhhCCC-CChhHHHHHHHHHHhcCChHHHHHHHHhCC----CCC-CHHHHHHHHHHHHHcCChHH
Q 006580          460 GGFVDKGMLVFSAMKEEYGVM-PGEEHYACIIDLLCQAGQLGKAIDITSTMP----FQP-GCSIWESILRASAIYGDVKL  533 (640)
Q Consensus       460 ~~~~~~A~~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~-~~~~~~~l~~~~~~~~~~~~  533 (640)
                      .|++..|...|....+.+.-. -....+--|..++...|++++|..+|..+.    ..| -+..+--|.....+.|+.++
T Consensus       154 sgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~  233 (262)
T COG1729         154 SGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDE  233 (262)
T ss_pred             cCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHH
Confidence            344555555555555432100 011223335555555555555555554443    112 34555556666666677777


Q ss_pred             HHHHHHHHHhcCCCChhH
Q 006580          534 TENVAERMMDLQLPSPLP  551 (640)
Q Consensus       534 a~~~~~~~~~~~p~~~~~  551 (640)
                      |...|+++++..|..+.+
T Consensus       234 A~atl~qv~k~YP~t~aA  251 (262)
T COG1729         234 ACATLQQVIKRYPGTDAA  251 (262)
T ss_pred             HHHHHHHHHHHCCCCHHH
Confidence            777777777777765544

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.28  E-value=11  Score=41.94  Aligned_cols=113  Identities=13%  Similarity=0.015  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLL  493 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~  493 (640)
                      .|.+....+...+.+++|.-.|+..-+         ..-.+.+|..+|+|.+|+.+..++..  +-.--..+-..|+.-+
T Consensus       941 i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~--~~de~~~~a~~L~s~L 1009 (1265)
T KOG1920|consen  941 IYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSE--GKDELVILAEELVSRL 1009 (1265)
T ss_pred             HHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcC--CHHHHHHHHHHHHHHH
Confidence            333444444455666666555544322         11235566667777777777665532  1111111225566777


Q ss_pred             HhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 006580          494 CQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMM  542 (640)
Q Consensus       494 ~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  542 (640)
                      ...+++-+|-++..+....|..     .+..+++...+++|.++.....
T Consensus      1010 ~e~~kh~eAa~il~e~~sd~~~-----av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1010 VEQRKHYEAAKILLEYLSDPEE-----AVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHcccchhHHHHHHHHhcCHHH-----HHHHHhhHhHHHHHHHHHHhcc
Confidence            7778888887777776533321     2233344445555555555443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.23  E-value=1.4  Score=41.10  Aligned_cols=177  Identities=10%  Similarity=0.039  Sum_probs=115.6

Q ss_pred             HhcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHH----HHHHHhccCCHH
Q 006580          392 AKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAA----VLLACNYGGFVD  464 (640)
Q Consensus       392 ~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~----ll~~~~~~~~~~  464 (640)
                      ...|+..+|-..++++.+   .|...+.--=.+|...|+.+.-...+++.... ..||...|..    +.-++...|-++
T Consensus       114 ~~~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  114 WGRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             hccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            346778888888888773   37777777778899999999999999998875 4566644433    334456889999


Q ss_pred             HHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCC-----CHHHHHHHHHHHHHcCChHHHHHH
Q 006580          465 KGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQP-----GCSIWESILRASAIYGDVKLTENV  537 (640)
Q Consensus       465 ~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~-----~~~~~~~l~~~~~~~~~~~~a~~~  537 (640)
                      +|.+.-++..+-  -+.|.-.-.++...+.-.|++.++.++..+-.  .+.     ....|. ..-.+...+.++.|+++
T Consensus       193 dAEk~A~ralqi--N~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH-~Al~~iE~aeye~aleI  269 (491)
T KOG2610|consen  193 DAEKQADRALQI--NRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWH-TALFHIEGAEYEKALEI  269 (491)
T ss_pred             hHHHHHHhhccC--CCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHH-HHHhhhcccchhHHHHH
Confidence            999988876642  12334455567778888999999999998876  111     111222 22334456899999999


Q ss_pred             HHHHHhc--CCCChhH---HHHHHHHHHhcCChHHHHHHH
Q 006580          538 AERMMDL--QLPSPLP---YSLLTQAYAMRGRWEAIVRVK  572 (640)
Q Consensus       538 ~~~~~~~--~p~~~~~---~~~l~~~~~~~g~~~~a~~~~  572 (640)
                      |++-+-.  ..++...   |..+--.....-.|.+-.++-
T Consensus       270 yD~ei~k~l~k~Da~a~~~~ld~dgv~~~~d~~~kld~la  309 (491)
T KOG2610|consen  270 YDREIWKRLEKDDAVARDVYLDLDGVDLRSDLWRKLDKLA  309 (491)
T ss_pred             HHHHHHHHhhccchhhhhhhhhhhhHHhHHHHHHHHHhhh
Confidence            9876533  4455533   222333344444444444333

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.05  E-value=4.5  Score=36.66  Aligned_cols=170  Identities=16%  Similarity=0.136  Sum_probs=93.2

Q ss_pred             HhcCChHHHHHHHHhCCCC------ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHhc-----
Q 006580          392 AKTGSIDSSTEIFVKLDKR------DLVSWNTIMMGLTQNGRAAETLDVFEELLEEG-LPPDRITLAAVLLACNY-----  459 (640)
Q Consensus       392 ~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~ll~~~~~-----  459 (640)
                      .+.|++++|.+.|+.+...      ...+--.++.++.+.+++++|+..+++....- -.|| ..|...|.+++.     
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n-~dY~~YlkgLs~~~~i~  123 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN-ADYAYYLKGLSYFFQID  123 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC-hhHHHHHHHHHHhccCC
Confidence            4566777777777766621      22234445566777788888888888777732 2222 234444444332     


Q ss_pred             --cCCHH---HHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHH
Q 006580          460 --GGFVD---KGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLT  534 (640)
Q Consensus       460 --~~~~~---~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  534 (640)
                        ..+..   +|..-|+.+.++   -||..-             ...|..-+..+. ..=...=..+...|.+.|.+..|
T Consensus       124 ~~~rDq~~~~~A~~~f~~~i~r---yPnS~Y-------------a~dA~~~i~~~~-d~LA~~Em~IaryY~kr~~~~AA  186 (254)
T COG4105         124 DVTRDQSAARAAFAAFKELVQR---YPNSRY-------------APDAKARIVKLN-DALAGHEMAIARYYLKRGAYVAA  186 (254)
T ss_pred             ccccCHHHHHHHHHHHHHHHHH---CCCCcc-------------hhhHHHHHHHHH-HHHHHHHHHHHHHHHHhcChHHH
Confidence              12222   233333333332   222110             011111111000 00000012345778899999999


Q ss_pred             HHHHHHHHhcCCCChh---HHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          535 ENVAERMMDLQLPSPL---PYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       535 ~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ..-++.+++..|..+.   .+..+..+|.+.|..++|.+.-+-+...-
T Consensus       187 ~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N~  234 (254)
T COG4105         187 INRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGANY  234 (254)
T ss_pred             HHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhcC
Confidence            9999999999765544   45566788999999999998866665443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.01  E-value=3  Score=34.50  Aligned_cols=84  Identities=15%  Similarity=0.176  Sum_probs=38.0

Q ss_pred             HHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHH
Q 006580          251 IVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEV  330 (640)
Q Consensus       251 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  330 (640)
                      .++..+...+.......+++.+...+ ..+...++.++..|++.+ .++..+.++.  ..+......++..|.+.+.+++
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~--~~~~yd~~~~~~~c~~~~l~~~   87 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN--KSNHYDIEKVGKLCEKAKLYEE   87 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh--ccccCCHHHHHHHHHHcCcHHH
Confidence            34444444445555555555555544 244455555666655542 2233333331  1122223334444455555555


Q ss_pred             HHHHHHHH
Q 006580          331 ALELFQLM  338 (640)
Q Consensus       331 a~~~~~~m  338 (640)
                      +..++.++
T Consensus        88 ~~~l~~k~   95 (140)
T smart00299       88 AVELYKKD   95 (140)
T ss_pred             HHHHHHhh
Confidence            55555443

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=93.98  E-value=0.86  Score=36.34  Aligned_cols=67  Identities=9%  Similarity=-0.066  Sum_probs=41.8

Q ss_pred             CCHHHHHHHHHHHHHcC---ChHHHHHHHHHHHh-cCC-CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          513 PGCSIWESILRASAIYG---DVKLTENVAERMMD-LQL-PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       513 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~-~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +...+--.+.+++.+..   +..+.+.+++.+.+ ..| ........|+-++.+.|+|++++++.+.+.+..
T Consensus        30 ~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e  101 (149)
T KOG3364|consen   30 VSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETE  101 (149)
T ss_pred             chHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            34444445555555443   45667777777776 334 233444556667888888888888888777643

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.71  E-value=0.15  Score=30.39  Aligned_cols=26  Identities=15%  Similarity=0.250  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          551 PYSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       551 ~~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                      +|..|+.+|.+.|+|++|++++++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46788899999999999999888854

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=93.70  E-value=5.3  Score=36.25  Aligned_cols=136  Identities=16%  Similarity=0.142  Sum_probs=84.4

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhc
Q 006580          419 MMGLTQNGRAAETLDVFEELLEEGL--PPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQA  496 (640)
Q Consensus       419 i~~~~~~g~~~~a~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  496 (640)
                      +..-.+.|++++|.+.|+.+.++..  +-...+...++.++-+.+++++|+...++..+.++-.||.. |...+.+++  
T Consensus        41 g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~d-Y~~YlkgLs--  117 (254)
T COG4105          41 GLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNAD-YAYYLKGLS--  117 (254)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChh-HHHHHHHHH--
Confidence            3445678999999999999987521  12345666777888899999999999999988777666654 333344443  


Q ss_pred             CChHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChh-----------------HHHHHHHH
Q 006580          497 GQLGKAIDITSTMP-FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPL-----------------PYSLLTQA  558 (640)
Q Consensus       497 g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-----------------~~~~l~~~  558 (640)
                              .|..+. ...|..             -...|..-++..++..|++.-                 .=..++..
T Consensus       118 --------~~~~i~~~~rDq~-------------~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~Iary  176 (254)
T COG4105         118 --------YFFQIDDVTRDQS-------------AARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARY  176 (254)
T ss_pred             --------HhccCCccccCHH-------------HHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                    111111 111111             112333344444444443321                 11256778


Q ss_pred             HHhcCChHHHHHHHHHHHhC
Q 006580          559 YAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       559 ~~~~g~~~~a~~~~~~m~~~  578 (640)
                      |.+.|.|..|..-+++|.+.
T Consensus       177 Y~kr~~~~AA~nR~~~v~e~  196 (254)
T COG4105         177 YLKRGAYVAAINRFEEVLEN  196 (254)
T ss_pred             HHHhcChHHHHHHHHHHHhc
Confidence            88999999999988888876

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.59  E-value=8.9  Score=40.83  Aligned_cols=54  Identities=15%  Similarity=0.086  Sum_probs=38.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHH
Q 006580          285 SATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLM  338 (640)
Q Consensus       285 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  338 (640)
                      .-++..+.+..+.+.+..+.+...+.++..|-.+++.+++.+..+.-.+...+.
T Consensus       709 ~dl~~~~~q~~d~E~~it~~~~~g~~~p~l~~~~L~yF~~~~~i~~~~~~v~~v  762 (933)
T KOG2114|consen  709 QDLMLYFQQISDPETVITLCERLGKEDPSLWLHALKYFVSEESIEDCYEIVYKV  762 (933)
T ss_pred             HHHHHHHHHhhChHHHHHHHHHhCccChHHHHHHHHHHhhhcchhhHHHHHHHH
Confidence            346667777777888888887777777888888888888877655554444433

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=93.58  E-value=0.31  Score=41.68  Aligned_cols=58  Identities=10%  Similarity=0.053  Sum_probs=36.8

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          522 LRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       522 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ..+..+.+.++.|+.-..++++++|....+...-+.+|.+..++++|++=++++.+..
T Consensus       141 aaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~eealeDyKki~E~d  198 (271)
T KOG4234|consen  141 AAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEKYEEALEDYKKILESD  198 (271)
T ss_pred             HHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC
Confidence            3445556666666666666666666666666666666666666666666666666544

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.56  E-value=2.4  Score=34.68  Aligned_cols=115  Identities=13%  Similarity=0.027  Sum_probs=66.2

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHh
Q 006580          419 MMGLTQNGRAAETLDVFEELLEEGLPP---DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQ  495 (640)
Q Consensus       419 i~~~~~~g~~~~a~~~~~~m~~~g~~p---~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  495 (640)
                      .....+.|++++|.+.|+.+..+ .+.   ....-..++.++.+.++++.|...+++..+.+...|+ ..|...+.+++.
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~r-yP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~-vdYa~Y~~gL~~   94 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTR-YPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN-VDYAYYMRGLSY   94 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC-ccHHHHHHHHHH
Confidence            34455677888888888887774 222   2245566777778888888888888887765333333 234444444443


Q ss_pred             cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChh
Q 006580          496 AGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPL  550 (640)
Q Consensus       496 ~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  550 (640)
                      -...+..+.-+-  ...             ...+....|..-|++++...|++..
T Consensus        95 ~~~~~~~~~~~~--~~d-------------rD~~~~~~A~~~f~~lv~~yP~S~y  134 (142)
T PF13512_consen   95 YEQDEGSLQSFF--RSD-------------RDPTPARQAFRDFEQLVRRYPNSEY  134 (142)
T ss_pred             HHHhhhHHhhhc--ccc-------------cCcHHHHHHHHHHHHHHHHCcCChh
Confidence            332221111111  011             1122356788888888888887753

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.50  E-value=0.5  Score=43.70  Aligned_cols=62  Identities=23%  Similarity=0.318  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          516 SIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       516 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      .++..++..+...|+.+.+.+.+++++..+|-+...|..++.+|.+.|+...|+..++.+.+
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            34556667777777788888888888888887778888888888888888888887777754

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=93.34  E-value=6  Score=35.82  Aligned_cols=164  Identities=16%  Similarity=0.134  Sum_probs=116.6

Q ss_pred             chHHHHHHHHHHHhcCChHHHHHHHHhCCC--CCh-hHHHHHHH-HHHhCCChHHHHHHHHHHHHCCCCC----CHHHHH
Q 006580          380 NAVVASSLMEMYAKTGSIDSSTEIFVKLDK--RDL-VSWNTIMM-GLTQNGRAAETLDVFEELLEEGLPP----DRITLA  451 (640)
Q Consensus       380 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~li~-~~~~~g~~~~a~~~~~~m~~~g~~p----~~~~~~  451 (640)
                      ....+......+...++...+...+.....  ++. ........ .+...|+++.|...+.+...  ..|    ....+.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~  171 (291)
T COG0457          94 LAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALE--LDPELNELAEALL  171 (291)
T ss_pred             hHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCccchHHHHH
Confidence            344445555666667777788887777663  222 22333333 68889999999999999866  333    233444


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCC-HHHHHHHHHHHHHc
Q 006580          452 AVLLACNYGGFVDKGMLVFSAMKEEYGVMP-GEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPG-CSIWESILRASAIY  528 (640)
Q Consensus       452 ~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~  528 (640)
                      .....+...++.+.+...+......  ... ....+..+...+...+++++|...+.... ..|+ ...+..+...+...
T Consensus       172 ~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  249 (291)
T COG0457         172 ALGALLEALGRYEEALELLEKALKL--NPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLEL  249 (291)
T ss_pred             HhhhHHHHhcCHHHHHHHHHHHHhh--CcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHc
Confidence            4444567788999999999988763  233 46778888888999999999999998877 4454 45566666666677


Q ss_pred             CChHHHHHHHHHHHhcCCC
Q 006580          529 GDVKLTENVAERMMDLQLP  547 (640)
Q Consensus       529 ~~~~~a~~~~~~~~~~~p~  547 (640)
                      +..+.+...+.+..+..|.
T Consensus       250 ~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         250 GRYEEALEALEKALELDPD  268 (291)
T ss_pred             CCHHHHHHHHHHHHHhCcc
Confidence            7899999999999999887

>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=92.71  E-value=0.25  Score=41.25  Aligned_cols=85  Identities=14%  Similarity=0.163  Sum_probs=61.6

Q ss_pred             HHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCCCChhhHHHHHHHHhcCCChhH
Q 006580           20 QLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDT   99 (640)
Q Consensus        20 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~   99 (640)
                      .+++.+.+.+.+.....+++.+...+...++...+.++..|++.++.+...++++....   .....++..|.+.|.+++
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~   88 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEE   88 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHH
Confidence            45677888899999999999999888778899999999999999988999999885433   333345555555555555


Q ss_pred             HHHHhccC
Q 006580          100 ALKVFDEI  107 (640)
Q Consensus       100 A~~~~~~~  107 (640)
                      |.-++..+
T Consensus        89 a~~Ly~~~   96 (143)
T PF00637_consen   89 AVYLYSKL   96 (143)
T ss_dssp             HHHHHHCC
T ss_pred             HHHHHHHc
Confidence            55554443

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.

>PRK11619 lytic murein transglycosylase; Provisional

Probab=92.71  E-value=16  Score=39.11  Aligned_cols=94  Identities=9%  Similarity=-0.114  Sum_probs=55.8

Q ss_pred             HHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCChH
Q 006580          490 IDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQL---PSPLPYSLLTQAYAMRGRWE  566 (640)
Q Consensus       490 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~  566 (640)
                      +..+...|....|...+..+....+......+.......|.++.+.....+....+.   .-|..|...+..+.+.-..+
T Consensus       414 a~~L~~~g~~~~a~~ew~~~~~~~~~~~~~~la~~A~~~g~~~~ai~~~~~~~~~~~~~~rfp~~~~~~~~~~a~~~~v~  493 (644)
T PRK11619        414 VRELMYWNMDNTARSEWANLVASRSKTEQAQLARYAFNQQWWDLSVQATIAGKLWDHLEERFPLAWNDEFRRYTSGKGIP  493 (644)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCHHHHHHHHhhchhHHHHHHhCCcchHHHHHHHHHHcCCC
Confidence            345667788888888777665345556666666666778888888777655433210   12334666666666655666


Q ss_pred             HHHHHHHHHHhCCCccC
Q 006580          567 AIVRVKKVMRKNGINKV  583 (640)
Q Consensus       567 ~a~~~~~~m~~~~~~~~  583 (640)
                      .+.-+-=-..+.++.|.
T Consensus       494 ~~lv~ai~rqES~f~p~  510 (644)
T PRK11619        494 QSYAMAIARQESAWNPK  510 (644)
T ss_pred             HHHHHHHHHHhcCCCCC
Confidence            65543333345555554

>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=92.70  E-value=0.25  Score=28.82  Aligned_cols=30  Identities=13%  Similarity=0.173  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 006580          517 IWESILRASAIYGDVKLTENVAERMMDLQL  546 (640)
Q Consensus       517 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  546 (640)
                      +|..+...+...|++++|...++++++.+|
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~   32 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNP   32 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            455566666666666666666666666655

...

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.67  E-value=16  Score=38.78  Aligned_cols=106  Identities=10%  Similarity=-0.087  Sum_probs=62.4

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChH
Q 006580          118 MISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLY  197 (640)
Q Consensus       118 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  197 (640)
                      -|+.+.+.+.+++|++..+.-...  .|..                              .-..+....|..+...|+++
T Consensus       362 hi~Wll~~k~yeeAl~~~k~~~~~--~~~~------------------------------~i~kv~~~yI~HLl~~~~y~  409 (846)
T KOG2066|consen  362 HIDWLLEKKKYEEALDAAKASIGN--EERF------------------------------VIKKVGKTYIDHLLFEGKYD  409 (846)
T ss_pred             hHHHHHHhhHHHHHHHHHHhccCC--cccc------------------------------chHHHHHHHHHHHHhcchHH
Confidence            356677788888888776654321  2210                              02334566777777778888


Q ss_pred             HHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhc
Q 006580          198 YAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTK  258 (640)
Q Consensus       198 ~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  258 (640)
                      +|-...-.|...+..-|.-.+..+...++......+   +....-+.+...|..++..+..
T Consensus       410 ~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~Ia~~---lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  410 EAASLCPKMLGNNAAEWELWVFKFAELDQLTDIAPY---LPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             HHHhhhHHHhcchHHHHHHHHHHhccccccchhhcc---CCCCCcccCchHHHHHHHHHHH
Confidence            888877777777777777666666666655433222   2221122344556666666554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.63  E-value=0.23  Score=29.55  Aligned_cols=28  Identities=18%  Similarity=0.147  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          517 IWESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       517 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                      +|..|...|.+.|++++|++++++++.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4677888888889999999999886544

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=92.49  E-value=0.42  Score=30.00  Aligned_cols=29  Identities=17%  Similarity=0.355  Sum_probs=25.9

Q ss_pred             chHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 006580          113 VSWNSMISGYASCGYSDYALEMFSKMQLQ  141 (640)
Q Consensus       113 ~~y~~li~~~~~~~~~~~a~~~~~~m~~~  141 (640)
                      .+|..+...|.+.|++++|+++|++..+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            45778889999999999999999999986

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=92.44  E-value=0.14  Score=40.49  Aligned_cols=38  Identities=34%  Similarity=0.598  Sum_probs=29.4

Q ss_pred             ceeeEEecCEEEEEecCCCCCCChHHHHHHHHHHHHHHHHcCccCCCccc
Q 006580          585 GCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCVYLECDK  634 (640)
Q Consensus       585 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~p~~~~~  634 (640)
                      |+||+++    +.|++|+.+||+.        .+.+++...||.|++...
T Consensus         2 ~~~w~~~----h~F~sgd~shp~~--------~~~~~~~~~~~~~~~~~~   39 (116)
T PF14432_consen    2 GCSWIEV----HSFVSGDRSHPQS--------ELINKMKEEGYVPDTKEV   39 (116)
T ss_pred             CCCccce----EEEEeCCCcCccH--------HHHHHHHHcCCcchhhhh
Confidence            6899987    9999999999988        355566667777766553

>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=92.43  E-value=1.2  Score=29.32  Aligned_cols=51  Identities=12%  Similarity=0.096  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCceeeEEecCEEEEEecCCCCCCChHHHHHHHHHHHHHHHHcCc
Q 006580          551 PYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGC  627 (640)
Q Consensus       551 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  627 (640)
                      ....++-++.+.|++++|.+..+.+.+..                          |...++......+.++|+++|.
T Consensus         3 ~lY~lAig~ykl~~Y~~A~~~~~~lL~~e--------------------------P~N~Qa~~L~~~i~~~i~kdgl   53 (53)
T PF14853_consen    3 CLYYLAIGHYKLGEYEKARRYCDALLEIE--------------------------PDNRQAQSLKELIEDKIQKDGL   53 (53)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHT--------------------------TS-HHHHHHHHHHHHHHHHTTT
T ss_pred             hHHHHHHHHHHhhhHHHHHHHHHHHHhhC--------------------------CCcHHHHHHHHHHHHHHhccCC
Confidence            34567779999999999999999998843                          4555666666778888888884

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.21  E-value=19  Score=38.60  Aligned_cols=53  Identities=11%  Similarity=0.249  Sum_probs=36.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHH
Q 006580          386 SLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEEL  438 (640)
Q Consensus       386 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  438 (640)
                      -++..+.+..+.+.+..+.+...+.++..|..+++.+++.+..+...+...+.
T Consensus       710 dl~~~~~q~~d~E~~it~~~~~g~~~p~l~~~~L~yF~~~~~i~~~~~~v~~v  762 (933)
T KOG2114|consen  710 DLMLYFQQISDPETVITLCERLGKEDPSLWLHALKYFVSEESIEDCYEIVYKV  762 (933)
T ss_pred             HHHHHHHHhhChHHHHHHHHHhCccChHHHHHHHHHHhhhcchhhHHHHHHHH
Confidence            35666677777777777777777777778888888887777655554444433

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=92.12  E-value=1.3  Score=40.33  Aligned_cols=92  Identities=14%  Similarity=0.232  Sum_probs=51.7

Q ss_pred             HHhccCC--CCCcchHHHHHHHHHh-----CCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh----------------
Q 006580          102 KVFDEIP--EPDVVSWNSMISGYAS-----CGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS----------------  158 (640)
Q Consensus       102 ~~~~~~~--~~~~~~y~~li~~~~~-----~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~----------------  158 (640)
                      +.|....  ++|-.+|-+.+..+..     .+.++-....++.|.+-|+.-|..+|..|+..+-                
T Consensus        55 ~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~H  134 (406)
T KOG3941|consen   55 KQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLH  134 (406)
T ss_pred             hhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhh
Confidence            3344444  3555566666555532     3556666666777777777777777777776543                


Q ss_pred             ---chhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCC
Q 006580          159 ---SACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLG  194 (640)
Q Consensus       159 ---~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  194 (640)
                         ...-+..++++|...| +-||-.+-..|++++.+.+
T Consensus       135 YP~QQ~C~I~vLeqME~hG-VmPdkE~e~~lvn~FGr~~  172 (406)
T KOG3941|consen  135 YPQQQNCAIKVLEQMEWHG-VMPDKEIEDILVNAFGRWN  172 (406)
T ss_pred             CchhhhHHHHHHHHHHHcC-CCCchHHHHHHHHHhcccc
Confidence               2223444555555555 5555555555555554444

>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=92.07  E-value=5.3  Score=31.96  Aligned_cols=60  Identities=13%  Similarity=0.103  Sum_probs=31.5

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHh
Q 006580          416 NTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEE  476 (640)
Q Consensus       416 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~  476 (640)
                      ...+..+..+|+-+.-.+++..+.+. -.|++.....+..||.+.|+..++.+++.+..++
T Consensus        90 D~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek  149 (161)
T PF09205_consen   90 DLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEK  149 (161)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            33445555666666666666665542 2555555556666666666666666666666554

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=91.98  E-value=16  Score=37.48  Aligned_cols=112  Identities=13%  Similarity=0.027  Sum_probs=69.7

Q ss_pred             cCCchHHHHHHHHHHHhCCCCchhHHHH-HHHHHHhcCCHHHHHHHHHhcCCC-------ChhhHHHHHHHHHhCCChHH
Q 006580          259 LRNLDKGKQVFALSVKVGFLSNSIVLSA-TIDLFSKCNRLEDSVRLFEQLDRW-------DYAVINVMISTYGRYGFGEV  330 (640)
Q Consensus       259 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~~~~~~~  330 (640)
                      ..+.+.+.++++.+.+.  -|+...|.. -.+.+...|++++|++.|++....       ....+--+.-.+.-.++|++
T Consensus       246 ~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~  323 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEE  323 (468)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHH
Confidence            34566777777777665  355554433 335666778888888888865431       12234445666777888889


Q ss_pred             HHHHHHHHhhCCCCCChhhHHHHHhhCCC--CCh-------HHHHHHHHHHH
Q 006580          331 ALELFQLMLREDIRPTEFTLSCVLSSIPI--PPV-------EHGSQFHSMAI  373 (640)
Q Consensus       331 a~~~~~~m~~~~~~p~~~t~~~~l~~~~~--~~~-------~~a~~~~~~~~  373 (640)
                      |.+.|..+.+.. ..+..+|..+..+|..  ++.       ++|..++.++.
T Consensus       324 A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  324 AAEYFLRLLKES-KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            988888888753 3345555555555433  555       66666665554

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.

>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=91.84  E-value=1.5  Score=36.59  Aligned_cols=71  Identities=13%  Similarity=0.075  Sum_probs=38.7

Q ss_pred             hcCChHHHHHHHHhCC-CCCCHHHHH-HHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCh
Q 006580          495 QAGQLGKAIDITSTMP-FQPGCSIWE-SILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRW  565 (640)
Q Consensus       495 ~~g~~~~A~~~~~~~~-~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  565 (640)
                      +.++.+++..++..+. .+|...... .-...+...|++.+|.++++.+.+..|..+..-..++.++...|+.
T Consensus        22 ~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~   94 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDP   94 (160)
T ss_pred             ccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCCh
Confidence            4556666666666655 455433222 2234445566666666666666555555555545555555555544

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=91.78  E-value=7.1  Score=37.09  Aligned_cols=94  Identities=18%  Similarity=0.276  Sum_probs=55.5

Q ss_pred             hHHHHHHHHhCCC-------CChhHHHHHHHHHHhCCC----hHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHhccCC-
Q 006580          397 IDSSTEIFVKLDK-------RDLVSWNTIMMGLTQNGR----AAETLDVFEELLEEGLPPDRI--TLAAVLLACNYGGF-  462 (640)
Q Consensus       397 ~~~A~~~~~~~~~-------~~~~~~~~li~~~~~~g~----~~~a~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~~~-  462 (640)
                      ..+|..+|+.|.+       ++-.++..++..  ..++    .+.+..+|+.+.+.|+..+..  ....++..+..... 
T Consensus       119 ~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~  196 (297)
T PF13170_consen  119 IQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQE  196 (297)
T ss_pred             HHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchH
Confidence            3456667777663       233344444433  2222    355677888888878776553  33344433332222 


Q ss_pred             -HHHHHHHHHHhHHhhCCCCChhHHHHHHHHH
Q 006580          463 -VDKGMLVFSAMKEEYGVMPGEEHYACIIDLL  493 (640)
Q Consensus       463 -~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~  493 (640)
                       ..++.++++.+.+. ++++...+|..+.-.-
T Consensus       197 ~v~r~~~l~~~l~~~-~~kik~~~yp~lGlLa  227 (297)
T PF13170_consen  197 KVARVIELYNALKKN-GVKIKYMHYPTLGLLA  227 (297)
T ss_pred             HHHHHHHHHHHHHHc-CCccccccccHHHHHH
Confidence             44788888888887 8888888877665433

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=91.61  E-value=1.3  Score=36.28  Aligned_cols=52  Identities=10%  Similarity=0.042  Sum_probs=24.9

Q ss_pred             cCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          528 YGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       528 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      .++.+.++.++..+.-+.|..+..-..-++.+...|+|++|..+++.+.+.+
T Consensus        23 ~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            4444445555554444444444444444444445555555555554444433

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.29  E-value=0.46  Score=27.56  Aligned_cols=30  Identities=20%  Similarity=0.201  Sum_probs=25.7

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          550 LPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       550 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ..+..++.++...|++++|++.+++..+..
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~   31 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence            568899999999999999999999987654

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 ....

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=91.28  E-value=5.5  Score=34.43  Aligned_cols=89  Identities=9%  Similarity=0.019  Sum_probs=48.2

Q ss_pred             HHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHH
Q 006580          491 DLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAI  568 (640)
Q Consensus       491 ~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  568 (640)
                      .++.+.+.++.|++-..+.. +.| ....+.--..+|-+...++.|++-|+++++.+|....+-...+.+--....-.+.
T Consensus       142 aa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~eealeDyKki~E~dPs~~ear~~i~rl~~~i~ernEk  221 (271)
T KOG4234|consen  142 AALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEKYEEALEDYKKILESDPSRREAREAIARLPPKINERNEK  221 (271)
T ss_pred             HHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCcchHHHHHHHHhcCHHHHHHHHH
Confidence            34455555555555554443 333 2222223344666777889999999999999987765544444333222222222


Q ss_pred             H--HHHHHHHhCC
Q 006580          569 V--RVKKVMRKNG  579 (640)
Q Consensus       569 ~--~~~~~m~~~~  579 (640)
                      .  +++.++++.|
T Consensus       222 mKee~m~kLKdlG  234 (271)
T KOG4234|consen  222 MKEEMMEKLKDLG  234 (271)
T ss_pred             HHHHHHHHHHHhh
Confidence            2  3555555544

>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=91.20  E-value=6.6  Score=33.32  Aligned_cols=128  Identities=13%  Similarity=0.063  Sum_probs=67.3

Q ss_pred             hcCCCCChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCCCChhhHHHH
Q 006580            8 AHVNKASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNIC   87 (640)
Q Consensus         8 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l   87 (640)
                      ..+.+|+...+..++..+.+.|.+....+    +...++-+|.......+-.+.  +.+..+.++--.|..+=...+..+
T Consensus        22 ~~~i~~~~~L~~lli~lLi~~~~~~~L~q----llq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkRL~~~~~~i   95 (167)
T PF07035_consen   22 QHNIPVQHELYELLIDLLIRNGQFSQLHQ----LLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKRLGTAYEEI   95 (167)
T ss_pred             HcCCCCCHHHHHHHHHHHHHcCCHHHHHH----HHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHHhhhhHHHH
Confidence            45566666777777777777776544333    333443343333332222221  222223322222222212245556


Q ss_pred             HHHHhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 006580           88 LRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQ  141 (640)
Q Consensus        88 l~~~~~~~~~~~A~~~~~~~~~~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~  141 (640)
                      +..+...|++-+|.++.+....-+......++.+-...+|...-..+|+-..+.
T Consensus        96 ievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   96 IEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             HHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            666777777777777776665555555566666666666666555555555443

>PRK09687 putative lyase; Provisional

Probab=91.18  E-value=14  Score=34.97  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=11.6

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHH
Q 006580          417 TIMMGLTQNGRAAETLDVFEELLE  440 (640)
Q Consensus       417 ~li~~~~~~g~~~~a~~~~~~m~~  440 (640)
                      ..+.++...|.. +|+..+..+..
T Consensus       240 ~a~~ALg~ig~~-~a~p~L~~l~~  262 (280)
T PRK09687        240 LIIEAAGELGDK-TLLPVLDTLLY  262 (280)
T ss_pred             HHHHHHHhcCCH-hHHHHHHHHHh
Confidence            344455555553 45555555554

>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=91.14  E-value=6.4  Score=34.09  Aligned_cols=95  Identities=8%  Similarity=-0.010  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCCh------hH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI--TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGE------EH  485 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~------~~  485 (640)
                      .+..+...|++.|+.+.|++.|.++.+....|...  .+..+++.+...+++..+...+.+.........+.      ..
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            34455556666666666666666666544444332  34445555555666666666555554321111111      11


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC
Q 006580          486 YACIIDLLCQAGQLGKAIDITSTMP  510 (640)
Q Consensus       486 ~~~l~~~~~~~g~~~~A~~~~~~~~  510 (640)
                      |..|.  +...+++.+|-+.|-...
T Consensus       118 ~~gL~--~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  118 YEGLA--NLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHH--HHHhchHHHHHHHHHccC
Confidence            22221  234566776666665554

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.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=91.12  E-value=0.65  Score=43.28  Aligned_cols=112  Identities=10%  Similarity=-0.021  Sum_probs=79.6

Q ss_pred             HHHHhccCCHHHHHHHHHHhHHhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCC
Q 006580          454 LLACNYGGFVDKGMLVFSAMKEEYGVMP-GEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGD  530 (640)
Q Consensus       454 l~~~~~~~~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~  530 (640)
                      .+-|.++|.+++|+..|..-..   +.| ++.++..-..+|.+.+++..|+.-.+.+.  .+.-...|..-+.+-...|+
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia---~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIA---VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhc---cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhh
Confidence            4568889999999999987663   455 78888888899999999998887766654  11123345555555556788


Q ss_pred             hHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHH
Q 006580          531 VKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVK  572 (640)
Q Consensus       531 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  572 (640)
                      ..+|.+-++.++++.|.+.    -|-..+.......++.-+.
T Consensus       181 ~~EAKkD~E~vL~LEP~~~----ELkK~~a~i~Sl~E~~I~~  218 (536)
T KOG4648|consen  181 NMEAKKDCETVLALEPKNI----ELKKSLARINSLRERKIAT  218 (536)
T ss_pred             HHHHHHhHHHHHhhCcccH----HHHHHHHHhcchHhhhHHh
Confidence            9999999999999999864    3444555555555554433

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=91.09  E-value=4.5  Score=39.86  Aligned_cols=86  Identities=12%  Similarity=-0.005  Sum_probs=38.5

Q ss_pred             HhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHH
Q 006580          494 CQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRV  571 (640)
Q Consensus       494 ~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  571 (640)
                      ...|+++.+...+....  +.....+...++......|+++.|....+-|+.....++......+-.--..|-++++...
T Consensus       334 ~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~  413 (831)
T PRK15180        334 SHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHY  413 (831)
T ss_pred             HHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHHHH
Confidence            34444454444444433  2223334444444444445555555555555544444433333333233334445555555


Q ss_pred             HHHHHhCC
Q 006580          572 KKVMRKNG  579 (640)
Q Consensus       572 ~~~m~~~~  579 (640)
                      |+++....
T Consensus       414 wk~~~~~~  421 (831)
T PRK15180        414 WKRVLLLN  421 (831)
T ss_pred             HHHHhccC
Confidence            55554433

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.08  E-value=14  Score=36.32  Aligned_cols=66  Identities=14%  Similarity=0.190  Sum_probs=56.2

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC----CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          514 GCSIWESILRASAIYGDVKLTENVAERMMDLQL----PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       514 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p----~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ...+|..++..+.+.|+++.|...+.++...++    ..+.....-+..+...|+..+|...++......
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~  214 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCR  214 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            566899999999999999999999999998753    246667777889999999999999999888743

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=90.80  E-value=14  Score=34.26  Aligned_cols=61  Identities=15%  Similarity=0.071  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          517 IWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       517 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      +++.....|...|.+.+|.++-++++.++|-+...+..|+..+...|+--.|.+-++++.+
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya~  341 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYAE  341 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHHH
Confidence            3455567889999999999999999999999999999999999999998888888887753

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.54  E-value=0.61  Score=27.12  Aligned_cols=30  Identities=20%  Similarity=0.177  Sum_probs=26.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          550 LPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       550 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ..|..++.+|...|++++|+..+++..+..
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            578899999999999999999999988754

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 ....

>PRK09687 putative lyase; Provisional

Probab=90.51  E-value=16  Score=34.55  Aligned_cols=26  Identities=19%  Similarity=0.111  Sum_probs=12.6

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCC
Q 006580          520 SILRASAIYGDVKLTENVAERMMDLQL  546 (640)
Q Consensus       520 ~l~~~~~~~~~~~~a~~~~~~~~~~~p  546 (640)
                      ..+.++...|+. +|...+.++.+.+|
T Consensus       240 ~a~~ALg~ig~~-~a~p~L~~l~~~~~  265 (280)
T PRK09687        240 LIIEAAGELGDK-TLLPVLDTLLYKFD  265 (280)
T ss_pred             HHHHHHHhcCCH-hHHHHHHHHHhhCC
Confidence            344444444542 45555555555444

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.32  E-value=6.4  Score=33.18  Aligned_cols=48  Identities=17%  Similarity=0.110  Sum_probs=23.5

Q ss_pred             cCCChHHHHHHHhccCCCCeeeHHHHH-----HHHHhcCChhHHHHHHHHhHH
Q 006580          192 KLGVLYYAFGVFLNMEELDIISWNSLI-----SGCFNSGYGELALDQFYSMRY  239 (640)
Q Consensus       192 ~~g~~~~A~~~~~~~~~~~~~~~~~li-----~~~~~~~~~~~A~~~~~~m~~  239 (640)
                      +.+..++|+.-|..+.+.+-..|-.|.     ....+.|+...|...|.+.-.
T Consensus        70 ~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~  122 (221)
T COG4649          70 QENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAA  122 (221)
T ss_pred             HcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhc
Confidence            344555555555555544444443332     223445555555555555543

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=90.17  E-value=1.6  Score=40.79  Aligned_cols=92  Identities=13%  Similarity=0.037  Sum_probs=63.1

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcC
Q 006580          419 MMGLTQNGRAAETLDVFEELLEEGLPP-DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAG  497 (640)
Q Consensus       419 i~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  497 (640)
                      ..-|.+.|++++|+..|.+...  +.| |.+++..-..+|.+...+..|..-....... + ..-...|+.-+.+-...|
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaL-d-~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIAL-D-KLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHh-h-HHHHHHHHHHHHHHHHHh
Confidence            3569999999999999999887  567 8899999999999999998888776665532 0 001123333333334445


Q ss_pred             ChHHHHHHHHhCC-CCCC
Q 006580          498 QLGKAIDITSTMP-FQPG  514 (640)
Q Consensus       498 ~~~~A~~~~~~~~-~~~~  514 (640)
                      ...+|.+-++... ..|+
T Consensus       180 ~~~EAKkD~E~vL~LEP~  197 (536)
T KOG4648|consen  180 NNMEAKKDCETVLALEPK  197 (536)
T ss_pred             hHHHHHHhHHHHHhhCcc
Confidence            5666666665554 6665

>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=90.16  E-value=10  Score=31.80  Aligned_cols=109  Identities=14%  Similarity=0.056  Sum_probs=58.8

Q ss_pred             HhccCCHHHHHHHHHHhHHhhCCCCChhHHH-HHHHHHHhcCChHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCChHHH
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYGVMPGEEHYA-CIIDLLCQAGQLGKAIDITSTMP-FQPGCSIWESILRASAIYGDVKLT  534 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a  534 (640)
                      -...++.+++..++..+.-   +.|...... .-...+.+.|++.+|..+|+++. ..|....-..|+..|....+-..=
T Consensus        20 al~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~~W   96 (160)
T PF09613_consen   20 ALRLGDPDDAEALLDALRV---LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDPSW   96 (160)
T ss_pred             HHccCChHHHHHHHHHHHH---hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCChHH
Confidence            3456677777777777653   344432221 22334567778888888887776 444555555666666655544444


Q ss_pred             HHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHH
Q 006580          535 ENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVR  570 (640)
Q Consensus       535 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  570 (640)
                      ....+++++.+++. .+ ..|+..+....+...|..
T Consensus        97 r~~A~evle~~~d~-~a-~~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   97 RRYADEVLESGADP-DA-RALVRALLARADLEPAHE  130 (160)
T ss_pred             HHHHHHHHhcCCCh-HH-HHHHHHHHHhccccchhh
Confidence            55555555555422 22 233444444444444433

>PRK11619 lytic murein transglycosylase; Provisional

Probab=90.15  E-value=30  Score=37.20  Aligned_cols=49  Identities=4%  Similarity=-0.126  Sum_probs=21.5

Q ss_pred             HHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHH
Q 006580          289 DLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLM  338 (640)
Q Consensus       289 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  338 (640)
                      ..+.+.++++...+++.. ...+...-.....+....|+.++|....+.+
T Consensus       107 ~~La~~~~w~~~~~~~~~-~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~l  155 (644)
T PRK11619        107 NELARREDWRGLLAFSPE-KPKPVEARCNYYYAKWATGQQQEAWQGAKEL  155 (644)
T ss_pred             HHHHHccCHHHHHHhcCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            334445555555542211 1223333344445555555555454444443

>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=90.07  E-value=17  Score=34.32  Aligned_cols=17  Identities=18%  Similarity=0.118  Sum_probs=10.9

Q ss_pred             HHHhCCChHHHHHHHHH
Q 006580          321 TYGRYGFGEVALELFQL  337 (640)
Q Consensus       321 ~~~~~~~~~~a~~~~~~  337 (640)
                      .+.+.++++.|.+.|+-
T Consensus       255 ~~~~~k~y~~A~~w~~~  271 (278)
T PF08631_consen  255 KHYKAKNYDEAIEWYEL  271 (278)
T ss_pred             HHHhhcCHHHHHHHHHH
Confidence            34556777777777664

It is also involved in sporulation [].

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=89.78  E-value=0.79  Score=28.10  Aligned_cols=27  Identities=11%  Similarity=0.142  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHh
Q 006580          517 IWESILRASAIYGDVKLTENVAERMMD  543 (640)
Q Consensus       517 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  543 (640)
                      +++.|...|...|++++|+.+++++++
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            344444445555555555555544443

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.71  E-value=6.2  Score=35.36  Aligned_cols=167  Identities=6%  Similarity=-0.005  Sum_probs=85.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 006580          384 ASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYG  460 (640)
Q Consensus       384 ~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  460 (640)
                      |..-..+|-...++++|...+.+..   +.+...|.       ..+.++.|.-+.++|.+  ++.-...|.-....|...
T Consensus        34 yekAAvafRnAk~feKakdcLlkA~~~yEnnrslfh-------AAKayEqaamLake~~k--lsEvvdl~eKAs~lY~E~  104 (308)
T KOG1585|consen   34 YEKAAVAFRNAKKFEKAKDCLLKASKGYENNRSLFH-------AAKAYEQAAMLAKELSK--LSEVVDLYEKASELYVEC  104 (308)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHHHHhcccHHH-------HHHHHHHHHHHHHHHHH--hHHHHHHHHHHHHHHHHh
Confidence            3334445555666666665555443   11222221       12234555555555554  222223445555566666


Q ss_pred             CCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCC------CHHHHHHHHHHHHHcCChH
Q 006580          461 GFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQP------GCSIWESILRASAIYGDVK  532 (640)
Q Consensus       461 ~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~------~~~~~~~l~~~~~~~~~~~  532 (640)
                      |..+.|-..+++.-+.                 ....++++|++++++..  +..      -...+......+.+...++
T Consensus       105 GspdtAAmaleKAak~-----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~  167 (308)
T KOG1585|consen  105 GSPDTAAMALEKAAKA-----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFT  167 (308)
T ss_pred             CCcchHHHHHHHHHHH-----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhh
Confidence            6666666655554331                 22334444555444432  111      1223344455666666777


Q ss_pred             HHHHHHHHHHhcC------CCChhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          533 LTENVAERMMDLQ------LPSPLPYSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       533 ~a~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                      +|-..+.+-....      +.--..|...+-.|.-..++..|.+.++.-.
T Consensus       168 Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~  217 (308)
T KOG1585|consen  168 EAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCS  217 (308)
T ss_pred             HHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchh
Confidence            7777766655551      1222346666667777778888887776443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=89.54  E-value=35  Score=37.05  Aligned_cols=187  Identities=16%  Similarity=0.178  Sum_probs=94.8

Q ss_pred             HhcCChHHHHHHHHhCC----CCCh-------hHHHHHHH-HHHhCCChHHHHHHHHHHHHC----CCCCCHHHHHHHHH
Q 006580          392 AKTGSIDSSTEIFVKLD----KRDL-------VSWNTIMM-GLTQNGRAAETLDVFEELLEE----GLPPDRITLAAVLL  455 (640)
Q Consensus       392 ~~~g~~~~A~~~~~~~~----~~~~-------~~~~~li~-~~~~~g~~~~a~~~~~~m~~~----g~~p~~~~~~~ll~  455 (640)
                      ....++.+|..++.+..    .|+.       ..|+.+-. .....|++++|+++.+.....    -..+....+..+..
T Consensus       426 ~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~  505 (894)
T COG2909         426 ASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGE  505 (894)
T ss_pred             HHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhH
Confidence            34556666666665543    2221       13443322 233467788888877776653    11233345555666


Q ss_pred             HHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHH-----HHHHhcCChHHHH--HHHHhCC-----CCC----CHHHHH
Q 006580          456 ACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACII-----DLLCQAGQLGKAI--DITSTMP-----FQP----GCSIWE  519 (640)
Q Consensus       456 ~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~-----~~~~~~g~~~~A~--~~~~~~~-----~~~----~~~~~~  519 (640)
                      +..-.|++++|..+.+...+. .-..+...+..+.     ..+...|+...+.  ..+....     .+|    -..+..
T Consensus       506 a~~~~G~~~~Al~~~~~a~~~-a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~  584 (894)
T COG2909         506 AAHIRGELTQALALMQQAEQM-ARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRA  584 (894)
T ss_pred             HHHHhchHHHHHHHHHHHHHH-HHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHH
Confidence            666678888887777665543 2233433333222     2344556332222  2222111     122    123344


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhc----CCCC---hhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCcc
Q 006580          520 SILRASAIYGDVKLTENVAERMMDL----QLPS---PLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINK  582 (640)
Q Consensus       520 ~l~~~~~~~~~~~~a~~~~~~~~~~----~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  582 (640)
                      .+..++.+   ++.+..-....++.    .|..   ...+..|+.++...|+.++|...+.++.......
T Consensus       585 ~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~  651 (894)
T COG2909         585 QLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNG  651 (894)
T ss_pred             HHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCC
Confidence            44444444   44444444444433    2211   1222367788888888888888888887654433

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=89.40  E-value=26  Score=35.34  Aligned_cols=172  Identities=6%  Similarity=0.107  Sum_probs=89.1

Q ss_pred             chHHHHHHHHHHHhcCChHHHHHHHHhCC--CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHH-HHHHH
Q 006580          380 NAVVASSLMEMYAKTGSIDSSTEIFVKLD--KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLA-AVLLA  456 (640)
Q Consensus       380 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~-~ll~~  456 (640)
                      |....-+++..+..+..+.-.+.+-.+|.  ..+-..|-.++++|... ..+.-..+|+++.+.  .-|...+. .|..-
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en-~n~~l~~lWer~ve~--dfnDvv~~ReLa~~  141 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVEY--DFNDVVIGRELADK  141 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHh--cchhHHHHHHHHHH
Confidence            33334445555555555555555555554  23445566666666666 455566677766663  23333333 33333


Q ss_pred             HhccCCHHHHHHHHHHhHHhhCCCCC------hhHHHHHHHHHHhcCChHHHHHHHHhCC----CCCCHHHHHHHHHHHH
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYGVMPG------EEHYACIIDLLCQAGQLGKAIDITSTMP----FQPGCSIWESILRASA  526 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~~~p~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~~l~~~~~  526 (640)
                      |. .++.+.+..+|.++..+  +.|.      .+.|..|+...  ..+.+....+..++.    ...-...+.-+..-|.
T Consensus       142 yE-kik~sk~a~~f~Ka~yr--fI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         142 YE-KIKKSKAAEFFGKALYR--FIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HH-HhchhhHHHHHHHHHHH--hcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            33 36666666666666543  2221      12344433321  234444444444443    1222334444455566


Q ss_pred             HcCChHHHHHHHHHHHhcCCCChhHHHHHHHHH
Q 006580          527 IYGDVKLTENVAERMMDLQLPSPLPYSLLTQAY  559 (640)
Q Consensus       527 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  559 (640)
                      ...++++|++++..+++.+..|..+-..++.-+
T Consensus       217 ~~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~l  249 (711)
T COG1747         217 ENENWTEAIRILKHILEHDEKDVWARKEIIENL  249 (711)
T ss_pred             cccCHHHHHHHHHHHhhhcchhhhHHHHHHHHH
Confidence            667777777777777777666655555554433

>PRK10941 hypothetical protein; Provisional

Probab=89.34  E-value=4  Score=38.00  Aligned_cols=63  Identities=10%  Similarity=0.047  Sum_probs=57.7

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          517 IWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       517 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ..+.+-.+|.+.++++.|.++.+.++...|+++.-+..-+-+|.+.|.+..|..=++...+..
T Consensus       183 ml~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~  245 (269)
T PRK10941        183 LLDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQC  245 (269)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhC
Confidence            457777889999999999999999999999999999999999999999999999999888765

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=89.11  E-value=14  Score=33.69  Aligned_cols=177  Identities=11%  Similarity=0.113  Sum_probs=113.2

Q ss_pred             cCChHHHHHHHHhCCC-------CChhHHHHHHHHHHhCCChHHHHHHHHHHHH---CCCC--CCHHHHHHHHHHHhccC
Q 006580          394 TGSIDSSTEIFVKLDK-------RDLVSWNTIMMGLTQNGRAAETLDVFEELLE---EGLP--PDRITLAAVLLACNYGG  461 (640)
Q Consensus       394 ~g~~~~A~~~~~~~~~-------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~g~~--p~~~~~~~ll~~~~~~~  461 (640)
                      ..++++|..-|.++.+       ......-.++..+.+.|++++.++.+.+|..   ..+.  -+..+.+.++..-+.+.
T Consensus        40 e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~  119 (440)
T KOG1464|consen   40 EDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSK  119 (440)
T ss_pred             ccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhh
Confidence            3467777777776652       2334556678888899999999888888764   1122  23456777777666666


Q ss_pred             CHHHHHHHHHHhHHhh----CCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-------CCCC-------HHHHHHHHH
Q 006580          462 FVDKGMLVFSAMKEEY----GVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-------FQPG-------CSIWESILR  523 (640)
Q Consensus       462 ~~~~A~~~~~~~~~~~----~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~-------~~~~~~l~~  523 (640)
                      +.+.-..+++.-.+..    +-+....+-..|...|...|.+.+..++++.+.       ...|       ..+|..-++
T Consensus       120 ~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQ  199 (440)
T KOG1464|consen  120 NMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQ  199 (440)
T ss_pred             hhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhh
Confidence            6665555554433221    222333445567777877788877777776653       1111       345666678


Q ss_pred             HHHHcCChHHHHHHHHHHHhcC--CCChhHHHHH----HHHHHhcCChHHHHH
Q 006580          524 ASAIYGDVKLTENVAERMMDLQ--LPSPLPYSLL----TQAYAMRGRWEAIVR  570 (640)
Q Consensus       524 ~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~~~l----~~~~~~~g~~~~a~~  570 (640)
                      .|..+++-..-..+|++++...  .|+|.+.-.+    +....+.|+|++|-.
T Consensus       200 mYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhT  252 (440)
T KOG1464|consen  200 MYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHT  252 (440)
T ss_pred             hhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHh
Confidence            8888889899999999998773  3555544333    335567788888865

>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=88.84  E-value=14  Score=31.47  Aligned_cols=36  Identities=11%  Similarity=0.076  Sum_probs=19.6

Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHH
Q 006580          268 VFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRL  303 (640)
Q Consensus       268 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  303 (640)
                      .++.+.+.+++|+...+..+++.+.+.|++..-..+
T Consensus        16 YirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~ql   51 (167)
T PF07035_consen   16 YIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQL   51 (167)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            334444556666666666666666665555443333

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=88.67  E-value=0.98  Score=27.67  Aligned_cols=29  Identities=21%  Similarity=0.308  Sum_probs=25.0

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          550 LPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       550 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      .+++.|+..|...|++++|..++++..+.
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~~   31 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALEI   31 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHHH
Confidence            57889999999999999999999998753

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=88.60  E-value=0.68  Score=27.08  Aligned_cols=31  Identities=23%  Similarity=0.154  Sum_probs=24.8

Q ss_pred             HHHHHhCCCCCchhHHHHHHHhhhcCCChHHHH
Q 006580          168 GSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAF  200 (640)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  200 (640)
                      +..++.  .|.+...|+.|...|...|++++|+
T Consensus         3 ~kAie~--~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIEL--NPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHH--CCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            344455  6888999999999999999998885

>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=88.57  E-value=5.8  Score=34.38  Aligned_cols=88  Identities=18%  Similarity=0.223  Sum_probs=56.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC---CCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCCh------hH
Q 006580          485 HYACIIDLLCQAGQLGKAIDITSTMP---FQP--GCSIWESILRASAIYGDVKLTENVAERMMDL--QLPSP------LP  551 (640)
Q Consensus       485 ~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~p~~~------~~  551 (640)
                      .+..+.+.|.+.|+.++|.+.+.++.   ..+  -...+-.++..+...+++..+...+.++...  .+.+.      ..
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            45566677777777777777777765   122  2345666777777788888888888777766  22222      12


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHH
Q 006580          552 YSLLTQAYAMRGRWEAIVRVKKV  574 (640)
Q Consensus       552 ~~~l~~~~~~~g~~~~a~~~~~~  574 (640)
                      |..|  .+...|++.+|.+.|-.
T Consensus       118 ~~gL--~~l~~r~f~~AA~~fl~  138 (177)
T PF10602_consen  118 YEGL--ANLAQRDFKEAAELFLD  138 (177)
T ss_pred             HHHH--HHHHhchHHHHHHHHHc
Confidence            2222  44567888888887743

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.

>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=88.54  E-value=3.4  Score=35.97  Aligned_cols=75  Identities=15%  Similarity=0.092  Sum_probs=54.7

Q ss_pred             HhcCChHHHHHHHHhCCCCC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC----CCChhHHHHHHHHHHhcCChH
Q 006580          494 CQAGQLGKAIDITSTMPFQP---GCSIWESILRASAIYGDVKLTENVAERMMDLQ----LPSPLPYSLLTQAYAMRGRWE  566 (640)
Q Consensus       494 ~~~g~~~~A~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----p~~~~~~~~l~~~~~~~g~~~  566 (640)
                      .+.|+ ++|.+.|-.+...|   ++.....|.. |-...|.++++.++-+++++.    ..|+..+..|+.+|.+.|+++
T Consensus       118 sr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAt-yY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e  195 (203)
T PF11207_consen  118 SRFGD-QEALRRFLQLEGTPELETAELQYALAT-YYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYE  195 (203)
T ss_pred             hccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHH-HHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchh
Confidence            44555 56777776666333   4444444444 445789999999999999983    357899999999999999999


Q ss_pred             HHHH
Q 006580          567 AIVR  570 (640)
Q Consensus       567 ~a~~  570 (640)
                      .|.-
T Consensus       196 ~AYi  199 (203)
T PF11207_consen  196 QAYI  199 (203)
T ss_pred             hhhh
Confidence            8853

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=88.41  E-value=5.7  Score=36.96  Aligned_cols=77  Identities=22%  Similarity=0.314  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH----hhCCCCChhHHHHH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKE----EYGVMPGEEHYACI  489 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~----~~~~~p~~~~~~~l  489 (640)
                      ++..++..+...|+.+.+.+.++++.... +-+...|..++.+|...|+...|+..|+.+.+    ..|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            34445555555555555555555555531 33445555555555555555555555555443    23555555544443


Q ss_pred             HH
Q 006580          490 ID  491 (640)
Q Consensus       490 ~~  491 (640)
                      ..
T Consensus       234 ~~  235 (280)
T COG3629         234 EE  235 (280)
T ss_pred             HH
Confidence            33

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=88.41  E-value=17  Score=32.05  Aligned_cols=161  Identities=17%  Similarity=0.148  Sum_probs=81.1

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHH
Q 006580          412 LVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDR-ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACII  490 (640)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~  490 (640)
                      +..||-+.--+...|+++.|.+.|+...+.  .|.. .++..-.-++--.|++.-|.+-+...-+.-.-.|-...|-.+ 
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~EL--Dp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl-  175 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYL-  175 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhcc--CCcchHHHhccceeeeecCchHhhHHHHHHHHhcCCCChHHHHHHHH-
Confidence            345666666666777777777777777663  3322 222222223334566776666555444321111111122111 


Q ss_pred             HHHHhcCChHHHHHHH-HhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-------hhHHHHHHHHHHhc
Q 006580          491 DLLCQAGQLGKAIDIT-STMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPS-------PLPYSLLTQAYAMR  562 (640)
Q Consensus       491 ~~~~~~g~~~~A~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~  562 (640)
                        -.+.-++.+|..-+ ++.. ..|..-|..-+-.+.- |+.. .+.+++++.+--.++       ..+|.-|+.-+...
T Consensus       176 --~E~k~dP~~A~tnL~qR~~-~~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~  250 (297)
T COG4785         176 --NEQKLDPKQAKTNLKQRAE-KSDKEQWGWNIVEFYL-GKIS-EETLMERLKADATDNTSLAEHLTETYFYLGKYYLSL  250 (297)
T ss_pred             --HHhhCCHHHHHHHHHHHHH-hccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHhcc
Confidence              12233455554333 3333 3444445443332211 1111 123333333332222       35788889999999


Q ss_pred             CChHHHHHHHHHHHhCCC
Q 006580          563 GRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       563 g~~~~a~~~~~~m~~~~~  580 (640)
                      |+.++|..+|+.....++
T Consensus       251 G~~~~A~~LfKLaiannV  268 (297)
T COG4785         251 GDLDEATALFKLAVANNV  268 (297)
T ss_pred             ccHHHHHHHHHHHHHHhH
Confidence            999999999998877653

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=88.30  E-value=1.1  Score=25.69  Aligned_cols=25  Identities=16%  Similarity=0.255  Sum_probs=12.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          553 SLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       553 ~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      ..++.++.+.|++++|.+.++++.+
T Consensus         4 ~~~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    4 YRLARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHH
Confidence            3444455555555555555555444

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=88.12  E-value=5.4  Score=37.86  Aligned_cols=165  Identities=12%  Similarity=-0.041  Sum_probs=105.7

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHH----HHHHCC-CCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC---hh
Q 006580          413 VSWNTIMMGLTQNGRAAETLDVFE----ELLEEG-LPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG---EE  484 (640)
Q Consensus       413 ~~~~~li~~~~~~g~~~~a~~~~~----~m~~~g-~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~---~~  484 (640)
                      .++..+..+.+..|.+++++..--    -..+.. -..-...|..+.+++.+..++.+++.+-+.-....|..|.   ..
T Consensus        44 ~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq  123 (518)
T KOG1941|consen   44 RVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQ  123 (518)
T ss_pred             HHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccch
Confidence            355666677777888777665322    122110 0011235566666666666666777666554433344341   12


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC------CCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc----CCCCh---
Q 006580          485 HYACIIDLLCQAGQLGKAIDITSTMP------FQP--GCSIWESILRASAIYGDVKLTENVAERMMDL----QLPSP---  549 (640)
Q Consensus       485 ~~~~l~~~~~~~g~~~~A~~~~~~~~------~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~p~~~---  549 (640)
                      ....+..++.-.+.++++++.|+.+.      ..|  ...++-.|...+.+.+|+++|..+..++.++    ..++.   
T Consensus       124 ~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~k  203 (518)
T KOG1941|consen  124 VSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLK  203 (518)
T ss_pred             hhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHH
Confidence            33446667777788999999998865      122  2457888899999999999999999998877    22332   


Q ss_pred             ---hHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          550 ---LPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       550 ---~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                         .....++-++-..|+..+|.+.-++..+
T Consensus       204 yr~~~lyhmaValR~~G~LgdA~e~C~Ea~k  234 (518)
T KOG1941|consen  204 YRAMSLYHMAVALRLLGRLGDAMECCEEAMK  234 (518)
T ss_pred             HHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence               2345677788889999999888777654

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.11  E-value=14  Score=37.85  Aligned_cols=150  Identities=14%  Similarity=0.079  Sum_probs=102.1

Q ss_pred             HhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 006580          392 AKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFS  471 (640)
Q Consensus       392 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~  471 (640)
                      .-.|+++.|..++-.+.++   ..+.++.-+-+.|-.++|+++         .+|..-.   .....+.|+++.|.++..
T Consensus       597 vmrrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~~e~AL~~---------s~D~d~r---Felal~lgrl~iA~~la~  661 (794)
T KOG0276|consen  597 VLRRDLEVADGVLPTIPKE---IRTKVAHFLESQGMKEQALEL---------STDPDQR---FELALKLGRLDIAFDLAV  661 (794)
T ss_pred             hhhccccccccccccCchh---hhhhHHhHhhhccchHhhhhc---------CCChhhh---hhhhhhcCcHHHHHHHHH
Confidence            4467777777776666633   334455556667777776653         3333211   122346788998888766


Q ss_pred             HhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhH
Q 006580          472 AMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLP  551 (640)
Q Consensus       472 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  551 (640)
                      +..       +..-|..|.++....|++..|.+-|.+..      -|..|+-.+...|+.+.-..+.....+.+..|.  
T Consensus       662 e~~-------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~------d~~~LlLl~t~~g~~~~l~~la~~~~~~g~~N~--  726 (794)
T KOG0276|consen  662 EAN-------SEVKWRQLGDAALSAGELPLASECFLRAR------DLGSLLLLYTSSGNAEGLAVLASLAKKQGKNNL--  726 (794)
T ss_pred             hhc-------chHHHHHHHHHHhhcccchhHHHHHHhhc------chhhhhhhhhhcCChhHHHHHHHHHHhhcccch--
Confidence            542       45568999999999999999999988764      356677777778887776677666666666653  


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHH
Q 006580          552 YSLLTQAYAMRGRWEAIVRVKKV  574 (640)
Q Consensus       552 ~~~l~~~~~~~g~~~~a~~~~~~  574 (640)
                         ...+|...|+++++.+++.+
T Consensus       727 ---AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  727 ---AFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             ---HHHHHHHcCCHHHHHHHHHh
Confidence               33467789999999888753

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.98  E-value=17  Score=31.54  Aligned_cols=126  Identities=12%  Similarity=0.102  Sum_probs=72.1

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHH--HHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHH---
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAA--VLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYAC---  488 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~--ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~---  488 (640)
                      .|..++.... .+.+ +.....+++...+-+....++..  +...+...+++++|...++.....    |....+..   
T Consensus        56 ~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~----t~De~lk~l~~  129 (207)
T COG2976          56 QYQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ----TKDENLKALAA  129 (207)
T ss_pred             HHHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc----chhHHHHHHHH
Confidence            3444554433 3333 55556666665421222222322  234567778888888887765532    33333333   


Q ss_pred             --HHHHHHhcCChHHHHHHHHhCCCCCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 006580          489 --IIDLLCQAGQLGKAIDITSTMPFQPG--CSIWESILRASAIYGDVKLTENVAERMMDLQL  546 (640)
Q Consensus       489 --l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  546 (640)
                        |.......|.+++|++.++... .++  ......-...+...|+-++|...|+++++.++
T Consensus       130 lRLArvq~q~~k~D~AL~~L~t~~-~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~  190 (207)
T COG2976         130 LRLARVQLQQKKADAALKTLDTIK-EESWAAIVAELRGDILLAKGDKQEARAAYEKALESDA  190 (207)
T ss_pred             HHHHHHHHHhhhHHHHHHHHhccc-cccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccC
Confidence              3455667788888888887765 222  22233445667777888888888888877763

>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=87.98  E-value=0.83  Score=24.69  Aligned_cols=24  Identities=17%  Similarity=0.134  Sum_probs=17.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHH
Q 006580          550 LPYSLLTQAYAMRGRWEAIVRVKK  573 (640)
Q Consensus       550 ~~~~~l~~~~~~~g~~~~a~~~~~  573 (640)
                      .....++.++...|++++|..+++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHh
Confidence            345677778888888888877765

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

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.82  E-value=2.4  Score=39.24  Aligned_cols=99  Identities=13%  Similarity=0.168  Sum_probs=65.1

Q ss_pred             CCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC-CC------ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH
Q 006580          376 GFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD-KR------DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI  448 (640)
Q Consensus       376 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  448 (640)
                      |.+....+...++..-....+++++...+-++. .|      +...+ +.++.+ -.=++++++.++..=+.-|+-||..
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irll-lky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHH-HccChHHHHHHHhCcchhccccchh
Confidence            334444444555555555666777777666665 22      21111 122222 2336778888888888889999999


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHh
Q 006580          449 TLAAVLLACNYGGFVDKGMLVFSAMKEE  476 (640)
Q Consensus       449 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~  476 (640)
                      ++..+++.+.+.+++..|.++.-.|...
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            9999999999999999888887777654

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.55  E-value=43  Score=35.72  Aligned_cols=31  Identities=19%  Similarity=0.447  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHhCCCCCh
Q 006580          382 VVASSLMEMYAKTGSIDSSTEIFVKLDKRDL  412 (640)
Q Consensus       382 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  412 (640)
                      .+...|+..|...+++.+|..++-...++++
T Consensus       506 ~L~e~La~LYl~d~~Y~~Al~~ylklk~~~v  536 (846)
T KOG2066|consen  506 ALLEVLAHLYLYDNKYEKALPIYLKLQDKDV  536 (846)
T ss_pred             hHHHHHHHHHHHccChHHHHHHHHhccChHH
Confidence            3445588999999999999999988886544

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=87.28  E-value=0.92  Score=25.98  Aligned_cols=31  Identities=16%  Similarity=0.086  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 006580          518 WESILRASAIYGDVKLTENVAERMMDLQLPS  548 (640)
Q Consensus       518 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  548 (640)
                      +-.+...+.+.|++++|.+.++++++..|++
T Consensus         3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~P~s   33 (33)
T PF13174_consen    3 LYRLARCYYKLGDYDEAIEYFQRLIKRYPDS   33 (33)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCcCC
Confidence            4456778888999999999999999998864

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=86.72  E-value=6.9  Score=32.16  Aligned_cols=76  Identities=12%  Similarity=0.068  Sum_probs=45.4

Q ss_pred             HHHHHHHHHH---HhccCCHHHHHHHHHHhHHhhCCCCCh---hHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCHHHHH
Q 006580          447 RITLAAVLLA---CNYGGFVDKGMLVFSAMKEEYGVMPGE---EHYACIIDLLCQAGQLGKAIDITSTMP-FQPGCSIWE  519 (640)
Q Consensus       447 ~~~~~~ll~~---~~~~~~~~~A~~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~  519 (640)
                      ....+.|+..   -...++.+++..+++.|.-   +.|+.   .++..  ..+...|++.+|..+|++.. ..+....-.
T Consensus         7 ~~iv~gLi~~~~~aL~~~d~~D~e~lLdALrv---LrP~~~e~d~~dg--~l~i~rg~w~eA~rvlr~l~~~~~~~p~~k   81 (153)
T TIGR02561         7 NRLLGGLIEVLMYALRSADPYDAQAMLDALRV---LRPNLKELDMFDG--WLLIARGNYDEAARILRELLSSAGAPPYGK   81 (153)
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---hCCCccccchhHH--HHHHHcCCHHHHHHHHHhhhccCCCchHHH
Confidence            3444444443   3457788888888888764   34443   33333  34567888888888888887 333444444


Q ss_pred             HHHHHHHH
Q 006580          520 SILRASAI  527 (640)
Q Consensus       520 ~l~~~~~~  527 (640)
                      .|...|..
T Consensus        82 AL~A~CL~   89 (153)
T TIGR02561        82 ALLALCLN   89 (153)
T ss_pred             HHHHHHHH
Confidence            55555544

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=86.43  E-value=43  Score=34.56  Aligned_cols=127  Identities=12%  Similarity=0.118  Sum_probs=86.3

Q ss_pred             ChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCC---CChhhHHHHHHH
Q 006580           14 SLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ---KNCISWNICLRG   90 (640)
Q Consensus        14 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~   90 (640)
                      +...+..|+.---....++.+..+++.++..- |.--..|......=.+.|..+.+..+|++-.+   .++..|...+..
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~ky-Pl~~gyW~kfA~~E~klg~~~~s~~Vfergv~aip~SvdlW~~Y~~f  122 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSKY-PLCYGYWKKFADYEYKLGNAENSVKVFERGVQAIPLSVDLWLSYLAF  122 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhhC-ccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            33445566666555666677777777777542 22223345555555677999999999998765   344455555554


Q ss_pred             Hh-cCCChhHHHHHhccCCC------CCcchHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 006580           91 LL-KSDNLDTALKVFDEIPE------PDVVSWNSMISGYASCGYSDYALEMFSKMQLQ  141 (640)
Q Consensus        91 ~~-~~~~~~~A~~~~~~~~~------~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~  141 (640)
                      ++ ..|+.+...+.|+....      .+...|...|..-..++++.....+|++.++.
T Consensus       123 ~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei  180 (577)
T KOG1258|consen  123 LKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI  180 (577)
T ss_pred             HhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh
Confidence            43 45677777777877653      45567888888888889999999999999875

>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=86.38  E-value=1.9  Score=24.89  Aligned_cols=29  Identities=17%  Similarity=0.167  Sum_probs=25.9

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          550 LPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       550 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      .+|..++.+|...|++++|.+.+++..+.
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~   30 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            46889999999999999999999988764

...

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=86.31  E-value=1.4  Score=43.48  Aligned_cols=87  Identities=15%  Similarity=0.121  Sum_probs=68.2

Q ss_pred             HHHHhcCChHHHHHHHHhCC-CCCCHHHHHHH-HHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHH
Q 006580          491 DLLCQAGQLGKAIDITSTMP-FQPGCSIWESI-LRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAI  568 (640)
Q Consensus       491 ~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  568 (640)
                      +-+...+.++.|..++.++. ..|+...|-+. ..++.+.+++..|+.=+.++++.+|.....|..=+.++.+.+++.+|
T Consensus        12 n~~l~~~~fd~avdlysKaI~ldpnca~~~anRa~a~lK~e~~~~Al~Da~kaie~dP~~~K~Y~rrg~a~m~l~~~~~A   91 (476)
T KOG0376|consen   12 NEALKDKVFDVAVDLYSKAIELDPNCAIYFANRALAHLKVESFGGALHDALKAIELDPTYIKAYVRRGTAVMALGEFKKA   91 (476)
T ss_pred             hhhcccchHHHHHHHHHHHHhcCCcceeeechhhhhheeechhhhHHHHHHhhhhcCchhhheeeeccHHHHhHHHHHHH
Confidence            33456677788888887776 67755544333 37788889999999999999999998888898888899999999999


Q ss_pred             HHHHHHHHh
Q 006580          569 VRVKKVMRK  577 (640)
Q Consensus       569 ~~~~~~m~~  577 (640)
                      ...|+....
T Consensus        92 ~~~l~~~~~  100 (476)
T KOG0376|consen   92 LLDLEKVKK  100 (476)
T ss_pred             HHHHHHhhh
Confidence            998886655

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.62  E-value=26  Score=31.36  Aligned_cols=57  Identities=9%  Similarity=-0.016  Sum_probs=31.1

Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCCCChhH-------HHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          523 RASAIYGDVKLTENVAERMMDLQLPSPLP-------YSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       523 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~-------~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ..-...+++.+|..+|+++.....+|+..       +..-+-++.-.++.-.+...+++..+..
T Consensus       162 ~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~~d  225 (288)
T KOG1586|consen  162 QYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQELD  225 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHhcC
Confidence            33345677888888888877665544322       2222223333355555666666555543

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=84.85  E-value=23  Score=30.04  Aligned_cols=129  Identities=15%  Similarity=0.172  Sum_probs=82.4

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChh-HHHHH--
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI-TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEE-HYACI--  489 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~-~~~~l--  489 (640)
                      .|..-++ +.+.++.++|+.-|..+.+.|...=+. ............|+...|...|+++-.. .-.|-.. -...|  
T Consensus        61 ~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~d-t~~P~~~rd~ARlra  138 (221)
T COG4649          61 AFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAAD-TSIPQIGRDLARLRA  138 (221)
T ss_pred             HHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhcc-CCCcchhhHHHHHHH
Confidence            3444333 456778888999998888876443222 2222333456788888999999988765 3333222 11222  


Q ss_pred             HHHHHhcCChHHHHHHHHhCC--CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          490 IDLLCQAGQLGKAIDITSTMP--FQP-GCSIWESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       490 ~~~~~~~g~~~~A~~~~~~~~--~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                      .-++...|.+++....++-+.  ..| ....-..|.-+-.+.|++..|...|+++...
T Consensus       139 a~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         139 AYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            223567788888877777665  222 3455667777778889999999998888763

>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=84.69  E-value=36  Score=32.15  Aligned_cols=18  Identities=6%  Similarity=-0.210  Sum_probs=12.3

Q ss_pred             HHHcCChHHHHHHHHHHH
Q 006580          525 SAIYGDVKLTENVAERMM  542 (640)
Q Consensus       525 ~~~~~~~~~a~~~~~~~~  542 (640)
                      +.+.++++.|.+.|+-.+
T Consensus       256 ~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHhhcCHHHHHHHHHHHH
Confidence            345678888888877544

It is also involved in sporulation [].

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=84.55  E-value=2.9  Score=37.16  Aligned_cols=85  Identities=11%  Similarity=-0.020  Sum_probs=43.3

Q ss_pred             HhccCCHHHHHHHHHHhHHhhCCCCChhH-HHHHHHHHHhcCChHHHHHHHHhCC-CCCCHH-HHHHHHHHHHHcCChHH
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYGVMPGEEH-YACIIDLLCQAGQLGKAIDITSTMP-FQPGCS-IWESILRASAIYGDVKL  533 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~~~p~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~-~~~~l~~~~~~~~~~~~  533 (640)
                      |.....++.|+..|.+..   -+.|+..+ |..-+..+.+..+++.+..--.+.. +.|+.. ..-.+.........++.
T Consensus        20 ~f~~k~y~~ai~~y~raI---~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~e   96 (284)
T KOG4642|consen   20 CFIPKRYDDAIDCYSRAI---CINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDE   96 (284)
T ss_pred             ccchhhhchHHHHHHHHH---hcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccH
Confidence            444455666666555444   34555533 3344445555566665555444443 444433 33333444445556666


Q ss_pred             HHHHHHHHHhc
Q 006580          534 TENVAERMMDL  544 (640)
Q Consensus       534 a~~~~~~~~~~  544 (640)
                      |+..+.++..+
T Consensus        97 aI~~Lqra~sl  107 (284)
T KOG4642|consen   97 AIKVLQRAYSL  107 (284)
T ss_pred             HHHHHHHHHHH
Confidence            66666666444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=84.04  E-value=40  Score=32.12  Aligned_cols=24  Identities=17%  Similarity=0.457  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHHCCCCCChhhHHH
Q 006580          129 DYALEMFSKMQLQGVRPSGFTFSI  152 (640)
Q Consensus       129 ~~a~~~~~~m~~~g~~p~~~t~~~  152 (640)
                      +..+.+++.|.+.|++-+..+|.+
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~la  102 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLA  102 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHH
Confidence            455667777777777776666644

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.90  E-value=12  Score=38.33  Aligned_cols=101  Identities=20%  Similarity=0.206  Sum_probs=71.9

Q ss_pred             hhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHH
Q 006580          190 YGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVF  269 (640)
Q Consensus       190 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~  269 (640)
                      ..+.|+++.|.++..+..  +..-|..|.++..+.+++..|.+.|....+         |..|+-.+...|+-+....+-
T Consensus       647 al~lgrl~iA~~la~e~~--s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la  715 (794)
T KOG0276|consen  647 ALKLGRLDIAFDLAVEAN--SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLA  715 (794)
T ss_pred             hhhcCcHHHHHHHHHhhc--chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHH
Confidence            345677888887765543  556788999999999999999999887765         556777777888877777777


Q ss_pred             HHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhc
Q 006580          270 ALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQL  307 (640)
Q Consensus       270 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  307 (640)
                      ....+.|.      .|.-..+|...|+++++.+++.+-
T Consensus       716 ~~~~~~g~------~N~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  716 SLAKKQGK------NNLAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             HHHHhhcc------cchHHHHHHHcCCHHHHHHHHHhc
Confidence            76666663      222333566677888777776554

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=83.34  E-value=5.9  Score=30.00  Aligned_cols=60  Identities=22%  Similarity=0.329  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHH
Q 006580          430 ETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIID  491 (640)
Q Consensus       430 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  491 (640)
                      +..+-++.+....+.|++......+++|-+.+++..|+++|+.++.+-+  +....|..+++
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            4555566666677889999889999999999999999999998877533  33336666654

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 ....

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=83.25  E-value=62  Score=34.25  Aligned_cols=151  Identities=13%  Similarity=0.117  Sum_probs=66.8

Q ss_pred             hCCChHHHHHHHHHHHH-------CCCCCCHHHHHHHHHHHhcc----C-CHHHHHHHHHHhHHhhCCCCChhHHHHHHH
Q 006580          424 QNGRAAETLDVFEELLE-------EGLPPDRITLAAVLLACNYG----G-FVDKGMLVFSAMKEEYGVMPGEEHYACIID  491 (640)
Q Consensus       424 ~~g~~~~a~~~~~~m~~-------~g~~p~~~~~~~ll~~~~~~----~-~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  491 (640)
                      ...+.+.|+.+|+.+.+       .|.++   ....+..+|.+.    . +.+.|..++....+. | .|+....-..+.
T Consensus       261 ~~~d~e~a~~~l~~aa~~~~~~a~~~~~~---a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~-g-~~~a~~~lg~~~  335 (552)
T KOG1550|consen  261 VTQDLESAIEYLKLAAESFKKAATKGLPP---AQYGLGRLYLQGLGVEKIDYEKALKLYTKAAEL-G-NPDAQYLLGVLY  335 (552)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHhhcCCc---cccHHHHHHhcCCCCccccHHHHHHHHHHHHhc-C-CchHHHHHHHHH
Confidence            34455555555555544       33111   233334444432    1 455566666655443 2 222222211111


Q ss_pred             HHHh-cCChHHHHHHHHhCCCCCCHHHHHHHHHHH--H--HcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChH
Q 006580          492 LLCQ-AGQLGKAIDITSTMPFQPGCSIWESILRAS--A--IYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWE  566 (640)
Q Consensus       492 ~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~--~--~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  566 (640)
                      .... -.+...|.++|..+...-+...+-.+...|  .  ...+.+.|..+++++.+.+++....-......+.. ++++
T Consensus       336 ~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g~~~A~~~~~~~~~~g~-~~~~  414 (552)
T KOG1550|consen  336 ETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAYYKKAAEKGNPSAAYLLGAFYEYGV-GRYD  414 (552)
T ss_pred             HcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHccChhhHHHHHHHHHHcc-cccc
Confidence            1111 134556666666654222222222222111  1  23467777777777777763322222222222233 6666


Q ss_pred             HHHHHHHHHHhCCC
Q 006580          567 AIVRVKKVMRKNGI  580 (640)
Q Consensus       567 ~a~~~~~~m~~~~~  580 (640)
                      .+.-.+..+.+.|.
T Consensus       415 ~~~~~~~~~a~~g~  428 (552)
T KOG1550|consen  415 TALALYLYLAELGY  428 (552)
T ss_pred             HHHHHHHHHHHhhh
Confidence            66666666655554

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=82.98  E-value=18  Score=27.36  Aligned_cols=86  Identities=12%  Similarity=0.051  Sum_probs=54.2

Q ss_pred             chHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhC
Q 006580          262 LDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLRE  341 (640)
Q Consensus       262 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  341 (640)
                      -++|..+-+.+...+-. ...+-..-+..+...|++++|..+.+.+.-||...|-+|..  .+.|..+++..-+.+|..+
T Consensus        21 HqEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~s   97 (115)
T TIGR02508        21 HQEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAAS   97 (115)
T ss_pred             HHHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHhC
Confidence            34444444444433311 22333334456778899999999998888889888887754  3566667777777777766


Q ss_pred             CCCCChhhHH
Q 006580          342 DIRPTEFTLS  351 (640)
Q Consensus       342 ~~~p~~~t~~  351 (640)
                      | .|....|.
T Consensus        98 g-~p~lq~Fa  106 (115)
T TIGR02508        98 G-DPRLQTFV  106 (115)
T ss_pred             C-CHHHHHHH
Confidence            5 45444443

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.

>smart00028 TPR Tetratricopeptide repeats

Probab=82.68  E-value=2.5  Score=23.34  Aligned_cols=25  Identities=16%  Similarity=0.162  Sum_probs=11.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          552 YSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       552 ~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                      |..++..+...|++++|...++...
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~   28 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKAL   28 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3444444444444444444444433

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.

>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=82.33  E-value=4.3  Score=26.67  Aligned_cols=35  Identities=6%  Similarity=0.095  Sum_probs=27.1

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHH
Q 006580          519 ESILRASAIYGDVKLTENVAERMMDLQLPSPLPYS  553 (640)
Q Consensus       519 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  553 (640)
                      -.+.-++.+.|+++.|.+..+.+++.+|.|..+-.
T Consensus         5 Y~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa~~   39 (53)
T PF14853_consen    5 YYLAIGHYKLGEYEKARRYCDALLEIEPDNRQAQS   39 (53)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHHHH
Confidence            34566788999999999999999999999865533

>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=82.10  E-value=5  Score=34.17  Aligned_cols=33  Identities=12%  Similarity=0.041  Sum_probs=20.2

Q ss_pred             hHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcC
Q 006580          531 VKLTENVAERMMDLQLPSPLPYSLLTQAYAMRG  563 (640)
Q Consensus       531 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  563 (640)
                      +++|+.-+++++.++|+...++..++.+|...+
T Consensus        51 iedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A   83 (186)
T PF06552_consen   51 IEDAISKFEEALKINPNKHDALWCLGNAYTSLA   83 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHH
Confidence            345566666666667777777777777776554

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.

>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=81.58  E-value=1.1  Score=37.30  Aligned_cols=85  Identities=15%  Similarity=0.164  Sum_probs=51.3

Q ss_pred             HHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHH
Q 006580          252 VINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVA  331 (640)
Q Consensus       252 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  331 (640)
                      ++..+.+.+.+.....+++.+...+...+....+.++..|++.+..++..++++....   .-...++..|.+.|.++++
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHHH
Confidence            3455556666666666777776665555667777777777777666666666663222   2334455666666666666


Q ss_pred             HHHHHHHh
Q 006580          332 LELFQLML  339 (640)
Q Consensus       332 ~~~~~~m~  339 (640)
                      ..++.++.
T Consensus        90 ~~Ly~~~~   97 (143)
T PF00637_consen   90 VYLYSKLG   97 (143)
T ss_dssp             HHHHHCCT
T ss_pred             HHHHHHcc
Confidence            66666543

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=81.55  E-value=6.3  Score=34.65  Aligned_cols=72  Identities=15%  Similarity=0.111  Sum_probs=54.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCh---hHHHHHHH
Q 006580          486 YACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSP---LPYSLLTQ  557 (640)
Q Consensus       486 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~  557 (640)
                      ...-+..+.+.+.+.+|+...+.-. .+| |...-..++..++-.|++++|..-++-+-++.|...   ..|..++.
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir   80 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIR   80 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            3444667788889999998877654 566 677788899999999999999999999988888543   34555543

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=81.48  E-value=82  Score=33.87  Aligned_cols=47  Identities=21%  Similarity=0.180  Sum_probs=30.8

Q ss_pred             CcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh
Q 006580          111 DVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS  158 (640)
Q Consensus       111 ~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~  158 (640)
                      +...--.+|--|.|.|++++|.++..+.... .......|...+..+.
T Consensus       110 ~~~p~Wa~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~  156 (613)
T PF04097_consen  110 NGDPIWALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYA  156 (613)
T ss_dssp             TTEEHHHHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCT
T ss_pred             CCCccHHHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHH
Confidence            4555667888899999999999999666543 3444445555555443

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.

>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=81.15  E-value=59  Score=32.06  Aligned_cols=64  Identities=11%  Similarity=0.173  Sum_probs=50.9

Q ss_pred             CHHHHHHH---HHHHHHcCChHHHHHHHHHHHhcCCC-ChhHHHHHHHHHH-hcCChHHHHHHHHHHHh
Q 006580          514 GCSIWESI---LRASAIYGDVKLTENVAERMMDLQLP-SPLPYSLLTQAYA-MRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       514 ~~~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~-~~g~~~~a~~~~~~m~~  577 (640)
                      |...|.++   +..+.+.|-+.-|.++.+-+..++|. ||..-...++.|+ ++++++--+++.+....
T Consensus        99 NR~fflal~r~i~~L~~RG~~rTAlE~~KlLlsLdp~~DP~g~ll~ID~~ALrs~~y~~Li~~~~~~~~  167 (360)
T PF04910_consen   99 NRQFFLALFRYIQSLGRRGCWRTALEWCKLLLSLDPDEDPLGVLLFIDYYALRSRQYQWLIDFSESPLA  167 (360)
T ss_pred             chHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCCcchhHHHHHHHHHhcCCHHHHHHHHHhHhh
Confidence            44444443   56677889999999999999999997 8888788888775 78899888888887665

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 [].

>PRK12798 chemotaxis protein; Reviewed

Probab=80.81  E-value=62  Score=32.04  Aligned_cols=150  Identities=19%  Similarity=0.258  Sum_probs=101.2

Q ss_pred             cCChHHHHHHHHhCCC----CChhHHHHHHHH-HHhCCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHhccCCHH
Q 006580          394 TGSIDSSTEIFVKLDK----RDLVSWNTIMMG-LTQNGRAAETLDVFEELLEEGLPPDR----ITLAAVLLACNYGGFVD  464 (640)
Q Consensus       394 ~g~~~~A~~~~~~~~~----~~~~~~~~li~~-~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~  464 (640)
                      .|+.+++.+.|..+..    +....|-.|+.+ .....++..|+++|+...-  .-|-.    .....-+-.....|+.+
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            6888888888888872    355567677665 3445689999999998876  34443    23444445567889999


Q ss_pred             HHHHHHHHhHHhhCCCCChhHHHH-HHHHHHhc---CChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 006580          465 KGMLVFSAMKEEYGVMPGEEHYAC-IIDLLCQA---GQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAER  540 (640)
Q Consensus       465 ~A~~~~~~~~~~~~~~p~~~~~~~-l~~~~~~~---g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  540 (640)
                      ++..+-.....+|...|-...|.. +..++.+.   -..+.-..++..|.-.--...|..+...-...|+.+.|.-..++
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            988887777776666665444333 23333333   23455555666654111355788888888899999999999999


Q ss_pred             HHhcC
Q 006580          541 MMDLQ  545 (640)
Q Consensus       541 ~~~~~  545 (640)
                      +..+.
T Consensus       283 A~~L~  287 (421)
T PRK12798        283 ALKLA  287 (421)
T ss_pred             HHHhc
Confidence            99884

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=80.55  E-value=5.1  Score=40.59  Aligned_cols=99  Identities=11%  Similarity=-0.006  Sum_probs=75.0

Q ss_pred             ccCCHHHHHHHHHHhHHhhCCCCC--hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHH
Q 006580          459 YGGFVDKGMLVFSAMKEEYGVMPG--EEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLT  534 (640)
Q Consensus       459 ~~~~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a  534 (640)
                      ..|+...|...+....   ...|-  ......|.+.+.+.|-...|-.++....  ..-.+-++-.+..++....+.+.|
T Consensus       619 ~~gn~~~a~~cl~~a~---~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~~sepl~~~~~g~~~l~l~~i~~a  695 (886)
T KOG4507|consen  619 AVGNSTFAIACLQRAL---NLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAINSSEPLTFLSLGNAYLALKNISGA  695 (886)
T ss_pred             ecCCcHHHHHHHHHHh---ccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhcccCchHHHhcchhHHHHhhhHHH
Confidence            4688888888887665   33443  2345566777778888888888877665  333456777888899999999999


Q ss_pred             HHHHHHHHhcCCCChhHHHHHHHHHH
Q 006580          535 ENVAERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       535 ~~~~~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      ++.++++.+++|+++.+-+.|..+-+
T Consensus       696 ~~~~~~a~~~~~~~~~~~~~l~~i~c  721 (886)
T KOG4507|consen  696 LEAFRQALKLTTKCPECENSLKLIRC  721 (886)
T ss_pred             HHHHHHHHhcCCCChhhHHHHHHHHH
Confidence            99999999999999998888766555

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=80.13  E-value=14  Score=27.68  Aligned_cols=45  Identities=22%  Similarity=0.234  Sum_probs=33.3

Q ss_pred             CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHH
Q 006580          511 FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLL  555 (640)
Q Consensus       511 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  555 (640)
                      .-|++.+..+.+.+|++.+|+..|.++++-+......+...|..+
T Consensus        38 lVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~~~~~y~~~   82 (103)
T cd00923          38 LVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGAHKEIYPYI   82 (103)
T ss_pred             cCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCchhhHHHH
Confidence            678888888888888888888888888887775544344455544

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.

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=80.11  E-value=29  Score=32.37  Aligned_cols=64  Identities=17%  Similarity=0.099  Sum_probs=33.7

Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-CC-CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          513 PGCSIWESILRASAIYGDVKLTENVAERMMDL-QL-PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       513 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      ++..+....+..++..+++.+-.++++..... .| .|...|..++....+.|+.    .+.+++...|.
T Consensus       200 l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~----~~~~kiI~~Gh  265 (292)
T PF13929_consen  200 LTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQ----EVMRKIIDDGH  265 (292)
T ss_pred             CChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCH----HHHHHHhhCCC
Confidence            34444444445555555555555555554444 22 4556666666666666664    34455555663

---

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	640
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-05
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-05

>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 = 64.9 bits (157), Expect = 6e-11
 Identities = 68/475 (14%), Positives = 134/475 (28%), Gaps = 160/475 (33%)

Query: 38  HGHL-FKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDE--IPQKNCISWNICLRGLLKS 94
           H H+ F+ G + + Y                D+L +F++  +   +C       + +L  
Sbjct: 4   HHHMDFETGEHQYQY---------------KDILSVFEDAFVDNFDCKDVQDMPKSILSK 48

Query: 95  DNLDTALKVFDEIPEPDVVSWNSMISGYASCGYS---------DYALEMFSKMQLQGVRP 145
           + +D  +   D +     + W   +                  +Y   + S ++ +  +P
Sbjct: 49  EEIDHIIMSKDAVSGTLRLFW--TLLSKQEEMVQKFVEEVLRINYKF-LMSPIKTEQRQP 105

Query: 146 SGFTFSILLSTVSSACHGKQIHGSM----------IRSGL----SLSNVVLGNSLIDMYG 191
           S  T  + +       +  Q+              +R  L       NV++        G
Sbjct: 106 SMMT-RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI-------DG 157

Query: 192 KLG----VL------------YYAFGVF-LNM-----EELDIISWNSLISGCFNSGYGEL 229
            LG     +               F +F LN+      E  +     L    +       
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL---LYQ------ 208

Query: 230 ALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNS-IVL---- 284
            +D  ++ R    S  +  I  +     +LR L K K             N  +VL    
Sbjct: 209 -IDPNWTSRSDHSSNIKLRIHSIQA---ELRRLLKSKP----------YENCLLVLLNVQ 254

Query: 285 -SATIDLFS-KCNRLEDSVRLFEQLDRWDYAVINVMISTYGRY--------GFGEV-ALE 333
            +   + F+  C  L  + R           V + + +    +                 
Sbjct: 255 NAKAWNAFNLSCKILLTT-R--------FKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305

Query: 334 LFQLMLREDIR--PTE------FTLSCV---------------------LSSI------P 358
           L    L    +  P E        LS +                     L++I       
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV 365

Query: 359 IPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLV 413
           + P E+   F  +++   F  +A + + L+ +            +  KL K  LV
Sbjct: 366 LEPAEYRKMFDRLSV---FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV 417

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 49.9 bits (118), Expect = 2e-06
 Identities = 63/451 (13%), Positives = 123/451 (27%), Gaps = 126/451 (27%)

Query: 5   LKKAHVNKASLSYCSQLIDRCLSFKSFDFAKTIHG----------------HLFKLGFNA 48
             K +V++       +L    L  +       I G                +  +   + 
Sbjct: 126 FAKYNVSRLQPY--LKLRQALLELRPAKNV-LIDGVLGSGKTWVALDVCLSYKVQCKMDF 182

Query: 49  HTY---LGNRC---------LDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDN 96
             +   L N             L  +   +           +    S    LR LLKS  
Sbjct: 183 KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP 242

Query: 97  LDTALKVFDEIPEPDVVSWNS--------MISGYASCGYSDYALEMFSKMQLQGVRPSGF 148
            +  L V   +       WN+        + + +     +D+     +            
Sbjct: 243 YENCLLVLLNVQNAKA--WNAFNLSCKILLTTRFKQV--TDFLSAATTTHISLDHHSMTL 298

Query: 149 T----FSILLSTVS--------SACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGV- 195
           T     S+LL  +                   S+I    S+ +   G +  D +  +   
Sbjct: 299 TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSII--AESIRD---GLATWDNWKHVNCD 353

Query: 196 --------------------LYYAFGVFLNMEELDI------ISWNSLISGCFNSGYGEL 229
                               ++    VF       I      + W  +I          +
Sbjct: 354 KLTTIIESSLNVLEPAEYRKMFDRLSVF--PPSAHIPTILLSLIWFDVIKSDV-----MV 406

Query: 230 ALDQFYSMRYSGYS-----PDEYTISI---VINACTKLRNLDK--GKQVFALSVKVGFLS 279
            +++ +      YS     P E TISI    +    KL N        V   ++   F S
Sbjct: 407 VVNKLHK-----YSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDS 461

Query: 280 NSIVLSATID--LFS------KCNRLEDSVRLFEQ--LD-RW-DYAVINVMISTYGRYGF 327
           + ++    +D   +S      K     + + LF    LD R+ +  + +    +      
Sbjct: 462 DDLIPP-YLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRH---DSTAWNAS 517

Query: 328 GEVALELFQLMLRED-IRPTEFTLSCVLSSI 357
           G +   L QL   +  I   +     ++++I
Sbjct: 518 GSILNTLQQLKFYKPYICDNDPKYERLVNAI 548

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 57.9 bits (138), Expect = 7e-09
 Identities = 37/251 (14%), Positives = 72/251 (28%), Gaps = 11/251 (4%)

Query: 331 ALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLME 389
           A  L     +    P E  L+ +L   P    ++          ++          +  +
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 390 MYAKTGSIDSSTEIFVKLDKR-------DLVSWNTIMMGLTQNGRAAETLDVFEELLEEG 442
               T  +  +  + V    +        L  +N +M+G  + G   E + V   + + G
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG 195

Query: 443 LPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKA 502
           L PD ++ AA L            +        + G+       A ++    +A  L   
Sbjct: 196 LTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV 255

Query: 503 IDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMR 562
             +  T    P        +  S +  DV   +              L      Q +   
Sbjct: 256 HKVKPTFSLPPQL---PPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMEL 312

Query: 563 GRWEAIVRVKK 573
                +V V+K
Sbjct: 313 ASRVCVVSVEK 323

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 50.2 bits (118), Expect = 2e-06
 Identities = 14/91 (15%), Positives = 32/91 (35%), Gaps = 12/91 (13%)

Query: 82  ISWNICLRGLLKSDNLDTALKVFDEI-------PEPDVVSWNSMISGYASCGYSDYALEM 134
                  +  L +D L  A  +               +  +N+++ G+A  G     + +
Sbjct: 128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYV 187

Query: 135 FSKMQLQGVRPSGFTFSILLSTVSSACHGKQ 165
              ++  G+ P   +++  L      C G+Q
Sbjct: 188 LFMVKDAGLTPDLLSYAAAL-----QCMGRQ 213

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 47.9 bits (112), Expect = 1e-05
 Identities = 16/133 (12%), Positives = 40/133 (30%), Gaps = 7/133 (5%)

Query: 229 LALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATI 288
           +A       R +  SP E  ++ ++       +LD  +       +         L A  
Sbjct: 75  MAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFF 134

Query: 289 DLFSKCNRLEDSVRLFEQLDR-------WDYAVINVMISTYGRYGFGEVALELFQLMLRE 341
                 ++L  +  L                 + N ++  + R G  +  + +  ++   
Sbjct: 135 KCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDA 194

Query: 342 DIRPTEFTLSCVL 354
            + P   + +  L
Sbjct: 195 GLTPDLLSYAAAL 207

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 44.8 bits (104), Expect = 8e-05
 Identities = 12/96 (12%), Positives = 33/96 (34%), Gaps = 8/96 (8%)

Query: 170 MIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEE-------LDIISWNSLISGCF 222
             ++ LS     L  +          L  A  + +           L +  +N+++ G  
Sbjct: 118 HSQAQLSGQQQRL-LAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWA 176

Query: 223 NSGYGELALDQFYSMRYSGYSPDEYTISIVINACTK 258
             G  +  +   + ++ +G +PD  + +  +    +
Sbjct: 177 RQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGR 212

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	640
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	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.91
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.9
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.89
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.89
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.85
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.84
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.84
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.83
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.8
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.8
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.8
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.78
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.78
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.76
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.76
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.76
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.74
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.73
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.73
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.73
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.73
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.73
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.72
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.72
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.66
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.66
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.65
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.65
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.63
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.61
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.6
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.57
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.56
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.56
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.56
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.55
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.54
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.53
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.52
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.52
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.52
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.5
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.49
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.49
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.49
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.47
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.46
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.45
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.45
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.44
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.44
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.44
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.41
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.4
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.39
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.39
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.38
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.38
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.36
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.36
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.36
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.35
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.34
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.34
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.32
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.32
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.3
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.27
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.26
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.25
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.23
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.21
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.2
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.18
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.15
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.15
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.1
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.08
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.08
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.06
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.05
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.04
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.03
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.02
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.01
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.01
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.0
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.0
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.97
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.97
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.96
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.94
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.93
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.92
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.9
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.89
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.87
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.86
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.84
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.84
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.83
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.83
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.82
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.8
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.79
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.77
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.77
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.76
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.75
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.75
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.74
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.73
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.72
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.7
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.7
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.69
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.68
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.68
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.67
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.67
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.66
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.66
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.64
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.63
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.62
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.62
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.61
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.59
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.57
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.56
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.54
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.54
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.54
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.53
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.52
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.52
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.51
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.51
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.51
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.49
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.49
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.48
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.46
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.45
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.44
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.43
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.42
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.41
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.41
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.41
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.4
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.39
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.39
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.36
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.33
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.32
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.32
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.31
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.3
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.29
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.29
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.27
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.26
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.25
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.22
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.22
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.21
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.21
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.2
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.2
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.19
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.19
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.18
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.16
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.13
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.13
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.11
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.1
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.07
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.05
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.04
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.03
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.01
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.01
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.01
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.0
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.99
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.98
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.97
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.94
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.92
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.9
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.81
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.81
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.75
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.75
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.68
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.62
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.61
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.59
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.55
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.45
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.44
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	97.42
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.41
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.35
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.27
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.15
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.15
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.1
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.05
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.94
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.93
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.83
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.82
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.69
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.55
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	96.51
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.48
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.35
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.06
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.03
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	95.95
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.78
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.59
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.51
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.44
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	95.01
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.99
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	94.92
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.42
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.2
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	93.86
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	93.82
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	93.07
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	93.0
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	92.43
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	92.27
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	91.67
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.18
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.04
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	88.76
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	88.76
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	88.62
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	87.56
2p58_C	116	Putative type III secretion protein YSCG; type III	87.26
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	87.04
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	86.4
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	86.38
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	85.86
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	85.51
2p58_C	116	Putative type III secretion protein YSCG; type III	85.02
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	84.11
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	83.59
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	83.32
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	82.92
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	82.79
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	82.72
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	81.57
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	81.24
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	81.23
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	80.7

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.2e-40  Score=355.32  Aligned_cols=478  Identities=8%  Similarity=-0.069  Sum_probs=392.7

Q ss_pred             HHccCCchHHHHHHhcCCCCChhhHHHHHHHHhcCCChhHHHHHhccCC--CCCcchHHHHHHHHHhCCChHHHHHHHHH
Q 006580           60 YSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIP--EPDVVSWNSMISGYASCGYSDYALEMFSK  137 (640)
Q Consensus        60 ~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~--~~~~~~y~~li~~~~~~~~~~~a~~~~~~  137 (640)
                      +.+.|....+...++.++.+++..|+.++..+.+.|++++|..+|+++.  .|+..++..++.+|.+.|++++|+.+|++
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            4556677777777887777788888888888888888888888888876  37777888888888888888888888887


Q ss_pred             HHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCC--------
Q 006580          138 MQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEEL--------  209 (640)
Q Consensus       138 m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--------  209 (640)
                      +..                                   .+++..+++.++.+|.+.|++++|.++|+++...        
T Consensus       143 ~~~-----------------------------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  187 (597)
T 2xpi_A          143 EDL-----------------------------------YNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNAN  187 (597)
T ss_dssp             TCG-----------------------------------GGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC-------
T ss_pred             Hhc-----------------------------------cccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccc
Confidence            754                                   4557788899999999999999999999965433        


Q ss_pred             -----------CeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcc-hHHHHHHHHhccCCchHH--HHH-HHHHHH
Q 006580          210 -----------DIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEY-TISIVINACTKLRNLDKG--KQV-FALSVK  274 (640)
Q Consensus       210 -----------~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a--~~~-~~~~~~  274 (640)
                                 +..+|+.++.+|.+.|++++|+++|++|.+.+  |+.. .+..+...+...+..+.+  ..+ +..+..
T Consensus       188 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~  265 (597)
T 2xpi_A          188 KLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD--AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSK  265 (597)
T ss_dssp             ---CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHG
T ss_pred             cccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--chhhHHHHHHHHhhcccchhHHHHHHhcCCccccc
Confidence                       37789999999999999999999999998854  5443 444444433333222221  111 444455


Q ss_pred             hCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHH
Q 006580          275 VGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR--WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSC  352 (640)
Q Consensus       275 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~  352 (640)
                      .+..+...+++.++..|.+.|++++|.++|+++.+  ++..+|+.++..|.+.|++++|.++|+++.+.+ +.+..++..
T Consensus       266 ~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~  344 (597)
T 2xpi_A          266 EDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPL  344 (597)
T ss_dssp             GGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHH
T ss_pred             chHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHH
Confidence            55555666788889999999999999999999987  789999999999999999999999999999865 336778888


Q ss_pred             HHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCCh
Q 006580          353 VLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRA  428 (640)
Q Consensus       353 ~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~  428 (640)
                      ++..+.. |+.++|..+++.+.+.. +.+..+++.++.+|.+.|++++|.++|+++.   ..+..+|+.++.+|.+.|++
T Consensus       345 l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  423 (597)
T 2xpi_A          345 HLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEH  423 (597)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            8888888 99999999999998664 6678899999999999999999999999886   34688999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHh
Q 006580          429 AETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITST  508 (640)
Q Consensus       429 ~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  508 (640)
                      ++|+++|+++.+.+ +.+..++..++.+|.+.|++++|.++|+++.+.  .+.+..+|..++..|.+.|++++|.++|++
T Consensus       424 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  500 (597)
T 2xpi_A          424 DQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQN  500 (597)
T ss_dssp             HHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            99999999999863 457789999999999999999999999999874  345788999999999999999999999999


Q ss_pred             CC-------CCCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          509 MP-------FQPG--CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       509 ~~-------~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +.       ..|+  ..+|..++.+|.+.|++++|.+.++++++.+|+++.+|..++.+|.+.|++++|.++++++.+..
T Consensus       501 ~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  580 (597)
T 2xpi_A          501 ALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAIS  580 (597)
T ss_dssp             HHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC
Confidence            85       3676  78999999999999999999999999999999999999999999999999999999999998864

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=4.5e-39  Score=343.19  Aligned_cols=475  Identities=9%  Similarity=-0.039  Sum_probs=357.2

Q ss_pred             CChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCC--CCChhhHHHHHHH
Q 006580           13 ASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIP--QKNCISWNICLRG   90 (640)
Q Consensus        13 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~ll~~   90 (640)
                      ++...|+.++..+.+.|++++|..+++++.+.  .|+..++..++.+|.+.|++++|..+|+.+.  .+++.+++.++.+
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~  159 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFC  159 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHHH
Confidence            56778999999999999999999999999865  4677889999999999999999999999984  5788999999999


Q ss_pred             HhcCCChhHHHHHhccCCCC-------------------CcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHH
Q 006580           91 LLKSDNLDTALKVFDEIPEP-------------------DVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFS  151 (640)
Q Consensus        91 ~~~~~~~~~A~~~~~~~~~~-------------------~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~  151 (640)
                      |.+.|++++|.++|+++...                   +..+|+.++.+|.+.|++++|+++|++|.+.+  |+..+..
T Consensus       160 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~  237 (597)
T 2xpi_A          160 LVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD--AKCYEAF  237 (597)
T ss_dssp             HHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHH
T ss_pred             HHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--chhhHHH
Confidence            99999999999999965443                   37899999999999999999999999998853  4433322


Q ss_pred             HHHHHHh--c----hhHHHHH-HHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCC--CCeeeHHHHHHHHH
Q 006580          152 ILLSTVS--S----ACHGKQI-HGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEE--LDIISWNSLISGCF  222 (640)
Q Consensus       152 ~ll~~~~--~----~~~a~~~-~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~  222 (640)
                      ..+..+.  .    ......+ +..+...+ ......+|+.++..|.+.|++++|.++|+.+.+  ++..+|+.++..|.
T Consensus       238 ~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~  316 (597)
T 2xpi_A          238 DQLVSNHLLTADEEWDLVLKLNYSTYSKED-AAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLF  316 (597)
T ss_dssp             HHHHHTTCSCHHHHHHHHHHSCTHHHHGGG-HHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHH
T ss_pred             HHHHHhhcccchhHHHHHHhcCCcccccch-HHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHH
Confidence            2222222  1    1111111 33344433 344555677778888888889999999988876  67888888888888


Q ss_pred             hcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHH
Q 006580          223 NSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVR  302 (640)
Q Consensus       223 ~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  302 (640)
                      +.|++++|+.+|+++.+.+ +.+..++..++.++...|++++|..+++.+.+.. +.+..+++.++.+|.+.|++++|.+
T Consensus       317 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  394 (597)
T 2xpi_A          317 VRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARR  394 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHH
Confidence            8888888888888887754 3366678888888888888888888888887654 3456667777777777777777777


Q ss_pred             HHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCC
Q 006580          303 LFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDS  379 (640)
Q Consensus       303 ~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~  379 (640)
                      +|+++.+   .+..+|+.++..|.+.|++++|+++|+++.+.+                                     
T Consensus       395 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-------------------------------------  437 (597)
T 2xpi_A          395 YFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-------------------------------------  437 (597)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-------------------------------------
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------------------------------------
Confidence            7766542   345566666666666666666666666655431                                     


Q ss_pred             chHHHHHHHHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc
Q 006580          380 NAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNY  459 (640)
Q Consensus       380 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  459 (640)
                                                   ..+..+|+.++.+|.+.|++++|+++|+++.+.. +.+..+|..++..|.+
T Consensus       438 -----------------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  487 (597)
T 2xpi_A          438 -----------------------------QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFN  487 (597)
T ss_dssp             -----------------------------TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHH
T ss_pred             -----------------------------ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence                                         1244556666666666677777777777766642 3355667777777777


Q ss_pred             cCCHHHHHHHHHHhHHhh---CCCCC--hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChH
Q 006580          460 GGFVDKGMLVFSAMKEEY---GVMPG--EEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVK  532 (640)
Q Consensus       460 ~~~~~~A~~~~~~~~~~~---~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~  532 (640)
                      .|++++|.++|+++.+..   +..|+  ..+|..++.+|.+.|++++|.+.++++.  .+.+..+|..++..|...|+++
T Consensus       488 ~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  567 (597)
T 2xpi_A          488 KSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPG  567 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHH
T ss_pred             hCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHH
Confidence            777777777777765532   44565  5678888888888888888888887765  3447889999999999999999


Q ss_pred             HHHHHHHHHHhcCCCChhHHHHHHHHHHh
Q 006580          533 LTENVAERMMDLQLPSPLPYSLLTQAYAM  561 (640)
Q Consensus       533 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  561 (640)
                      +|.+.++++++.+|.++..+..++.+|..
T Consensus       568 ~A~~~~~~~l~~~p~~~~~~~~l~~~~~~  596 (597)
T 2xpi_A          568 LAITHLHESLAISPNEIMASDLLKRALEE  596 (597)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHhcCCCChHHHHHHHHHHhc
Confidence            99999999999999999999999887753

>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=99.96  E-value=2.2e-26  Score=230.93  Aligned_cols=371  Identities=11%  Similarity=0.010  Sum_probs=292.7

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHH
Q 006580          119 ISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYY  198 (640)
Q Consensus       119 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  198 (640)
                      ...+.+.|++++|+..++++.+.                                  .|.+...+..+...+...|++++
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~----------------------------------~p~~~~~~~~l~~~~~~~~~~~~   51 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQ----------------------------------EPDNTGVLLLLSSIHFQCRRLDR   51 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH----------------------------------CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh----------------------------------CCCCHHHHHHHHHHHHHcCCHHH
Confidence            45567788888888888887764                                  45556666667777777888888


Q ss_pred             HHHHHhccC---CCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCc-chHHHHHHHHhccCCchHHHHHHHHHHH
Q 006580          199 AFGVFLNME---ELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDE-YTISIVINACTKLRNLDKGKQVFALSVK  274 (640)
Q Consensus       199 A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~  274 (640)
                      |...++...   ..+..+|..+...+.+.|++++|+..|+++...  .|+. .+|..+..++...|++++|.+.++.+++
T Consensus        52 a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  129 (388)
T 1w3b_A           52 SAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRL--KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQ  129 (388)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            887776654   235567778888888888888888888887763  3544 3677778888888888888888888877


Q ss_pred             hCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHH
Q 006580          275 VGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLS  351 (640)
Q Consensus       275 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~  351 (640)
                      .. +.+...+..+...+...|++++|.+.|+++.+   .+..+|+.+...+...|++++|...|+++.+.  .       
T Consensus       130 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~-------  199 (388)
T 1w3b_A          130 YN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTL--D-------  199 (388)
T ss_dssp             HC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--C-------
T ss_pred             hC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--C-------
Confidence            64 22445666777777778888888888877653   34567777888888888888888888877663  2       


Q ss_pred             HHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC--CC-ChhHHHHHHHHHHhCCCh
Q 006580          352 CVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD--KR-DLVSWNTIMMGLTQNGRA  428 (640)
Q Consensus       352 ~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~  428 (640)
                                                +.+...+..+...+...|++++|...|++..  .| +..++..+...+...|++
T Consensus       200 --------------------------p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~  253 (388)
T 1w3b_A          200 --------------------------PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLI  253 (388)
T ss_dssp             --------------------------TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             --------------------------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCH
Confidence                                      2234455677788888889999988888765  33 577888999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHh
Q 006580          429 AETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITST  508 (640)
Q Consensus       429 ~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  508 (640)
                      ++|++.|+++.+.+ +.+..++..+...+.+.|++++|+..++++.+.  .+.+...+..+...+.+.|++++|.+.+++
T Consensus       254 ~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  330 (388)
T 1w3b_A          254 DLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRK  330 (388)
T ss_dssp             HHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999999852 334568889999999999999999999999874  456788999999999999999999999999


Q ss_pred             CC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCC
Q 006580          509 MP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGR  564 (640)
Q Consensus       509 ~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  564 (640)
                      +. ..| +..++..+...+.+.|++++|...++++++.+|.++..|..++.++...|+
T Consensus       331 al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          331 ALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            87 445 688999999999999999999999999999999999999999998887764

>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=99.96  E-value=9.2e-28  Score=244.31  Aligned_cols=183  Identities=14%  Similarity=0.199  Sum_probs=171.0

Q ss_pred             hhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-C---------ChHHHHHHHHHHHHhCCCCchH
Q 006580          313 AVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-P---------PVEHGSQFHSMAIKSGFDSNAV  382 (640)
Q Consensus       313 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~---------~~~~a~~~~~~~~~~~~~~~~~  382 (640)
                      ..++.+|.+|++.|+.++|+++|++|.+.|+.||..||+.+|.+|+. +         .++.|..+++.|.+.|+.||..
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~  106 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEA  106 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHH
Confidence            35778889999999999999999999999999999999999999875 4         3688999999999999999999


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC----CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 006580          383 VASSLMEMYAKTGSIDSSTEIFVKLD----KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACN  458 (640)
Q Consensus       383 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  458 (640)
                      +|++||.+|++.|++++|.++|++|.    .||..+|+++|.+|++.|+.++|.++|++|.+.|+.||..||+.|+.+|+
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~  186 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSM  186 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            99999999999999999999999997    58999999999999999999999999999999999999999999999999


Q ss_pred             ccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhc
Q 006580          459 YGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQA  496 (640)
Q Consensus       459 ~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  496 (640)
                      +.|++++|.+++++|.+. +..|+..||+.++..|+..
T Consensus       187 ~~g~~d~A~~ll~~Mr~~-g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          187 DTKNADKVYKTLQRLRDL-VRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HTTCHHHHHHHHHHHHHH-TSSBCHHHHHHHHHHHHSH
T ss_pred             hCCCHHHHHHHHHHHHHh-CCCcCHHHHHHHHHHHhcC
Confidence            999999999999999998 9999999999999988763

>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=99.96  E-value=2.7e-25  Score=222.97  Aligned_cols=352  Identities=13%  Similarity=0.103  Sum_probs=281.9

Q ss_pred             HHHHHhcCChhHHHHHHHHhHHCCCCCCc-chHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC
Q 006580          218 ISGCFNSGYGELALDQFYSMRYSGYSPDE-YTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNR  296 (640)
Q Consensus       218 i~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  296 (640)
                      ...+.+.|++++|.+.++++.+.  .|+. ..+..+...+...|++++|...++..++.. +.+..++..+..+|.+.|+
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCC
Confidence            44566677777777777777653  2443 344555556667777777777777776654 3456677777777888888


Q ss_pred             HHHHHHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHH-HHhhCCC-CChHHHHHHHHH
Q 006580          297 LEDSVRLFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSC-VLSSIPI-PPVEHGSQFHSM  371 (640)
Q Consensus       297 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~-~l~~~~~-~~~~~a~~~~~~  371 (640)
                      +++|...|+++.+   .+..+|..+..++.+.|++++|.+.|+++.+.  .|+...... +-..+.. |++++|...+..
T Consensus        83 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  160 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            8888877777653   23456777777888888888888888777764  455444333 3334444 888888888877


Q ss_pred             HHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC--C-CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC-CH
Q 006580          372 AIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD--K-RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPP-DR  447 (640)
Q Consensus       372 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~  447 (640)
                      +.+.. +.+...+..+...+.+.|++++|...|+++.  . .+...|..+...+...|++++|+..+++....  .| +.
T Consensus       161 al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~  237 (388)
T 1w3b_A          161 AIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNHA  237 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTCH
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCCH
Confidence            77764 4567788899999999999999999999987  3 35678899999999999999999999999884  45 46


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHH
Q 006580          448 ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRAS  525 (640)
Q Consensus       448 ~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~  525 (640)
                      .++..+...+...|++++|+..++++.+.  .+.+...|..+...+.+.|++++|.+.++++.  .+.+..++..+...+
T Consensus       238 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  315 (388)
T 1w3b_A          238 VVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHH
Confidence            78889999999999999999999999873  34457789999999999999999999999987  555889999999999


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          526 AIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       526 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ...|++++|...++++++..|+++..+..++.+|.+.|++++|...++++.+..
T Consensus       316 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  369 (388)
T 1w3b_A          316 REQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            999999999999999999999999999999999999999999999999998743

>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=99.95  E-value=2.2e-27  Score=241.47  Aligned_cols=211  Identities=9%  Similarity=0.051  Sum_probs=172.0

Q ss_pred             hHHHHHHHHhHHCCCCCCcc-hHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHh
Q 006580          228 ELALDQFYSMRYSGYSPDEY-TISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQ  306 (640)
Q Consensus       228 ~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  306 (640)
                      ..+..+.+++.+.++.+.+. .++.+|.+|++.|++++|.++|++|.+.|+.||..+|++||.+|++.+....+      
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~------   80 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES------   80 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS------
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh------
Confidence            34555666777766655543 57788888888888888888888888888888888888888888776653321      


Q ss_pred             cCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHH
Q 006580          307 LDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVAS  385 (640)
Q Consensus       307 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~  385 (640)
                                      .+.+..+.|.++|++|.+.|+.||..||+.+|.+|++ |+++.|..+++.|.+.|+.||..+|+
T Consensus        81 ----------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn  144 (501)
T 4g26_A           81 ----------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYG  144 (501)
T ss_dssp             ----------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             ----------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceeh
Confidence                            2344567889999999999999999999999999999 99999999999999999999999999


Q ss_pred             HHHHHHHhcCChHHHHHHHHhCC----CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 006580          386 SLMEMYAKTGSIDSSTEIFVKLD----KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYG  460 (640)
Q Consensus       386 ~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  460 (640)
                      ++|.+|++.|++++|.++|++|.    .||..+|++||.+|++.|+.++|.++|++|.+.|+.|+..||+.++..|+..
T Consensus       145 ~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          145 PALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999997    6899999999999999999999999999999999999999999999998764

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=4.5e-23  Score=215.22  Aligned_cols=215  Identities=11%  Similarity=-0.038  Sum_probs=172.2

Q ss_pred             CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHH
Q 006580          360 PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFE  436 (640)
Q Consensus       360 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~  436 (640)
                      |+++.|...++.+.+....  ...+..+...|...|++++|...++.+.+   .+...|..+...+...|++++|+..++
T Consensus       251 ~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  328 (514)
T 2gw1_A          251 NDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQAGKDFD  328 (514)
T ss_dssp             SCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            5555555555554444322  55667788888888888888888887763   366788888889999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-C---C
Q 006580          437 ELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-F---Q  512 (640)
Q Consensus       437 ~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~---~  512 (640)
                      ++.+.. +.+..++..+...+...|++++|...++.+.+.  .+.+...+..+...+.+.|++++|.+.++++. .   .
T Consensus       329 ~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  405 (514)
T 2gw1_A          329 KAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKL  405 (514)
T ss_dssp             HHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            998853 335567888888899999999999999988864  23456788888999999999999999998875 2   2


Q ss_pred             CC----HHHHHHHHHHHHH---cCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          513 PG----CSIWESILRASAI---YGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       513 ~~----~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ++    ...+..+...+..   .|++++|...++++++.+|.++..+..++.+|.+.|++++|...++++.+..
T Consensus       406 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  479 (514)
T 2gw1_A          406 DGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLA  479 (514)
T ss_dssp             SSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             chHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhc
Confidence            22    3488888999999   8999999999999999999999999999999999999999999999988765

>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=2.2e-21  Score=198.65  Aligned_cols=320  Identities=12%  Similarity=0.045  Sum_probs=222.8

Q ss_pred             eHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 006580          213 SWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFS  292 (640)
Q Consensus       213 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  292 (640)
                      .+..+...+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|...++.+++.+ +.+..++..+..+|.
T Consensus        28 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~  105 (450)
T 2y4t_A           28 KHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLL  105 (450)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHH
Confidence            34444444444455555555555444321 1233344444445555555555555555554443 123444555555555


Q ss_pred             hcCCHHHHHHHHHhcCCCC---h---hhHHHH------------HHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHH
Q 006580          293 KCNRLEDSVRLFEQLDRWD---Y---AVINVM------------ISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVL  354 (640)
Q Consensus       293 ~~g~~~~A~~~~~~~~~~~---~---~~~~~l------------i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l  354 (640)
                      +.|++++|...|+++.+.+   .   ..|..+            ...+...|++++|+..|+++.+.             
T Consensus       106 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-------------  172 (450)
T 2y4t_A          106 KQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEV-------------  172 (450)
T ss_dssp             HTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-------------
T ss_pred             HcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------------
Confidence            5555555555555543321   1   333333            33456666666676666666542             


Q ss_pred             hhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHH
Q 006580          355 SSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAET  431 (640)
Q Consensus       355 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a  431 (640)
                                           . +.+...+..+..+|.+.|++++|...|+++.   ..+..+|..+...|...|++++|
T Consensus       173 ---------------------~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  230 (450)
T 2y4t_A          173 ---------------------C-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELS  230 (450)
T ss_dssp             ---------------------C-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHH
T ss_pred             ---------------------C-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence                                 1 3455667888899999999999999999886   35788999999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHH-HHHHH------------HHHHhccCCHHHHHHHHHHhHHhhCCCCC-----hhHHHHHHHHH
Q 006580          432 LDVFEELLEEGLPPDRI-TLAAV------------LLACNYGGFVDKGMLVFSAMKEEYGVMPG-----EEHYACIIDLL  493 (640)
Q Consensus       432 ~~~~~~m~~~g~~p~~~-~~~~l------------l~~~~~~~~~~~A~~~~~~~~~~~~~~p~-----~~~~~~l~~~~  493 (640)
                      +..|+++...  .|+.. .+..+            ...|...|++++|+..|+.+.+.   .|+     ...+..+..++
T Consensus       231 ~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~  305 (450)
T 2y4t_A          231 LSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCF  305 (450)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHH
Confidence            9999999974  55543 44443            77889999999999999999875   344     45788899999


Q ss_pred             HhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHH------------HH
Q 006580          494 CQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQ------------AY  559 (640)
Q Consensus       494 ~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~------------~~  559 (640)
                      .+.|++++|++.++++. ..| +..+|..++.+|...|++++|...++++++.+|.++..+..++.            .|
T Consensus       306 ~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y  385 (450)
T 2y4t_A          306 SKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYY  385 (450)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSG
T ss_pred             HHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHH
Confidence            99999999999999986 344 78999999999999999999999999999999999999999984            45


Q ss_pred             HhcC-----ChHHHHHHHHH
Q 006580          560 AMRG-----RWEAIVRVKKV  574 (640)
Q Consensus       560 ~~~g-----~~~~a~~~~~~  574 (640)
                      ...|     +.+++.+.+++
T Consensus       386 ~~lg~~~~~~~~~~~~~y~~  405 (450)
T 2y4t_A          386 KILGVKRNAKKQEIIKAYRK  405 (450)
T ss_dssp             GGSCSSTTCCTTHHHHHHHH
T ss_pred             HHhCCCccCCHHHHHHHHHH
Confidence            5555     55666777765

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.91  E-value=6.4e-22  Score=206.45  Aligned_cols=261  Identities=12%  Similarity=0.001  Sum_probs=192.6

Q ss_pred             cCCchHHHHHHHHHHH-----hCC--------CCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CChhhHHHHHHHHH
Q 006580          259 LRNLDKGKQVFALSVK-----VGF--------LSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR--WDYAVINVMISTYG  323 (640)
Q Consensus       259 ~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~  323 (640)
                      .|+++.|...++.+.+     ..-        +.+..++..+...+...|++++|...|+++.+  ++..+|..+...+.
T Consensus       202 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~l~~~~~  281 (514)
T 2gw1_A          202 PESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPRVNSYIYMALIMA  281 (514)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCccHHHHHHHHHHHH
Confidence            5667777776666665     211        11233455555666666666666666655532  22445555566666


Q ss_pred             hCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHH
Q 006580          324 RYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEI  403 (640)
Q Consensus       324 ~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  403 (640)
                      ..|++++|...++++.+..                                   +.+...+..+...|...|++++|...
T Consensus       282 ~~~~~~~A~~~~~~~~~~~-----------------------------------~~~~~~~~~l~~~~~~~~~~~~A~~~  326 (514)
T 2gw1_A          282 DRNDSTEYYNYFDKALKLD-----------------------------------SNNSSVYYHRGQMNFILQNYDQAGKD  326 (514)
T ss_dssp             TSSCCTTGGGHHHHHHTTC-----------------------------------TTCTHHHHHHHHHHHHTTCTTHHHHH
T ss_pred             HCCCHHHHHHHHHHHhhcC-----------------------------------cCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            6666666666666655431                                   33445567778888888899999888


Q ss_pred             HHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCC
Q 006580          404 FVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVM  480 (640)
Q Consensus       404 ~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~  480 (640)
                      |+++.   ..+...+..+...+...|++++|+..++++.+.. +.+..++..+...+...|++++|...++.+.+...-.
T Consensus       327 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  405 (514)
T 2gw1_A          327 FDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKL  405 (514)
T ss_dssp             HHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            88775   3356788888999999999999999999998852 3356788888899999999999999999987652222


Q ss_pred             CC----hhHHHHHHHHHHh---cCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhH
Q 006580          481 PG----EEHYACIIDLLCQ---AGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLP  551 (640)
Q Consensus       481 p~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  551 (640)
                      ++    ...+..+...+..   .|++++|.+.++++.  .+.+..++..+...+...|++++|...++++++.+|.++..
T Consensus       406 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~  485 (514)
T 2gw1_A          406 DGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLARTMEEK  485 (514)
T ss_dssp             SSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSHHHH
T ss_pred             chHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccccHHH
Confidence            32    3488899999999   999999999999886  34478889999999999999999999999999999998887


Q ss_pred             HHHH
Q 006580          552 YSLL  555 (640)
Q Consensus       552 ~~~l  555 (640)
                      +..+
T Consensus       486 ~~~~  489 (514)
T 2gw1_A          486 LQAI  489 (514)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7766

>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=99.90  E-value=1.9e-21  Score=204.11  Aligned_cols=422  Identities=10%  Similarity=-0.025  Sum_probs=234.9

Q ss_pred             cchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhh
Q 006580          112 VVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYG  191 (640)
Q Consensus       112 ~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~  191 (640)
                      ...|..+...+.+.|++++|+..|+++.+.                                  .|.+...+..+..+|.
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~----------------------------------~p~~~~~~~~la~~~~   70 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIEL----------------------------------DPNEPVFYSNISACYI   70 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHH----------------------------------CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhh----------------------------------CCCCcHHHHHHHHHHH
Confidence            356777888899999999999999999875                                  3344455555555555


Q ss_pred             cCCChHHHHHHHhccC---CCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHH
Q 006580          192 KLGVLYYAFGVFLNME---ELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQV  268 (640)
Q Consensus       192 ~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~  268 (640)
                      ..|++++|.+.|+.+.   ..+...+..+...+...|++++|+..|+.+..   .|+...  ..+..+...+....+...
T Consensus        71 ~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~---~~~~~~--~~~~~~~~~~~~~~a~~~  145 (537)
T 3fp2_A           71 STGDLEKVIEFTTKALEIKPDHSKALLRRASANESLGNFTDAMFDLSVLSL---NGDFDG--ASIEPMLERNLNKQAMKV  145 (537)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC----------------CHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHcCCHHHHHHHHHHHhc---CCCCCh--HHHHHHHHHHHHHHHHHH
Confidence            5555555555555543   12344455555555555555555555542211   121111  111122222333444555


Q ss_pred             HHHHHHhCC--CCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChh---hHHHHHHHHHhC--------CChHHHHHHH
Q 006580          269 FALSVKVGF--LSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYA---VINVMISTYGRY--------GFGEVALELF  335 (640)
Q Consensus       269 ~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~--------~~~~~a~~~~  335 (640)
                      ++.++....  .+........+..+....+.+.+...+......+..   ....+...+...        |++++|..+|
T Consensus       146 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~  225 (537)
T 3fp2_A          146 LNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMY  225 (537)
T ss_dssp             HHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHH
Confidence            544433210  001111122233344444444444444443332222   222222222111        3455566666


Q ss_pred             HHHhhCCCCCChh--------hHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHh
Q 006580          336 QLMLREDIRPTEF--------TLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVK  406 (640)
Q Consensus       336 ~~m~~~~~~p~~~--------t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  406 (640)
                      +++.+.  .|+..        .+..+-..+.. |+++.|...+..+.+..  |+...+..+...+...|++++|...|++
T Consensus       226 ~~~l~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~  301 (537)
T 3fp2_A          226 HSLLSA--NTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQK  301 (537)
T ss_dssp             HHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHH
T ss_pred             HHHHHH--CCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            655543  22211        12222222333 56666666666665543  3355556666666667777777777666


Q ss_pred             CC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCCh
Q 006580          407 LD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGE  483 (640)
Q Consensus       407 ~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~  483 (640)
                      +.   ..+..+|..+...+...|++++|++.++++.+.. +.+...+..+...+...|++++|...++++.+.  .+.+.
T Consensus       302 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~  378 (537)
T 3fp2_A          302 AVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPTLP  378 (537)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCT
T ss_pred             HhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCh
Confidence            55   2345667777777777777777777777777642 223456666777777777777777777777654  23345


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC-C-------CCCHHHHHHHHHHHHHc----------CChHHHHHHHHHHHhcC
Q 006580          484 EHYACIIDLLCQAGQLGKAIDITSTMP-F-------QPGCSIWESILRASAIY----------GDVKLTENVAERMMDLQ  545 (640)
Q Consensus       484 ~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-------~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~  545 (640)
                      ..+..+...+...|++++|.+.++++. .       ......+..+...+...          |++++|...++++++.+
T Consensus       379 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~  458 (537)
T 3fp2_A          379 EVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD  458 (537)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC
Confidence            566777777777777777777777654 1       11222344445566666          77888888888888888


Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          546 LPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       546 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      |.++..+..++.+|.+.|++++|.+.+++..+..
T Consensus       459 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          459 PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            8777888888888888888888888888777654

>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=99.89  E-value=3.8e-21  Score=196.91  Aligned_cols=352  Identities=12%  Similarity=0.047  Sum_probs=263.3

Q ss_pred             CCCchhHHHHHHHhhhcCCChHHHHHHHhccC---CCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHH
Q 006580          176 SLSNVVLGNSLIDMYGKLGVLYYAFGVFLNME---ELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIV  252 (640)
Q Consensus       176 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~l  252 (640)
                      .|.+...+..+...+.+.|++++|..+|+.+.   ..+...|..+..++...|++++|+..|+++.+.+ +.+..++..+
T Consensus        22 ~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  100 (450)
T 2y4t_A           22 SMADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQR  100 (450)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHH
Confidence            57788889999999999999999999999876   3467788899999999999999999999998754 2345678888


Q ss_pred             HHHHhccCCchHHHHHHHHHHHhCCCCch---hHHHHH------------HHHHHhcCCHHHHHHHHHhcCC---CChhh
Q 006580          253 INACTKLRNLDKGKQVFALSVKVGFLSNS---IVLSAT------------IDLFSKCNRLEDSVRLFEQLDR---WDYAV  314 (640)
Q Consensus       253 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~g~~~~A~~~~~~~~~---~~~~~  314 (640)
                      ..++...|++++|...++.+.+... .+.   ..+..+            ...+.+.|++++|...|+++.+   .+..+
T Consensus       101 ~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  179 (450)
T 2y4t_A          101 GHLLLKQGKLDEAEDDFKKVLKSNP-SENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAEL  179 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTSCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCC-CChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHH
Confidence            9999999999999999999987642 233   444444            4458899999999999998764   46778


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhc
Q 006580          315 INVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKT  394 (640)
Q Consensus       315 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  394 (640)
                      +..+...|.+.|++++|...|+++.+..                                   +.+...+..+..+|...
T Consensus       180 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----------------------------------~~~~~~~~~l~~~~~~~  224 (450)
T 2y4t_A          180 RELRAECFIKEGEPRKAISDLKAASKLK-----------------------------------NDNTEAFYKISTLYYQL  224 (450)
T ss_dssp             HHHHHHHHHHTTCGGGGHHHHHHHHHHH-----------------------------------CSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-----------------------------------CCCHHHHHHHHHHHHHc
Confidence            8999999999999999999999987642                                   23344455666666666


Q ss_pred             CChHHHHHHHHhCC--CC-ChhHHHHH------------HHHHHhCCChHHHHHHHHHHHHCCCCCC-----HHHHHHHH
Q 006580          395 GSIDSSTEIFVKLD--KR-DLVSWNTI------------MMGLTQNGRAAETLDVFEELLEEGLPPD-----RITLAAVL  454 (640)
Q Consensus       395 g~~~~A~~~~~~~~--~~-~~~~~~~l------------i~~~~~~g~~~~a~~~~~~m~~~g~~p~-----~~~~~~ll  454 (640)
                      |++++|...|+++.  .| +...+..+            ...+...|++++|+..|+++.+.  .|+     ...+..+.
T Consensus       225 g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~  302 (450)
T 2y4t_A          225 GDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERIC  302 (450)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHH
Confidence            66666666666655  22 23333333            77788889999999999988873  454     34677778


Q ss_pred             HHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHH--------
Q 006580          455 LACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRA--------  524 (640)
Q Consensus       455 ~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~--------  524 (640)
                      ..+.+.|++++|+..++.+.+.  .+.+...|..+..+|...|++++|.+.++++. ..| +...+..+..+        
T Consensus       303 ~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~  380 (450)
T 2y4t_A          303 HCFSKDEKPVEAIRVCSEVLQM--EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQ  380 (450)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhccc
Confidence            8888889999999999888764  23467788888888999999999999888876 555 56666666533        


Q ss_pred             ----HHHcC-----ChHHHHHHHHH-HHhcCCCCh----------hHHHHHHHHHHhcCChHHH
Q 006580          525 ----SAIYG-----DVKLTENVAER-MMDLQLPSP----------LPYSLLTQAYAMRGRWEAI  568 (640)
Q Consensus       525 ----~~~~~-----~~~~a~~~~~~-~~~~~p~~~----------~~~~~l~~~~~~~g~~~~a  568 (640)
                          |...|     +.+++.+.+++ +++..|++.          ..+..+..+|...|+.+++
T Consensus       381 ~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~r  444 (450)
T 2y4t_A          381 KRDYYKILGVKRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEMR  444 (450)
T ss_dssp             SCCSGGGSCSSTTCCTTHHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGGC
T ss_pred             chhHHHHhCCCccCCHHHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHHH
Confidence                32333     56778888886 667777432          2455666666666665543

>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=99.89  E-value=1.4e-21  Score=205.18  Aligned_cols=428  Identities=12%  Similarity=0.019  Sum_probs=294.6

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHhccCCC---CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh
Q 006580           82 ISWNICLRGLLKSDNLDTALKVFDEIPE---PDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS  158 (640)
Q Consensus        82 ~~~~~ll~~~~~~~~~~~A~~~~~~~~~---~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~  158 (640)
                      ..|..+...+.+.|++++|++.|+++.+   .++..|..+..+|.+.|++++|+..|+++.+.                 
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~-----------------   88 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEI-----------------   88 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-----------------
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-----------------
Confidence            3556666677777777777777776652   45667777778888888888888888887764                 


Q ss_pred             chhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhH
Q 006580          159 SACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMR  238 (640)
Q Consensus       159 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~  238 (640)
                                       .|.+...+..+..++...|++++|...|+.+. .+....+..+..+...+....|...++++.
T Consensus        89 -----------------~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l  150 (537)
T 3fp2_A           89 -----------------KPDHSKALLRRASANESLGNFTDAMFDLSVLS-LNGDFDGASIEPMLERNLNKQAMKVLNENL  150 (537)
T ss_dssp             -----------------CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC------------CHHHHHHHHHHHHHHHHHC
T ss_pred             -----------------CCchHHHHHHHHHHHHHcCCHHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHHHHHHHHHHHH
Confidence                             45566667777777777788888877776432 222222333445555555677777777775


Q ss_pred             HC------CCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCch-hHHHHHHHHHHh--------cCCHHHHHHH
Q 006580          239 YS------GYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNS-IVLSATIDLFSK--------CNRLEDSVRL  303 (640)
Q Consensus       239 ~~------g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~--------~g~~~~A~~~  303 (640)
                      ..      ...|+...    +..+....+.+.+...+.....  ..+.. .....+...+..        .|++++|..+
T Consensus       151 ~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~  224 (537)
T 3fp2_A          151 SKDEGRGSQVLPSNTS----LASFFGIFDSHLEVSSVNTSSN--YDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDM  224 (537)
T ss_dssp             C-------CCCCCHHH----HHHHHHTSCHHHHHHTSCCCCS--SCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHH
T ss_pred             HhCccccccccchHhH----HHHHHHhcChHHHHHHHhhccc--cccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence            42      11222222    2223333333333222111100  01111 122222222221        2467888888


Q ss_pred             HHhcCCCC----------hhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHH
Q 006580          304 FEQLDRWD----------YAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMA  372 (640)
Q Consensus       304 ~~~~~~~~----------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~  372 (640)
                      ++++.+.+          ..++..+...+...|++++|...|++..+.  .|+...+..+...+.. |+++.|...+..+
T Consensus       225 ~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  302 (537)
T 3fp2_A          225 YHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKA  302 (537)
T ss_dssp             HHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHH
T ss_pred             HHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            88776522          124666677888899999999999998885  4556677777777777 9999999999998


Q ss_pred             HHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHH
Q 006580          373 IKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRIT  449 (640)
Q Consensus       373 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  449 (640)
                      .+.. +.+..++..+...+...|++++|...|+++.   ..+...|..+...+...|++++|+..++++.+.. +.+...
T Consensus       303 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~  380 (537)
T 3fp2_A          303 VDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEV  380 (537)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHH
T ss_pred             hccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHH
Confidence            8875 5567888999999999999999999999887   2356789999999999999999999999999853 445568


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhhCCCC----ChhHHHHHHHHHHhc----------CChHHHHHHHHhCC--CCC
Q 006580          450 LAAVLLACNYGGFVDKGMLVFSAMKEEYGVMP----GEEHYACIIDLLCQA----------GQLGKAIDITSTMP--FQP  513 (640)
Q Consensus       450 ~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~--~~~  513 (640)
                      +..+...+...|++++|...++++.+...-.+    ....+..+...+.+.          |++++|...++++.  .+.
T Consensus       381 ~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~  460 (537)
T 3fp2_A          381 PTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPR  460 (537)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCC
Confidence            88899999999999999999999876521111    122345556777888          99999999999987  344


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHH
Q 006580          514 GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSL  554 (640)
Q Consensus       514 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  554 (640)
                      +...+..+...+...|++++|.+.++++++..|.+......
T Consensus       461 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  501 (537)
T 3fp2_A          461 SEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDEKLQA  501 (537)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHHHHHH
T ss_pred             CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHH
Confidence            78899999999999999999999999999999988766543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.85  E-value=6e-18  Score=167.24  Aligned_cols=299  Identities=10%  Similarity=-0.004  Sum_probs=196.9

Q ss_pred             HHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHhCCChHH
Q 006580          254 NACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMISTYGRYGFGEV  330 (640)
Q Consensus       254 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~  330 (640)
                      ..+...|++++|...++.+++.. +.+..++..+..++...|++++|...|+++.+   .+...|..+...+...|++++
T Consensus        11 ~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   89 (359)
T 3ieg_A           11 KKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLLKQGKLDE   89 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCChHH
Confidence            33334444444444444443332 12333444444444555555555555444432   233455556666666666666


Q ss_pred             HHHHHHHHhhCCCCC---ChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhC
Q 006580          331 ALELFQLMLREDIRP---TEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKL  407 (640)
Q Consensus       331 a~~~~~~m~~~~~~p---~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  407 (640)
                      |...|++..+.  .|   +.......+.               .+.      .......+...+...|++++|...|+++
T Consensus        90 A~~~~~~~~~~--~~~~~~~~~~~~~l~---------------~~~------~~~~~~~~a~~~~~~~~~~~A~~~~~~~  146 (359)
T 3ieg_A           90 AEDDFKKVLKS--NPSEQEEKEAESQLV---------------KAD------EMQRLRSQALDAFDGADYTAAITFLDKI  146 (359)
T ss_dssp             HHHHHHHHHTS--CCCHHHHHHHHHHHH---------------HHH------HHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhc--CCcccChHHHHHHHH---------------HHH------HHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            66666666553  23   1111100000               000      0111233456777888888888888877


Q ss_pred             C---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChh
Q 006580          408 D---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEE  484 (640)
Q Consensus       408 ~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~  484 (640)
                      .   ..+...+..+...+...|++++|+..++++.+.. +.+..++..+...+...|++++|...++...+.  .+.+..
T Consensus       147 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~  223 (359)
T 3ieg_A          147 LEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKR  223 (359)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHH
T ss_pred             HHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CccchH
Confidence            6   3466778888888888999999999998888752 445667888888888889999999998888764  122223


Q ss_pred             HHH------------HHHHHHHhcCChHHHHHHHHhCC-CCC-CHH----HHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 006580          485 HYA------------CIIDLLCQAGQLGKAIDITSTMP-FQP-GCS----IWESILRASAIYGDVKLTENVAERMMDLQL  546 (640)
Q Consensus       485 ~~~------------~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  546 (640)
                      .+.            .+...+.+.|++++|.+.++++. ..| +..    .+..+...+...|++++|...++++++.+|
T Consensus       224 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~  303 (359)
T 3ieg_A          224 CFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEP  303 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCc
Confidence            222            23667889999999999998876 344 332    355677888999999999999999999999


Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          547 PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       547 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      .++..+..++.+|...|++++|...++++.+..
T Consensus       304 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  336 (359)
T 3ieg_A          304 DNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN  336 (359)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            999999999999999999999999999988754

>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=99.84  E-value=3.8e-16  Score=168.20  Aligned_cols=500  Identities=9%  Similarity=0.062  Sum_probs=317.8

Q ss_pred             HHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCCCChhhHHHHHHHHhcCCCh
Q 006580           18 CSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNL   97 (640)
Q Consensus        18 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~   97 (640)
                      ...|+..+-+.+++.-....++.-...| ..++.++|+|...|...++-.+.  .+.    .|..--..++.-||..+|+
T Consensus       842 ~~~lv~~~ekrnrLkll~p~LE~~~~~g-~~~~~~hnalakiyid~n~npe~--fL~----~n~~yd~~~vgkyce~rDp  914 (1630)
T 1xi4_A          842 TDELVAEVEKRNRLKLLLPWLEARIHEG-CEEPATHNALAKIYIDSNNNPER--FLR----ENPYYDSRVVGKYCEKRDP  914 (1630)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHhccCCCHHH--Hhh----ccCcccHHHHHHHHHhcCc
Confidence            5667777778888888888888888888 77889999999999876543321  111    1222222344445555555


Q ss_pred             hHHHHHhccCCC--------CCcchHHHHHHHHHhCCChHHH-----------HHHHHHH----HHCCCCCChhhHHHHH
Q 006580           98 DTALKVFDEIPE--------PDVVSWNSMISGYASCGYSDYA-----------LEMFSKM----QLQGVRPSGFTFSILL  154 (640)
Q Consensus        98 ~~A~~~~~~~~~--------~~~~~y~~li~~~~~~~~~~~a-----------~~~~~~m----~~~g~~p~~~t~~~ll  154 (640)
                      ..|.-.+++=.-        ..-..|-...+-+.+..+.+-=           .++.+.-    ......|+..+...-.
T Consensus       915 ~la~iay~~g~~d~eli~vt~~n~l~k~~arylv~r~d~~lW~~vl~~~n~~RR~Lidqv~a~aL~e~~~PeeVs~~vKa  994 (1630)
T 1xi4_A          915 HLACVAYERGQCDLELINVCNENSLFKSLSRYLVRRKDPELWGSVLLESNPYRRPLIDQVVQTALSETQDPEEVSVTVKA  994 (1630)
T ss_pred             chHHHHhcccCCcHHHHHHHhcchhHHHHHHHHHHhcCHHHHHHHhcCCcHHHHHHHHHHHHhhcccccCHHHhHHHHHH
Confidence            444444433100        0001111122222222111110           0111111    1112233333322222


Q ss_pred             HHHh-chhHHHHHHHHHHHhCC-CCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHH
Q 006580          155 STVS-SACHGKQIHGSMIRSGL-SLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALD  232 (640)
Q Consensus       155 ~~~~-~~~~a~~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  232 (640)
                      .+.. ...++.++++..+..+. +..+...-+.|+.+..+. +..+..+..+.....+   ...+...+...|.+++|..
T Consensus       995 f~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~Iai~lglyEEAf~ 1070 (1630)
T 1xi4_A          995 FMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANIAISNELFEEAFA 1070 (1630)
T ss_pred             HHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHHHHhCCCHHHHHH
Confidence            2222 55566666665553321 223445555566555555 3444444444444222   3446677777888888888


Q ss_pred             HHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCCh
Q 006580          233 QFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDY  312 (640)
Q Consensus       233 ~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  312 (640)
                      +|++...     .....+.++   ...+++++|.++.+..      .+..+|..+..++.+.|++++|++.|.+.  .|.
T Consensus      1071 IYkKa~~-----~~~A~~VLi---e~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA--dD~ 1134 (1630)
T 1xi4_A         1071 IFRKFDV-----NTSAVQVLI---EHIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDP 1134 (1630)
T ss_pred             HHHHcCC-----HHHHHHHHH---HHHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc--CCh
Confidence            8877421     111122222   2667778877777644      34667778888888888888888888664  566


Q ss_pred             hhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHH
Q 006580          313 AVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMY  391 (640)
Q Consensus       313 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  391 (640)
                      ..|..++.++.+.|++++|.+.|....+..  ++....+.+..++++ +.++....+.    +   .++...+..+...|
T Consensus      1135 say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~l 1205 (1630)
T 1xi4_A         1135 SSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRC 1205 (1630)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHH
Confidence            777778888888888888888888766643  332223346666666 7766544332    1   34555666788888


Q ss_pred             HhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 006580          392 AKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFS  471 (640)
Q Consensus       392 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~  471 (640)
                      ...|++++|...|...     ..|..+..+|.+.|++++|++.+++.      .+..+|..+-.+|...|++..|.....
T Consensus      1206 e~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl 1274 (1630)
T 1xi4_A         1206 YDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGL 1274 (1630)
T ss_pred             HhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            8999999999999885     48888999999999999999988876      345788888888888888888888765


Q ss_pred             HhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHc--CChHHHHHHHHHHHhcCC-
Q 006580          472 AMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIY--GDVKLTENVAERMMDLQL-  546 (640)
Q Consensus       472 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~p-  546 (640)
                      .      +..++..+..++..|.+.|.+++|+.+++... ..| ....|+.|...+.+.  ++..++.++|..-+...| 
T Consensus      1275 ~------Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f~~rini~k~ 1348 (1630)
T 1xi4_A         1275 H------IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKV 1348 (1630)
T ss_pred             h------hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccchH
Confidence            3      33466778889999999999999999998876 344 566787777777765  367777777776666555 


Q ss_pred             ----CChhHHHHHHHHHHhcCChHHHHH
Q 006580          547 ----PSPLPYSLLTQAYAMRGRWEAIVR  570 (640)
Q Consensus       547 ----~~~~~~~~l~~~~~~~g~~~~a~~  570 (640)
                          .+...|..+...|.+.|+|+.|..
T Consensus      1349 ~r~~e~~~lW~elv~LY~~~~e~dnA~~ 1376 (1630)
T 1xi4_A         1349 LRAAEQAHLWAELVFLYDKYEEYDNAII 1376 (1630)
T ss_pred             hHHHHHHHHHHHHHHHHHhcccHHHHHH
Confidence                677889999999999999999984

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.84  E-value=6.5e-18  Score=167.00  Aligned_cols=309  Identities=12%  Similarity=0.013  Sum_probs=223.2

Q ss_pred             eHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 006580          213 SWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFS  292 (640)
Q Consensus       213 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  292 (640)
                      .+..+...+...|++++|+..|+++.+.. +.+..++..+..++...|++++|...++.+++.. +.+...+..+..++.
T Consensus         5 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   82 (359)
T 3ieg_A            5 KHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLL   82 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHH
Confidence            34455556666666666666666665532 2234456666666666666666666666666653 224456666666777


Q ss_pred             hcCCHHHHHHHHHhcCCCCh------hhHHHH------------HHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHH
Q 006580          293 KCNRLEDSVRLFEQLDRWDY------AVINVM------------ISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVL  354 (640)
Q Consensus       293 ~~g~~~~A~~~~~~~~~~~~------~~~~~l------------i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l  354 (640)
                      ..|++++|...|+++.+.++      ..+..+            ...+...|++++|...++++.+..            
T Consensus        83 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~------------  150 (359)
T 3ieg_A           83 KQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC------------  150 (359)
T ss_dssp             HHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------
T ss_pred             HcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC------------
Confidence            77777777777766644222      222222            456666777777777777665531            


Q ss_pred             hhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHH
Q 006580          355 SSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAET  431 (640)
Q Consensus       355 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a  431 (640)
                                             +.+...+..+...+...|++++|...++++.+   .+...+..+...+...|++++|
T Consensus       151 -----------------------~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  207 (359)
T 3ieg_A          151 -----------------------VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELS  207 (359)
T ss_dssp             -----------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             -----------------------CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence                                   33455667788889999999999999988763   4677888999999999999999


Q ss_pred             HHHHHHHHHCCCCCCH-HHHH------------HHHHHHhccCCHHHHHHHHHHhHHhhCCCCC-h----hHHHHHHHHH
Q 006580          432 LDVFEELLEEGLPPDR-ITLA------------AVLLACNYGGFVDKGMLVFSAMKEEYGVMPG-E----EHYACIIDLL  493 (640)
Q Consensus       432 ~~~~~~m~~~g~~p~~-~~~~------------~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~-~----~~~~~l~~~~  493 (640)
                      ...+++..+.  .|+. ..+.            .+...+...|++++|...++.+.+.   .|+ .    ..+..+...+
T Consensus       208 ~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~la~~~  282 (359)
T 3ieg_A          208 LSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSVAEYTVRSKERICHCF  282 (359)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhh--CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCCchHHHHHHHHHHHHHH
Confidence            9999999884  3443 3332            2356688899999999999999875   233 2    2355678899


Q ss_pred             HhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcC
Q 006580          494 CQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRG  563 (640)
Q Consensus       494 ~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  563 (640)
                      ...|++++|.+.++++. ..| +..+|..+...+...|++++|...++++++.+|.++..+..+..+....+
T Consensus       283 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~  354 (359)
T 3ieg_A          283 SKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRLLK  354 (359)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHH
Confidence            99999999999999987 444 78899999999999999999999999999999999999988887766543

>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=1.2e-17  Score=162.94  Aligned_cols=285  Identities=11%  Similarity=0.046  Sum_probs=192.7

Q ss_pred             CcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHH
Q 006580          245 DEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMIST  321 (640)
Q Consensus       245 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~  321 (640)
                      +...+..+...+...|++++|.++++.+++.. +.+...+..++.++...|++++|...++++.+   .+...|..+...
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~   99 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPSNPVSWFAVGCY   99 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHH
Confidence            33344444444444455555555555554443 12233334444455555555555555554432   234455555566


Q ss_pred             HHhCC-ChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHH
Q 006580          322 YGRYG-FGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSS  400 (640)
Q Consensus       322 ~~~~~-~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  400 (640)
                      +...| ++++|.+.|++..+..                                   +.+...+..+...+...|++++|
T Consensus       100 ~~~~~~~~~~A~~~~~~a~~~~-----------------------------------~~~~~~~~~l~~~~~~~~~~~~A  144 (330)
T 3hym_B          100 YLMVGHKNEHARRYLSKATTLE-----------------------------------KTYGPAWIAYGHSFAVESEHDQA  144 (330)
T ss_dssp             HHHSCSCHHHHHHHHHHHHTTC-----------------------------------TTCTHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHhC-----------------------------------CccHHHHHHHHHHHHHccCHHHH
Confidence            66666 6666666666655431                                   22233445566667777777777


Q ss_pred             HHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhh
Q 006580          401 TEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEY  477 (640)
Q Consensus       401 ~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~  477 (640)
                      ...|++..   ..+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|...+++..+..
T Consensus       145 ~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  223 (330)
T 3hym_B          145 MAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKI  223 (330)
T ss_dssp             HHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHh
Confidence            77776665   2245566778888888899999999998888752 4455678888888888999999999988887642


Q ss_pred             C-------CCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 006580          478 G-------VMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPS  548 (640)
Q Consensus       478 ~-------~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  548 (640)
                      .       .+.....+..+...+.+.|++++|.+.++++.  .+.+...+..+...+...|++++|...++++++.+|.+
T Consensus       224 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~  303 (330)
T 3hym_B          224 KAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDD  303 (330)
T ss_dssp             TTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCC
T ss_pred             hhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCc
Confidence            1       13345688889999999999999999998876  34467889999999999999999999999999999999


Q ss_pred             hhHHHHHHHHH-HhcCChH
Q 006580          549 PLPYSLLTQAY-AMRGRWE  566 (640)
Q Consensus       549 ~~~~~~l~~~~-~~~g~~~  566 (640)
                      +..+..++.++ ...|+.+
T Consensus       304 ~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          304 TFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHHHHTTTTC--
T ss_pred             hHHHHHHHHHHHHHhCchh
Confidence            99999999988 4556543

>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=99.80  E-value=2.4e-17  Score=160.89  Aligned_cols=263  Identities=10%  Similarity=-0.017  Sum_probs=212.6

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHH
Q 006580          278 LSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVL  354 (640)
Q Consensus       278 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l  354 (640)
                      +.+..++..+...+...|++++|.++|+++.+   .+...+..++..+...|++++|...++++.+..            
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~------------   86 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY------------   86 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC------------
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC------------
Confidence            44555666667777777777777777776643   234455556666666777777777776665531            


Q ss_pred             hhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcC-ChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHH
Q 006580          355 SSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTG-SIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAE  430 (640)
Q Consensus       355 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~  430 (640)
                                             +.+...+..+...+...| ++++|...|++..+   .+...|..+...+...|++++
T Consensus        87 -----------------------~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~  143 (330)
T 3hym_B           87 -----------------------PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQ  143 (330)
T ss_dssp             -----------------------TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHH
T ss_pred             -----------------------cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHH
Confidence                                   334566677888999999 99999999998763   356789999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006580          431 TLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP  510 (640)
Q Consensus       431 a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  510 (640)
                      |++.++++.+.. +.+...+..+...+...|++++|...+++..+.  .+.+...+..+...+...|++++|.+.++++.
T Consensus       144 A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  220 (330)
T 3hym_B          144 AMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSI--APEDPFVMHEVGVVAFQNGEWKTAEKWFLDAL  220 (330)
T ss_dssp             HHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            999999999853 334567777889999999999999999998863  34567889999999999999999999998875


Q ss_pred             -C----------CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          511 -F----------QPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       511 -~----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                       .          +.+..++..+...+...|++++|...++++++..|.++..+..++.+|.+.|++++|.+.++++.+.
T Consensus       221 ~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  299 (330)
T 3hym_B          221 EKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGL  299 (330)
T ss_dssp             HHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT
T ss_pred             HHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHcc
Confidence             1          3356799999999999999999999999999999999999999999999999999999999976654

>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=4.9e-16  Score=162.05  Aligned_cols=401  Identities=8%  Similarity=-0.003  Sum_probs=276.9

Q ss_pred             HHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCC--C-CeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCC
Q 006580          168 GSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEE--L-DIISWNSLISGCFNSGYGELALDQFYSMRYSGYSP  244 (640)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  244 (640)
                      +..++.  .|.+...|..++. +.+.|++++|..+|+.+.+  | +...|..++..+.+.|++++|..+|++....  .|
T Consensus         3 e~al~~--~P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~p   77 (530)
T 2ooe_A            3 EKKLEE--NPYDLDAWSILIR-EAQNQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--VL   77 (530)
T ss_dssp             HHHHHH--CTTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--CC
T ss_pred             hhHhhh--CCCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--CC
Confidence            334444  5667777777777 3667888888888887763  2 4456777777777888888888888887764  35


Q ss_pred             CcchHHHHHHHH-hccCCchHHHH----HHHHHHHh-CCCC-chhHHHHHHHHHHh---------cCCHHHHHHHHHhcC
Q 006580          245 DEYTISIVINAC-TKLRNLDKGKQ----VFALSVKV-GFLS-NSIVLSATIDLFSK---------CNRLEDSVRLFEQLD  308 (640)
Q Consensus       245 ~~~t~~~ll~~~-~~~~~~~~a~~----~~~~~~~~-~~~~-~~~~~~~l~~~~~~---------~g~~~~A~~~~~~~~  308 (640)
                      +...|...+... ...|+.+.|.+    +|+..+.. |..| +...|...+....+         .|+++.|..+|++..
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            655555555422 34566666554    56555543 4433 34566666665544         577888888887766


Q ss_pred             C-CCh---hhHHHHHHH---H----------HhCCChHHHHHHHHHH------hhCC---CCCCh--------hhHHHHH
Q 006580          309 R-WDY---AVINVMIST---Y----------GRYGFGEVALELFQLM------LRED---IRPTE--------FTLSCVL  354 (640)
Q Consensus       309 ~-~~~---~~~~~li~~---~----------~~~~~~~~a~~~~~~m------~~~~---~~p~~--------~t~~~~l  354 (640)
                      + |..   ..|......   +          .+.+++..|..++..+      .+..   +.|+.        ..|...+
T Consensus       158 ~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~  237 (530)
T 2ooe_A          158 VNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYI  237 (530)
T ss_dssp             TSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHH
T ss_pred             hchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHH
Confidence            5 211   123221111   0          1234566777766653      2221   23331        2333333


Q ss_pred             hhC----CC-CCh----HHHHHHHHHHHHhCCCCchHHHHHHHHHHHh-------cCChH-------HHHHHHHhCCC--
Q 006580          355 SSI----PI-PPV----EHGSQFHSMAIKSGFDSNAVVASSLMEMYAK-------TGSID-------SSTEIFVKLDK--  409 (640)
Q Consensus       355 ~~~----~~-~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~~-------~A~~~~~~~~~--  409 (640)
                      ...    .. ++.    ..+..+++++.... +.++..+..++..+.+       .|+++       +|..+|++..+  
T Consensus       238 ~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~  316 (530)
T 2ooe_A          238 QWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTL  316 (530)
T ss_dssp             HHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTT
T ss_pred             HHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHh
Confidence            211    11 232    36667888888763 5677888888888775       69987       89999998763  


Q ss_pred             -C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC-hh
Q 006580          410 -R-DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDR--ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG-EE  484 (640)
Q Consensus       410 -~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~-~~  484 (640)
                       | +...|..++..+.+.|++++|..+|+++.+  +.|+.  ..|..++..+.+.|++++|.++|++..+.   .|+ ..
T Consensus       317 ~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~---~~~~~~  391 (530)
T 2ooe_A          317 LKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED---ARTRHH  391 (530)
T ss_dssp             CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC---TTCCTH
T ss_pred             CcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhC--ccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc---cCCchH
Confidence             4 577899999999999999999999999998  46653  47888888888899999999999998763   333 33


Q ss_pred             HHHHHHHH-HHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChh----HHHHHHH
Q 006580          485 HYACIIDL-LCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPL----PYSLLTQ  557 (640)
Q Consensus       485 ~~~~l~~~-~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~----~~~~l~~  557 (640)
                      .|...+.. +...|++++|.++|++.. ..| ++..|..++..+...|+.++|..+++++++..|.++.    .|...+.
T Consensus       392 ~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~  471 (530)
T 2ooe_A          392 VYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLA  471 (530)
T ss_dssp             HHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHH
Confidence            33333322 346899999999999876 444 6889999999999999999999999999998776554    7888888


Q ss_pred             HHHhcCChHHHHHHHHHHHhCC
Q 006580          558 AYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       558 ~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      .....|+.+.+..+.+++.+.-
T Consensus       472 ~e~~~G~~~~~~~~~~r~~~~~  493 (530)
T 2ooe_A          472 FESNIGDLASILKVEKRRFTAF  493 (530)
T ss_dssp             HHHHSSCHHHHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC
Confidence            8888999999999999998754

>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=99.80  E-value=4e-14  Score=152.79  Aligned_cols=416  Identities=11%  Similarity=0.090  Sum_probs=302.4

Q ss_pred             chhhHHHHHHHHHccCCchHHHHHHhcCCC-CC-----hhhHHHHHHHHhcCCChhHHHHHhccCCCCCcchHHHHHHHH
Q 006580           49 HTYLGNRCLDLYSRFGTSDDVLQLFDEIPQ-KN-----CISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGY  122 (640)
Q Consensus        49 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~-----~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~y~~li~~~  122 (640)
                      ++.--...++.|...|.+.+|+++++++.- ++     ...-+.++.+..+. +..+..++.+....-+   ...+...+
T Consensus       984 ~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~Ia 1059 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANIA 1059 (1630)
T ss_pred             CHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHHH
Confidence            444456778888899999999999999763 22     24556677666666 4555555555544322   45578888


Q ss_pred             HhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHH
Q 006580          123 ASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGV  202 (640)
Q Consensus       123 ~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  202 (640)
                      ...|.+++|..+|++..     -.......++..+.++++|.++.+..       .+..+|..+..++...|++++|.+.
T Consensus      1060 i~lglyEEAf~IYkKa~-----~~~~A~~VLie~i~nldrAiE~Aerv-------n~p~vWsqLAKAql~~G~~kEAIds 1127 (1630)
T 1xi4_A         1060 ISNELFEEAFAIFRKFD-----VNTSAVQVLIEHIGNLDRAYEFAERC-------NEPAVWSQLAKAQLQKGMVKEAIDS 1127 (1630)
T ss_pred             HhCCCHHHHHHHHHHcC-----CHHHHHHHHHHHHhhHHHHHHHHHhc-------CCHHHHHHHHHHHHhCCCHHHHHHH
Confidence            99999999999999963     22333455666666788888777644       3678899999999999999999999


Q ss_pred             HhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchh
Q 006580          203 FLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSI  282 (640)
Q Consensus       203 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  282 (640)
                      |...  .|...|..++.++.+.|++++|+++|...++..  ++....+.+..+|++.++++....+.    +   .++..
T Consensus      1128 YiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~a 1196 (1630)
T 1xi4_A         1128 YIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNA 1196 (1630)
T ss_pred             HHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHH
Confidence            9774  677788899999999999999999999887754  44433445888999999888644443    2   34666


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CC
Q 006580          283 VLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PP  361 (640)
Q Consensus       283 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~  361 (640)
                      .+..+...|...|++++|..+|...     ..|..+...|++.|++++|.+.+++.      .+..+|..+-.+|.. |+
T Consensus      1197 d~~~iGd~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~E 1265 (1630)
T 1xi4_A         1197 HIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKE 1265 (1630)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhH
Confidence            7778999999999999999999986     48999999999999999999999976      355788888888877 88


Q ss_pred             hHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHH
Q 006580          362 VEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEEL  438 (640)
Q Consensus       362 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m  438 (640)
                      +..|......     +..++..+..++..|.+.|.+++|..+++....   .....|+-+...|++. ++++.++.++-.
T Consensus      1266 f~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy-~peklmEhlk~f 1339 (1630)
T 1xi4_A         1266 FRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKF-KPQKMREHLELF 1339 (1630)
T ss_pred             HHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhC-CHHHHHHHHHHH
Confidence            8887765543     344566677899999999999999999987763   3556777777777765 344444444444


Q ss_pred             HHCC-CCC------CHHHHHHHHHHHhccCCHHHHHHHHHHh----------HHhhCCCCChhHHHHHHHHHHhcC----
Q 006580          439 LEEG-LPP------DRITLAAVLLACNYGGFVDKGMLVFSAM----------KEEYGVMPGEEHYACIIDLLCQAG----  497 (640)
Q Consensus       439 ~~~g-~~p------~~~~~~~ll~~~~~~~~~~~A~~~~~~~----------~~~~~~~p~~~~~~~l~~~~~~~g----  497 (640)
                      .+++ ++|      +...|..++-.|.+.|+++.|....-+-          .+...-..+++.|...+.-|...+    
T Consensus      1340 ~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~kv~n~elyykai~Fyl~~~P~~l 1419 (1630)
T 1xi4_A         1340 WSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEFKPLLL 1419 (1630)
T ss_pred             HHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhcccccHHHHHHHHHHHHhhChHHH
Confidence            4432 333      3456778888888899999887322111          000012345666666666665555    


Q ss_pred             -----------ChHHHHHHHHh
Q 006580          498 -----------QLGKAIDITST  508 (640)
Q Consensus       498 -----------~~~~A~~~~~~  508 (640)
                                 +++++.++|.+
T Consensus      1420 ndLl~~l~~rlD~~R~V~l~~~ 1441 (1630)
T 1xi4_A         1420 NDLLMVLSPRLDHTRAVNYFSK 1441 (1630)
T ss_pred             HHHHHHhhhcCChHHHHHHHHH
Confidence                       66677666663

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.78  E-value=7.8e-17  Score=153.12  Aligned_cols=245  Identities=9%  Similarity=0.037  Sum_probs=183.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHH
Q 006580          285 SATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEH  364 (640)
Q Consensus       285 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~  364 (640)
                      ..+..+|...|+++.|+..++....++..++..+...+...++.++|++.++++...+..|+                  
T Consensus        38 ~~l~r~yi~~g~~~~al~~~~~~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~------------------   99 (291)
T 3mkr_A           38 VFLYRAYLAQRKYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVT------------------   99 (291)
T ss_dssp             HHHHHHHHHTTCHHHHHHHSCTTSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCS------------------
T ss_pred             HHHHHHHHHCCCHHHHHHHhcccCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCC------------------
Confidence            34455666666666666655544334444555666666666666666666666665544443                  


Q ss_pred             HHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCC
Q 006580          365 GSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLP  444 (640)
Q Consensus       365 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  444 (640)
                                     ++..+..+..++.+.|++++|.+.+++  ..+...+..++..+.+.|++++|.+.|+++.+.  .
T Consensus       100 ---------------~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~  160 (291)
T 3mkr_A          100 ---------------NTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ--D  160 (291)
T ss_dssp             ---------------CHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--C
T ss_pred             ---------------CHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--C
Confidence                           333445667889999999999999998  567888999999999999999999999999985  4


Q ss_pred             CCHHHH---HHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHH
Q 006580          445 PDRITL---AAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWE  519 (640)
Q Consensus       445 p~~~~~---~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~  519 (640)
                      |+....   ..++..+...|++++|..+|+++.+.  .+.+...++.+..++.+.|++++|.+.++++. ..| ++.++.
T Consensus       161 p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~  238 (291)
T 3mkr_A          161 EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLI  238 (291)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence            665322   12334445668999999999999885  45678889999999999999999999999977 455 788999


Q ss_pred             HHHHHHHHcCChHH-HHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHH
Q 006580          520 SILRASAIYGDVKL-TENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVK  572 (640)
Q Consensus       520 ~l~~~~~~~~~~~~-a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  572 (640)
                      .++..+...|+.++ +.++++++++.+|.++.+..    ...+.+.++++..-|
T Consensus       239 ~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d----~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          239 NLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKE----YRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHH----HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHH----HHHHHHHHHHHHHHc
Confidence            99999999999876 67899999999999986554    456666776665543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.78  E-value=2.8e-15  Score=154.63  Aligned_cols=364  Identities=10%  Similarity=-0.053  Sum_probs=276.2

Q ss_pred             chhHHHHHHHhhhc----CCChHHHHHHHhccCC-CCeeeHHHHHHHHHh----cCChhHHHHHHHHhHHCCCCCCcchH
Q 006580          179 NVVLGNSLIDMYGK----LGVLYYAFGVFLNMEE-LDIISWNSLISGCFN----SGYGELALDQFYSMRYSGYSPDEYTI  249 (640)
Q Consensus       179 ~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~g~~p~~~t~  249 (640)
                      +...+..|...|..    .+++++|...|+...+ .+...+..|...|..    .+++++|...|++..+.|   +...+
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  114 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQ  114 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            66666777777776    7888888888877653 456677777788887    888889999988887754   45566


Q ss_pred             HHHHHHHhc----cCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----cCCHHHHHHHHHhcCC-CChhhHHHHHH
Q 006580          250 SIVINACTK----LRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSK----CNRLEDSVRLFEQLDR-WDYAVINVMIS  320 (640)
Q Consensus       250 ~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~  320 (640)
                      ..+...+..    .+++++|...|+...+.|   +...+..|..+|..    .++.++|.++|++..+ .+..++..+..
T Consensus       115 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~  191 (490)
T 2xm6_A          115 QNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGY  191 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            666667766    778889999888888775   55667777788877    7788899988887654 45667777877


Q ss_pred             HHHh----CCChHHHHHHHHHHhhCCCCCChhhHHHHHhhC----CC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHH
Q 006580          321 TYGR----YGFGEVALELFQLMLREDIRPTEFTLSCVLSSI----PI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMY  391 (640)
Q Consensus       321 ~~~~----~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~----~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  391 (640)
                      .|..    .++.++|.+.|++..+.|.   ...+..+-..+    .. ++.++|..+++...+.+   ++..+..+..+|
T Consensus       192 ~y~~g~g~~~~~~~A~~~~~~a~~~~~---~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y  265 (490)
T 2xm6_A          192 MYSRGLGVERNDAISAQWYRKSATSGD---ELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYIL  265 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHH
T ss_pred             HHhcCCCCCcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            8877    7888999999988887652   22222222222    23 78888888888887764   345556677777


Q ss_pred             Hh----cCChHHHHHHHHhCCC-CChhHHHHHHHHHHhC-----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC
Q 006580          392 AK----TGSIDSSTEIFVKLDK-RDLVSWNTIMMGLTQN-----GRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGG  461 (640)
Q Consensus       392 ~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  461 (640)
                      ..    .++.++|...|++..+ .+...+..+...|...     +++++|+..|++..+.|   +...+..+...+...|
T Consensus       266 ~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g  342 (490)
T 2xm6_A          266 EQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLG  342 (490)
T ss_dssp             HHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSC
T ss_pred             HCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCC
Confidence            77    7899999999988764 4667777888888877     89999999999998865   3455666666666655


Q ss_pred             ---CHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHh----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCC
Q 006580          462 ---FVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQ----AGQLGKAIDITSTMPFQPGCSIWESILRASAI----YGD  530 (640)
Q Consensus       462 ---~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~  530 (640)
                         ++++|++.|++..+.    .+...+..|...|..    .+++++|.+.+++.....++..+..|...|..    .++
T Consensus       343 ~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~d  418 (490)
T 2xm6_A          343 SEEEHKKAVEWFRKAAAK----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVERD  418 (490)
T ss_dssp             CHHHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCC
T ss_pred             CcccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCCC
Confidence               788999999988774    367788888888888    78999999999887634467888888888887    789


Q ss_pred             hHHHHHHHHHHHhcCCC---ChhHHHHHHHHHHh
Q 006580          531 VKLTENVAERMMDLQLP---SPLPYSLLTQAYAM  561 (640)
Q Consensus       531 ~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~  561 (640)
                      +++|...++++.+.+|+   ++.....++.++..
T Consensus       419 ~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~  452 (490)
T 2xm6_A          419 YVQAWAWFDTASTNDMNLFGTENRNITEKKLTAK  452 (490)
T ss_dssp             HHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHH
T ss_pred             HHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHh
Confidence            99999999999999843   67777777665554

>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=99.76  E-value=2.4e-16  Score=152.46  Aligned_cols=222  Identities=9%  Similarity=0.078  Sum_probs=84.1

Q ss_pred             ccCCchHHHHHHhcCCCCChhhHHHHHHHHhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 006580           62 RFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQ  141 (640)
Q Consensus        62 ~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~  141 (640)
                      +.|++++|.+.++++..|  .+|..+..++.+.|++++|++.|.+  .+|..+|..++..+...|++++|+..++..++.
T Consensus        15 ~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfik--a~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~   90 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK   90 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHc--CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            567788888888888555  4888899999999999999998865  366778888888888889999998877766653


Q ss_pred             CCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHH
Q 006580          142 GVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGC  221 (640)
Q Consensus       142 g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~  221 (640)
                                                         .+++.+.+.|+.+|.+.|+++++.++++.   |+..+|+.+...|
T Consensus        91 -----------------------------------~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~  132 (449)
T 1b89_A           91 -----------------------------------ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRC  132 (449)
T ss_dssp             -----------------------------------------------------CHHHHTTTTTC---C------------
T ss_pred             -----------------------------------CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHH
Confidence                                               12355567788888888888888877753   6667888888888


Q ss_pred             HhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHH
Q 006580          222 FNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSV  301 (640)
Q Consensus       222 ~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  301 (640)
                      ...|.+++|..+|..+         ..|..+..++.+.|++++|.+.+..+      .++.+|..++.+|...|+++.|.
T Consensus       133 ~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~  197 (449)
T 1b89_A          133 YDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQ  197 (449)
T ss_dssp             ----CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHH
Confidence            8888888888888876         36788888888888888888888776      26778888888888888888887


Q ss_pred             HHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhC
Q 006580          302 RLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLRE  341 (640)
Q Consensus       302 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  341 (640)
                      .....+. ..+.-...++..|.+.|++++|..+++.....
T Consensus       198 ~~~l~L~-~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~l  236 (449)
T 1b89_A          198 MCGLHIV-VHADELEELINYYQDRGYFEELITMLEAALGL  236 (449)
T ss_dssp             HTTTTTT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS
T ss_pred             HHHHHHH-hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCC
Confidence            6665544 23333445777888888888888888877643

>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=99.76  E-value=6.3e-17  Score=160.62  Aligned_cols=255  Identities=13%  Similarity=-0.009  Sum_probs=188.7

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHH
Q 006580          314 VINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYA  392 (640)
Q Consensus       314 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  392 (640)
                      .+..+...+.+.|++++|...|+++.+.. +.+...+..+...+.. |+++.|...++.+.+.. +.+...+..+...|.
T Consensus        66 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~  143 (368)
T 1fch_A           66 QPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFT  143 (368)
T ss_dssp             SHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            34455555555555555555555555432 1122333333333333 55555555555555543 445666777788888


Q ss_pred             hcCChHHHHHHHHhCCC--C-ChhHHHH---------------HHHHHHhCCChHHHHHHHHHHHHCCCCC---CHHHHH
Q 006580          393 KTGSIDSSTEIFVKLDK--R-DLVSWNT---------------IMMGLTQNGRAAETLDVFEELLEEGLPP---DRITLA  451 (640)
Q Consensus       393 ~~g~~~~A~~~~~~~~~--~-~~~~~~~---------------li~~~~~~g~~~~a~~~~~~m~~~g~~p---~~~~~~  451 (640)
                      ..|++++|...|+++..  | +...+..               .+..+...|++++|+..++++.+.  .|   +..++.
T Consensus       144 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~  221 (368)
T 1fch_A          144 NESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRL--DPTSIDPDVQC  221 (368)
T ss_dssp             HTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHH--STTSCCHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHh--CcCcccHHHHH
Confidence            88888888888877652  2 2222211               233344889999999999999985  34   467888


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-C-CCCHHHHHHHHHHHHHcC
Q 006580          452 AVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-F-QPGCSIWESILRASAIYG  529 (640)
Q Consensus       452 ~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~  529 (640)
                      .+...+...|++++|+..++++.+.  .+.+...+..+...+.+.|++++|.+.++++. . +.+...+..+...+...|
T Consensus       222 ~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g  299 (368)
T 1fch_A          222 GLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLG  299 (368)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCC
Confidence            9999999999999999999998874  24457789999999999999999999999986 3 447889999999999999


Q ss_pred             ChHHHHHHHHHHHhcCCCC-----------hhHHHHHHHHHHhcCChHHHHHHHHH
Q 006580          530 DVKLTENVAERMMDLQLPS-----------PLPYSLLTQAYAMRGRWEAIVRVKKV  574 (640)
Q Consensus       530 ~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~a~~~~~~  574 (640)
                      ++++|...++++++..|.+           ..+|..++.+|...|++++|..++++
T Consensus       300 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          300 AHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             CHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             CHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHH
Confidence            9999999999999998877           78999999999999999999998764

>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=99.76  E-value=5.3e-17  Score=157.04  Aligned_cols=287  Identities=13%  Similarity=0.050  Sum_probs=118.1

Q ss_pred             cCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHH
Q 006580          192 KLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFAL  271 (640)
Q Consensus       192 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~  271 (640)
                      +.|++++|.++++++..|  .+|..|..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|...++.
T Consensus        15 ~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~   86 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            567788999999988655  48889999999999999999988652      6777888889999999999999997777


Q ss_pred             HHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHH
Q 006580          272 SVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLS  351 (640)
Q Consensus       272 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~  351 (640)
                      .++.  .+++.+.+.++.+|.+.|+++++.++++   .|+..+|+.+...|...|.+++|...|..+         ..|.
T Consensus        87 ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~---~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~  152 (449)
T 1b89_A           87 ARKK--ARESYVETELIFALAKTNRLAELEEFIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFG  152 (449)
T ss_dssp             ------------------------CHHHHTTTTT---CC----------------CTTTHHHHHHHT---------TCHH
T ss_pred             HHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHH
Confidence            7664  4557788889999999999988887775   366678888899999999999999998876         3677


Q ss_pred             HHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHH
Q 006580          352 CVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAE  430 (640)
Q Consensus       352 ~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  430 (640)
                      .+..++.+ |+++.|.+.+..+      .++.++..++.+|...|+++.|......+. .++.-...++..|.+.|++++
T Consensus       153 ~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eE  225 (449)
T 1b89_A          153 RLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEE  225 (449)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHH
Confidence            77777777 7777777777766      266777788888888888888876666554 333344467777888888888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCC------ChhHHHHHHHHHHhcCChHHHHH
Q 006580          431 TLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMP------GEEHYACIIDLLCQAGQLGKAID  504 (640)
Q Consensus       431 a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p------~~~~~~~l~~~~~~~g~~~~A~~  504 (640)
                      |+.+++...... +--...|+.+.-++++- ++++.++.++...++.+++|      +...|..++-.|..-++++.|..
T Consensus       226 ai~lLe~aL~le-~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~  303 (449)
T 1b89_A          226 LITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  303 (449)
T ss_dssp             HHHHHHHHTTST-TCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHhCCc-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHH
Confidence            888888777532 22334555555555543 34444444443333334444      35567777788888888887776


Q ss_pred             HHHhC
Q 006580          505 ITSTM  509 (640)
Q Consensus       505 ~~~~~  509 (640)
                      .+-+-
T Consensus       304 tm~~h  308 (449)
T 1b89_A          304 TMMNH  308 (449)
T ss_dssp             HHHHS
T ss_pred             HHHhC
Confidence            65544

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.74  E-value=2.3e-14  Score=147.79  Aligned_cols=353  Identities=12%  Similarity=0.029  Sum_probs=290.3

Q ss_pred             CCCeeeHHHHHHHHHh----cCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhc----cCCchHHHHHHHHHHHhCCCC
Q 006580          208 ELDIISWNSLISGCFN----SGYGELALDQFYSMRYSGYSPDEYTISIVINACTK----LRNLDKGKQVFALSVKVGFLS  279 (640)
Q Consensus       208 ~~~~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~  279 (640)
                      ..+...+..+...|..    .+++++|+..|++..+.|   +...+..+...+..    .++.++|.+.|+...+.|   
T Consensus        36 ~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---  109 (490)
T 2xm6_A           36 SGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---  109 (490)
T ss_dssp             TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---
T ss_pred             CCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---
Confidence            4466777778888888    899999999999998864   55677778888887    899999999999998876   


Q ss_pred             chhHHHHHHHHHHh----cCCHHHHHHHHHhcCCC-ChhhHHHHHHHHHh----CCChHHHHHHHHHHhhCCCCCChhhH
Q 006580          280 NSIVLSATIDLFSK----CNRLEDSVRLFEQLDRW-DYAVINVMISTYGR----YGFGEVALELFQLMLREDIRPTEFTL  350 (640)
Q Consensus       280 ~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~t~  350 (640)
                      +...+..|..+|..    .+++++|..+|++..+. +..++..|...|..    .++.++|++.|++..+.|   +...+
T Consensus       110 ~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~  186 (490)
T 2xm6_A          110 LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSC  186 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            56677788888988    88999999999987654 56678888888887    789999999999998875   33333


Q ss_pred             HHHHhh----CCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh----cCChHHHHHHHHhCC-CCChhHHHHHHH
Q 006580          351 SCVLSS----IPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAK----TGSIDSSTEIFVKLD-KRDLVSWNTIMM  420 (640)
Q Consensus       351 ~~~l~~----~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~-~~~~~~~~~li~  420 (640)
                      ..+-..    ... ++.++|...+....+.+   ++..+..+...|..    .+++++|...|++.. ..+...+..+..
T Consensus       187 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~  263 (490)
T 2xm6_A          187 NQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGY  263 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            222222    233 89999999999998875   45667778888886    889999999999876 456777888888


Q ss_pred             HHHh----CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc-----CCHHHHHHHHHHhHHhhCCCCChhHHHHHHH
Q 006580          421 GLTQ----NGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYG-----GFVDKGMLVFSAMKEEYGVMPGEEHYACIID  491 (640)
Q Consensus       421 ~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-----~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  491 (640)
                      .|..    .+++++|++.|++..+.|   +...+..+...+...     +++++|+..+++..+. +   +...+..+..
T Consensus       264 ~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~  336 (490)
T 2xm6_A          264 ILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ-G---DATAQANLGA  336 (490)
T ss_dssp             HHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT-T---CHHHHHHHHH
T ss_pred             HHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc-C---CHHHHHHHHH
Confidence            8887    899999999999998765   445666677777766     8999999999998875 3   4567788888


Q ss_pred             HHHhcC---ChHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHh---
Q 006580          492 LLCQAG---QLGKAIDITSTMPFQPGCSIWESILRASAI----YGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAM---  561 (640)
Q Consensus       492 ~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~---  561 (640)
                      .|...|   ++++|++.+++.....++..+..|...|..    .+++++|...++++.+.+  ++..+..|+.+|..   
T Consensus       337 ~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~g  414 (490)
T 2xm6_A          337 IYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSAAQVQLGEIYYYGLG  414 (490)
T ss_dssp             HHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSS
T ss_pred             HHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHcCCC
Confidence            888766   789999999988744678899999999988    899999999999999875  57889999999998   


Q ss_pred             -cCChHHHHHHHHHHHhCCCc
Q 006580          562 -RGRWEAIVRVKKVMRKNGIN  581 (640)
Q Consensus       562 -~g~~~~a~~~~~~m~~~~~~  581 (640)
                       .+++++|..++++..+.+..
T Consensus       415 ~~~d~~~A~~~~~~A~~~~~~  435 (490)
T 2xm6_A          415 VERDYVQAWAWFDTASTNDMN  435 (490)
T ss_dssp             SCCCHHHHHHHHHHHHHHHCC
T ss_pred             CCCCHHHHHHHHHHHHHCCCC
Confidence             89999999999999988743

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.73  E-value=1.8e-16  Score=157.11  Aligned_cols=270  Identities=9%  Similarity=-0.042  Sum_probs=180.1

Q ss_pred             cchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHH
Q 006580          246 EYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMISTY  322 (640)
Q Consensus       246 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~  322 (640)
                      ...+..+...+.+.|++++|...++.+++.. +.+..++..+..+|.+.|++++|+..|+++.+   .+..+|..+...|
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  143 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSY  143 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            3446666666666666666666666666554 22445555555555555555555555555432   2334455555555


Q ss_pred             HhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHH
Q 006580          323 GRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTE  402 (640)
Q Consensus       323 ~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  402 (640)
                      ...|++++|...|+++.+.  .|+..                                 ..+..+               
T Consensus       144 ~~~g~~~~A~~~~~~al~~--~p~~~---------------------------------~~~~~~---------------  173 (365)
T 4eqf_A          144 TNTSHQQDACEALKNWIKQ--NPKYK---------------------------------YLVKNK---------------  173 (365)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CHHHH---------------------------------CC-------------------
T ss_pred             HccccHHHHHHHHHHHHHh--Cccch---------------------------------HHHhhh---------------
Confidence            5555555555555554431  11000                                 000000               


Q ss_pred             HHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCC
Q 006580          403 IFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLP-PDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMP  481 (640)
Q Consensus       403 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p  481 (640)
                            ......+..+...+...|++++|++.++++.+.... ++..++..+...+...|++++|+..++++.+.  .+.
T Consensus       174 ------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~  245 (365)
T 4eqf_A          174 ------KGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTV--RPE  245 (365)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTT
T ss_pred             ------ccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCC
Confidence                  011233455677888899999999999999985311 15778888999999999999999999998874  344


Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC------------
Q 006580          482 GEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLP------------  547 (640)
Q Consensus       482 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~------------  547 (640)
                      +...|..+..+|.+.|++++|.+.++++. ..| +..++..+...|...|++++|...++++++..|.            
T Consensus       246 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  325 (365)
T 4eqf_A          246 DYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAI  325 (365)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC-----------
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhh
Confidence            67789999999999999999999999887 444 6889999999999999999999999999999765            


Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHH
Q 006580          548 SPLPYSLLTQAYAMRGRWEAIVRVKKV  574 (640)
Q Consensus       548 ~~~~~~~l~~~~~~~g~~~~a~~~~~~  574 (640)
                      +...|..++.++...|+.+.+..+.++
T Consensus       326 ~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          326 SGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             -CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            367899999999999999988887654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.73  E-value=2.9e-16  Score=155.64  Aligned_cols=232  Identities=11%  Similarity=0.032  Sum_probs=188.4

Q ss_pred             ChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHH
Q 006580          311 DYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEM  390 (640)
Q Consensus       311 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  390 (640)
                      +...|..+...+.+.|++++|...|+++.+..                                   +.+...+..+..+
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-----------------------------------p~~~~~~~~lg~~  108 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-----------------------------------PGDAEAWQFLGIT  108 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-----------------------------------TTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-----------------------------------cCCHHHHHHHHHH
Confidence            34457777888888888888888888877632                                   3345566778888


Q ss_pred             HHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH-----------HHHHHHHH
Q 006580          391 YAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI-----------TLAAVLLA  456 (640)
Q Consensus       391 ~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-----------~~~~ll~~  456 (640)
                      |.+.|++++|...|+++.   ..+..+|..+...|...|++++|+..++++.+.  .|+..           .+..+...
T Consensus       109 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~l~~~  186 (365)
T 4eqf_A          109 QAENENEQAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQDACEALKNWIKQ--NPKYKYLVKNKKGSPGLTRRMSKS  186 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHCC-----------------
T ss_pred             HHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CccchHHHhhhccchHHHHHHHHH
Confidence            888999999999988876   245778999999999999999999999999884  34332           23345778


Q ss_pred             HhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHH
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLT  534 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a  534 (640)
                      +...|++++|+..++++.+.....++...+..+...|.+.|++++|++.++++.  .+.+..+|..+...+...|++++|
T Consensus       187 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  266 (365)
T 4eqf_A          187 PVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEA  266 (365)
T ss_dssp             --CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            899999999999999998762222368899999999999999999999999987  444788999999999999999999


Q ss_pred             HHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          535 ENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       535 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ...++++++.+|.++..+..++.+|.+.|++++|...++++.+..
T Consensus       267 ~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  311 (365)
T 4eqf_A          267 VEAYTRALEIQPGFIRSRYNLGISCINLGAYREAVSNFLTALSLQ  311 (365)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            999999999999999999999999999999999999999998754

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.73  E-value=2.3e-15  Score=142.91  Aligned_cols=244  Identities=10%  Similarity=-0.014  Sum_probs=198.7

Q ss_pred             HHHHhcCCHHHHHHHHHhcCCCCh----hhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHH
Q 006580          289 DLFSKCNRLEDSVRLFEQLDRWDY----AVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEH  364 (640)
Q Consensus       289 ~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~  364 (640)
                      +-....|+++.|+..++.....++    .....+..+|...|+++.|+..++..     .                    
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~-----~--------------------   61 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPS-----S--------------------   61 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT-----S--------------------
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhccc-----C--------------------
Confidence            345567899999999888765432    34456778999999999988755431     1                    


Q ss_pred             HHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC----CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHH
Q 006580          365 GSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD----KR-DLVSWNTIMMGLTQNGRAAETLDVFEELL  439 (640)
Q Consensus       365 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  439 (640)
                                   +|+...+..+...+...++.++|.+.++++.    .| +...+..+...+...|++++|++.+++  
T Consensus        62 -------------~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--  126 (291)
T 3mkr_A           62 -------------APELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--  126 (291)
T ss_dssp             -------------CHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--
T ss_pred             -------------ChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--
Confidence                         3445566778889999999999999999864    24 566777788999999999999999987  


Q ss_pred             HCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhH---HHHHHHHHHhcCChHHHHHHHHhCC--CCCC
Q 006580          440 EEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEH---YACIIDLLCQAGQLGKAIDITSTMP--FQPG  514 (640)
Q Consensus       440 ~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~  514 (640)
                          +.+...+..+...+.+.|++++|.+.++.+.+.   .|+...   ...++..+...|++++|..+|+++.  .+.+
T Consensus       127 ----~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~  199 (291)
T 3mkr_A          127 ----GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPT  199 (291)
T ss_dssp             ----CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCC
T ss_pred             ----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCc
Confidence                456778889999999999999999999999876   355321   1233455556699999999999987  5568


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHH-HHHHHHHHHhCC
Q 006580          515 CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEA-IVRVKKVMRKNG  579 (640)
Q Consensus       515 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~-a~~~~~~m~~~~  579 (640)
                      +..|+.+..++...|++++|+..++++++.+|.++.++..++.++...|++++ +.++++++.+..
T Consensus       200 ~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~  265 (291)
T 3mkr_A          200 LLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH  265 (291)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            89999999999999999999999999999999999999999999999999976 578999888765

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.73  E-value=1e-14  Score=152.13  Aligned_cols=396  Identities=12%  Similarity=0.036  Sum_probs=259.8

Q ss_pred             CcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhh
Q 006580          111 DVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMY  190 (640)
Q Consensus       111 ~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  190 (640)
                      |...|..++. +.+.|+++.|..+|+++.+.                                  +|.+...|..++..+
T Consensus        12 ~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~----------------------------------~P~~~~~w~~~~~~~   56 (530)
T 2ooe_A           12 DLDAWSILIR-EAQNQPIDKARKTYERLVAQ----------------------------------FPSSGRFWKLYIEAE   56 (530)
T ss_dssp             CHHHHHHHHH-HHHSSCHHHHHHHHHHHHTT----------------------------------CTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHH-HHHhCCHHHHHHHHHHHHHH----------------------------------CCCCHHHHHHHHHHH
Confidence            4556777776 36677777777777777765                                  566666777777777


Q ss_pred             hcCCChHHHHHHHhccCC--CCeeeHHHHHHHH-HhcCChhHHHH----HHHHhHH-CCCCCCc-chHHHHHHHHhc---
Q 006580          191 GKLGVLYYAFGVFLNMEE--LDIISWNSLISGC-FNSGYGELALD----QFYSMRY-SGYSPDE-YTISIVINACTK---  258 (640)
Q Consensus       191 ~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~-~~~~~~~~A~~----~~~~m~~-~g~~p~~-~t~~~ll~~~~~---  258 (640)
                      .+.|++++|..+|++...  |++..|...+... ...|+.+.|.+    +|++... .|..|+. ..|...+.....   
T Consensus        57 ~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~  136 (530)
T 2ooe_A           57 IKAKNYDKVEKLFQRCLMKVLHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEA  136 (530)
T ss_dssp             HHTTCHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCC
T ss_pred             HhcCCHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCC
Confidence            777777777777777653  4444555554322 23456655544    5555433 2444432 344444444332   


Q ss_pred             ------cCCchHHHHHHHHHHHhCCCCchhHHHHHHHHH-------------HhcCCHHHHHHHHHh-------cCC---
Q 006580          259 ------LRNLDKGKQVFALSVKVGFLSNSIVLSATIDLF-------------SKCNRLEDSVRLFEQ-------LDR---  309 (640)
Q Consensus       259 ------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-------------~~~g~~~~A~~~~~~-------~~~---  309 (640)
                            .|+++.|..+|+..++....+....|.......             .+.+++..|..++..       +..   
T Consensus       137 ~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~  216 (530)
T 2ooe_A          137 VGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAP  216 (530)
T ss_dssp             CSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSC
T ss_pred             cccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccc
Confidence                  566777777777776621111112332222111             123456666665554       111   


Q ss_pred             ---CC--------hhhHHHHHHHHHhC----CCh----HHHHHHHHHHhhCCCCC-ChhhHHHHHhhCC--------CCC
Q 006580          310 ---WD--------YAVINVMISTYGRY----GFG----EVALELFQLMLREDIRP-TEFTLSCVLSSIP--------IPP  361 (640)
Q Consensus       310 ---~~--------~~~~~~li~~~~~~----~~~----~~a~~~~~~m~~~~~~p-~~~t~~~~l~~~~--------~~~  361 (640)
                         |+        ...|...+......    ++.    ..+..+|++....  .| +...|......+.        .|+
T Consensus       217 ~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~--~p~~~~~w~~~~~~~~~~~~~~~~~g~  294 (530)
T 2ooe_A          217 SVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLV--LGHHPDIWYEAAQYLEQSSKLLAEKGD  294 (530)
T ss_dssp             CCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             cCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhchhhhhccc
Confidence               11        23455544333222    222    3677788887764  33 3334444433332        377


Q ss_pred             hH-------HHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC--CCC-h-hHHHHHHHHHHhCCChHH
Q 006580          362 VE-------HGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD--KRD-L-VSWNTIMMGLTQNGRAAE  430 (640)
Q Consensus       362 ~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~-~-~~~~~li~~~~~~g~~~~  430 (640)
                      ++       .|..+++...+.-.|.+...+..++..+.+.|++++|..+|+++.  .|+ . ..|..++..+.+.|++++
T Consensus       295 ~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~  374 (530)
T 2ooe_A          295 MNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKS  374 (530)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHH
Confidence            66       888888888864345678888999999999999999999999887  343 3 478999998999999999


Q ss_pred             HHHHHHHHHHCCCCCC-HHHHHHHHHH-HhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHh
Q 006580          431 TLDVFEELLEEGLPPD-RITLAAVLLA-CNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITST  508 (640)
Q Consensus       431 a~~~~~~m~~~g~~p~-~~~~~~ll~~-~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  508 (640)
                      |.++|++..+.  .|+ ...|...... +...|+.++|..+|+...+..  +.+...|..++..+.+.|+.++|..+|++
T Consensus       375 A~~~~~~Al~~--~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~  450 (530)
T 2ooe_A          375 GRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFER  450 (530)
T ss_dssp             HHHHHHHHHTC--TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhc--cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHH
Confidence            99999999985  333 3333332222 335899999999999988752  34578899999999999999999999999


Q ss_pred             CC-C---CC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 006580          509 MP-F---QP--GCSIWESILRASAIYGDVKLTENVAERMMDLQLP  547 (640)
Q Consensus       509 ~~-~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  547 (640)
                      +. .   .|  ....|...+......|+.+.+..+.+++.+..|.
T Consensus       451 al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p~  495 (530)
T 2ooe_A          451 VLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFRE  495 (530)
T ss_dssp             HHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTHH
T ss_pred             HHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCch
Confidence            76 2   22  2448988899999999999999999999999883

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.73  E-value=2.2e-15  Score=155.00  Aligned_cols=363  Identities=12%  Similarity=-0.010  Sum_probs=207.1

Q ss_pred             eHHHHHHHHHhcCChhHHHHHHHHhHHC-----C--CCC-CcchHHHHHHHHhccCCchHHHHHHHHHHHhC------CC
Q 006580          213 SWNSLISGCFNSGYGELALDQFYSMRYS-----G--YSP-DEYTISIVINACTKLRNLDKGKQVFALSVKVG------FL  278 (640)
Q Consensus       213 ~~~~li~~~~~~~~~~~A~~~~~~m~~~-----g--~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~  278 (640)
                      .||.|...+...|++++|++.|++..+.     +  ..| ...+|+.+..++...|++++|...++.+.+..      ..
T Consensus        53 ~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~  132 (472)
T 4g1t_A           53 MCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYR  132 (472)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccc
Confidence            4555555555555555555555544321     0  112 22355666666666666666666666554421      01


Q ss_pred             -CchhHHHHHHHHHHhc--CCHHHHHHHHHhcCC--C-ChhhHHHHHHH---HHhCCChHHHHHHHHHHhhCCCCCChh-
Q 006580          279 -SNSIVLSATIDLFSKC--NRLEDSVRLFEQLDR--W-DYAVINVMIST---YGRYGFGEVALELFQLMLREDIRPTEF-  348 (640)
Q Consensus       279 -~~~~~~~~l~~~~~~~--g~~~~A~~~~~~~~~--~-~~~~~~~li~~---~~~~~~~~~a~~~~~~m~~~~~~p~~~-  348 (640)
                       ....++..+..++.+.  +++++|++.|++..+  | +...+..+...   +...++.++|++.+++..+.  .|+.. 
T Consensus       133 ~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l--~p~~~~  210 (472)
T 4g1t_A          133 IESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRL--NPDNQY  210 (472)
T ss_dssp             CCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHH--CSSCHH
T ss_pred             hhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhc--CCcchH
Confidence             1223444444444433  356777777776543  2 33344443333   34456667777777776653  33322 


Q ss_pred             hHHHH---HhhC-CC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC--CC-ChhHHHHHHH
Q 006580          349 TLSCV---LSSI-PI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD--KR-DLVSWNTIMM  420 (640)
Q Consensus       349 t~~~~---l~~~-~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~  420 (640)
                      .+..+   +..+ .. ++.+.|...++...... +.+..++..+...|.+.|++++|...|.+..  .| +..++..+..
T Consensus       211 ~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~  289 (472)
T 4g1t_A          211 LKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGC  289 (472)
T ss_dssp             HHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHH
Confidence            22221   1122 23 77778888887777765 5566677788888888889988888888876  23 4455665555


Q ss_pred             HHHh-------------------CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCC
Q 006580          421 GLTQ-------------------NGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMP  481 (640)
Q Consensus       421 ~~~~-------------------~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p  481 (640)
                      +|..                   .+.++.|...+++..+.. +.+..++..+...+...|++++|+..|++..+. ...|
T Consensus       290 ~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~-~~~~  367 (472)
T 4g1t_A          290 CYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSK-ELTP  367 (472)
T ss_dssp             HHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS-CCCH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhc-CCCC
Confidence            5432                   123567888888887742 333456778888999999999999999988764 3222


Q ss_pred             Ch--hHHHHHHH-HHHhcCChHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHH
Q 006580          482 GE--EHYACIID-LLCQAGQLGKAIDITSTMP-FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQ  557 (640)
Q Consensus       482 ~~--~~~~~l~~-~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  557 (640)
                      ..  ..+..+.. .+...|+.++|++.+++.. +.|+......         ....+..++++.++.+|.++.+|..|+.
T Consensus       368 ~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~---------~~~~l~~~~~~~l~~~p~~~~~~~~LG~  438 (472)
T 4g1t_A          368 VAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEK---------MKDKLQKIAKMRLSKNGADSEALHVLAF  438 (472)
T ss_dssp             HHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHH---------HHHHHHHHHHHHHHHCC-CTTHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHH---------HHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            21  12233333 2357789999999998876 6665443222         2345667888889999999999999999


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCccCCceeeE
Q 006580          558 AYAMRGRWEAIVRVKKVMRKNGINKVTGCSWI  589 (640)
Q Consensus       558 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  589 (640)
                      +|...|++++|++.+++..+.+.......+|+
T Consensus       439 ~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~  470 (472)
T 4g1t_A          439 LQELNEKMQQADEDSERGLESGSLIPSASSWN  470 (472)
T ss_dssp             HHHHHHHCC-----------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcC
Confidence            99999999999999999988765433334443

>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=99.72  E-value=4.8e-16  Score=154.22  Aligned_cols=298  Identities=10%  Similarity=-0.012  Sum_probs=180.7

Q ss_pred             hcCChhHHHH-HHHHhHHCC---CCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHH
Q 006580          223 NSGYGELALD-QFYSMRYSG---YSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLE  298 (640)
Q Consensus       223 ~~~~~~~A~~-~~~~m~~~g---~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  298 (640)
                      ..|++++|+. .+++.....   ...+...+..+...+...|++++|...++.+++.. +.+..++..+..++.+.|+++
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  115 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQEL  115 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHH
Confidence            3456666666 555443221   01123456666666666677777777776666653 234556666777777777777


Q ss_pred             HHHHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHh
Q 006580          299 DSVRLFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKS  375 (640)
Q Consensus       299 ~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~  375 (640)
                      +|...|+++.+   .+..++..+...+...|++++|...|+++.+..  |+.......+     +.....          
T Consensus       116 ~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~-----~~~~~~----------  178 (368)
T 1fch_A          116 LAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYT--PAYAHLVTPA-----EEGAGG----------  178 (368)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTGGGCC-----------------------
T ss_pred             HHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCcHHHHHHH-----HHHhhh----------
Confidence            77777766543   355667777777788888888888888777643  3222110000     000000          


Q ss_pred             CCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC--CC---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHH
Q 006580          376 GFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD--KR---DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITL  450 (640)
Q Consensus       376 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  450 (640)
                       ..+ ...+..+...+ ..|++++|...|+++.  .|   +...+..+...+...|++++|+..++++.+.. +.+..++
T Consensus       179 -~~~-~~~~~~~~~~~-~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~  254 (368)
T 1fch_A          179 -AGL-GPSKRILGSLL-SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLW  254 (368)
T ss_dssp             ---------CTTHHHH-HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             -hcc-cHHHHHHHHHh-hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHH
Confidence             000 00111222223 6677777777777765  23   35677777778888888888888888877742 3345677


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-C-----------HHH
Q 006580          451 AAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-G-----------CSI  517 (640)
Q Consensus       451 ~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~-----------~~~  517 (640)
                      ..+...+...|++++|+..++++.+.  .+.+...+..+..+|.+.|++++|.+.++++. ..| +           ..+
T Consensus       255 ~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  332 (368)
T 1fch_A          255 NKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENI  332 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHH
Confidence            77777788888888888888877764  23456677778888888888888888877765 112 2           577


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          518 WESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       518 ~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                      |..+..++...|++++|..++++.++.
T Consensus       333 ~~~l~~~~~~~g~~~~A~~~~~~~l~~  359 (368)
T 1fch_A          333 WSTLRLALSMLGQSDAYGAADARDLST  359 (368)
T ss_dssp             HHHHHHHHHHHTCGGGHHHHHTTCHHH
T ss_pred             HHHHHHHHHHhCChHhHHHhHHHHHHH
Confidence            888888888888888888887765543

>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=99.72  E-value=6.1e-16  Score=150.61  Aligned_cols=151  Identities=11%  Similarity=0.036  Sum_probs=132.0

Q ss_pred             HHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHH
Q 006580          422 LTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGK  501 (640)
Q Consensus       422 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  501 (640)
                      +...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.  .+.+...+..+...+...|++++
T Consensus       148 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~  224 (327)
T 3cv0_A          148 FAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQE  224 (327)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHH
Confidence            667788999999999998853 446678888889999999999999999998874  24457788999999999999999


Q ss_pred             HHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC------------ChhHHHHHHHHHHhcCChHH
Q 006580          502 AIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLP------------SPLPYSLLTQAYAMRGRWEA  567 (640)
Q Consensus       502 A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~  567 (640)
                      |.+.++++.  .+.+..++..+...+...|++++|...++++++..|.            ++..+..++.++.+.|++++
T Consensus       225 A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  304 (327)
T 3cv0_A          225 ALDAYNRALDINPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDL  304 (327)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHH
Confidence            999999876  3447889999999999999999999999999999998            78899999999999999999


Q ss_pred             HHHHHHHH
Q 006580          568 IVRVKKVM  575 (640)
Q Consensus       568 a~~~~~~m  575 (640)
                      |..++++.
T Consensus       305 A~~~~~~~  312 (327)
T 3cv0_A          305 VELTYAQN  312 (327)
T ss_dssp             HHHHTTCC
T ss_pred             HHHHHHHH
Confidence            99988744

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.66  E-value=4.2e-14  Score=145.44  Aligned_cols=390  Identities=12%  Similarity=-0.009  Sum_probs=230.5

Q ss_pred             CcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhh
Q 006580          111 DVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMY  190 (640)
Q Consensus       111 ~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  190 (640)
                      ....||.|...+...|++++|++.|++..+.                         +.........+....+|+.+..+|
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~-------------------------~~~~~~~~~~~~~~~~~~nla~~y  104 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEEL-------------------------IQQEHADQAEIRSLVTWGNYAWVY  104 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------------------------HHHHSGGGCTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-------------------------HHhcCccccchHHHHHHHHHHHHH
Confidence            3557888888999999999999999887542                         000000000344567889999999


Q ss_pred             hcCCChHHHHHHHhccCC-------C----CeeeHHHHHHHHHh--cCChhHHHHHHHHhHHCCCCCCcc-hHHHHHHH-
Q 006580          191 GKLGVLYYAFGVFLNMEE-------L----DIISWNSLISGCFN--SGYGELALDQFYSMRYSGYSPDEY-TISIVINA-  255 (640)
Q Consensus       191 ~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~--~~~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~-  255 (640)
                      ...|++++|...++...+       +    ...++..+..++..  .+++++|+..|++..+.  .|+.. .+..+..+ 
T Consensus       105 ~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~  182 (472)
T 4g1t_A          105 YHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIAS  182 (472)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            999999999988876541       1    12345544444544  45789999999998874  45544 33333333 


Q ss_pred             --HhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----cCCHHHHHHHHHhcCC---CChhhHHHHHHHHHhCC
Q 006580          256 --CTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSK----CNRLEDSVRLFEQLDR---WDYAVINVMISTYGRYG  326 (640)
Q Consensus       256 --~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~  326 (640)
                        +...++.++|.+.++..++... .+..++..+...+..    .|+.++|.+.+++...   .+..++..+...|...|
T Consensus       183 ~~l~~~~~~~~al~~~~~al~l~p-~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~  261 (472)
T 4g1t_A          183 YRLDNWPPSQNAIDPLRQAIRLNP-DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKD  261 (472)
T ss_dssp             HHHHHSCCCCCTHHHHHHHHHHCS-SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTT
T ss_pred             HHhcCchHHHHHHHHHHHHhhcCC-cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcC
Confidence              4456788889999998888752 345556555555544    4667889988887643   45667888999999999


Q ss_pred             ChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHh
Q 006580          327 FGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVK  406 (640)
Q Consensus       327 ~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  406 (640)
                      ++++|...+++..+.  .|+.......+..+          .........    ..............+..+.|...|+.
T Consensus       262 ~~~~A~~~~~~al~~--~p~~~~~~~~lg~~----------y~~~~~~~~----~~~~~~~~~~~~~~~~~~~A~~~~~~  325 (472)
T 4g1t_A          262 EPDKAIELLKKALEY--IPNNAYLHCQIGCC----------YRAKVFQVM----NLRENGMYGKRKLLELIGHAVAHLKK  325 (472)
T ss_dssp             CHHHHHHHHHHHHHH--STTCHHHHHHHHHH----------HHHHHHHHH----HC------CHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHh--CCChHHHHHHHHHH----------HHHHHHHhh----hHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            999999999998874  45433321111110          000000000    00000000111112335667777766


Q ss_pred             CC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH--HHHHHHH-HHhccCCHHHHHHHHHHhHHhhCCC
Q 006580          407 LD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI--TLAAVLL-ACNYGGFVDKGMLVFSAMKEEYGVM  480 (640)
Q Consensus       407 ~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--~~~~ll~-~~~~~~~~~~A~~~~~~~~~~~~~~  480 (640)
                      ..   ..+...+..+...+...|++++|++.|++..+....|...  .+..+.. .....|++++|+..|++..+   +.
T Consensus       326 a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~  402 (472)
T 4g1t_A          326 ADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---IN  402 (472)
T ss_dssp             HHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SC
T ss_pred             HhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cC
Confidence            55   3456788889999999999999999999999854333322  2222222 24578999999999998775   45


Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHH
Q 006580          481 PGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLT  556 (640)
Q Consensus       481 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  556 (640)
                      |+........         ..+.++++...  .+.++.+|..+...+...|++++|++.|+++++.+|.+|.++..++
T Consensus       403 ~~~~~~~~~~---------~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          403 QKSREKEKMK---------DKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             CCCHHHHHHH---------HHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC------------------------
T ss_pred             cccHHHHHHH---------HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence            5544333222         23334444433  3447789999999999999999999999999999998777666554

>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=99.66  E-value=4.3e-14  Score=137.47  Aligned_cols=228  Identities=12%  Similarity=0.030  Sum_probs=113.3

Q ss_pred             eeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 006580          211 IISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDL  290 (640)
Q Consensus       211 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  290 (640)
                      ...+..+...+...|++++|..+|+++.+.. +.+..++..+..++...|++++|...++.+++.. +.+..        
T Consensus        21 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~--------   90 (327)
T 3cv0_A           21 HENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIA--------   90 (327)
T ss_dssp             SSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH--------
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHH--------
Confidence            3445555666666666666666666665532 1233345555555555566666655555555543 12333        


Q ss_pred             HHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHH--------------hh
Q 006580          291 FSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVL--------------SS  356 (640)
Q Consensus       291 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l--------------~~  356 (640)
                                             ++..+...+...|++++|.+.++++.+..  |+.......+              ..
T Consensus        91 -----------------------~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~  145 (327)
T 3cv0_A           91 -----------------------VHAALAVSHTNEHNANAALASLRAWLLSQ--PQYEQLGSVNLQADVDIDDLNVQSED  145 (327)
T ss_dssp             -----------------------HHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTTTC--------------------
T ss_pred             -----------------------HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHhHHHHHHHHHHHHHHh
Confidence                                   44444445555555555555555554431  2211111111              11


Q ss_pred             --CCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHH
Q 006580          357 --IPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAE  430 (640)
Q Consensus       357 --~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~  430 (640)
                        +.. |+.+.|...++.+.+.. +.+...+..+...|.+.|++++|...++++.   ..+...|..+...+...|++++
T Consensus       146 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  224 (327)
T 3cv0_A          146 FFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQE  224 (327)
T ss_dssp             CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHH
Confidence              333 56666666666555543 2344455555555555555555555555544   1234455555555555555555


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 006580          431 TLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKE  475 (640)
Q Consensus       431 a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~  475 (640)
                      |+..++++.+.. +.+..++..+...+...|++++|.+.++++.+
T Consensus       225 A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  268 (327)
T 3cv0_A          225 ALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIY  268 (327)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            555555555431 22334455555555555555555555555443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.65  E-value=7.6e-15  Score=133.09  Aligned_cols=194  Identities=11%  Similarity=-0.002  Sum_probs=159.3

Q ss_pred             CCchHHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC-CHHHHHHH
Q 006580          378 DSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPP-DRITLAAV  453 (640)
Q Consensus       378 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~l  453 (640)
                      |+++..+..+...+.+.|++++|...|++..+   .+...|..+...+.+.|++++|+..+++..+.  .| +...+..+
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            56777888899999999999999999998763   36778999999999999999999999999985  45 45688888


Q ss_pred             HHHHhcc-----------CCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHH
Q 006580          454 LLACNYG-----------GFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWES  520 (640)
Q Consensus       454 l~~~~~~-----------~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~  520 (640)
                      ...+...           |++++|+..+++..+.  -+-+...+..+..++...|++++|++.|+++.  . .++..+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE-DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc-cchHHHHH
Confidence            8899999           9999999999999874  23356788899999999999999999999987  5 78899999


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          521 ILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       521 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                      +...+...|++++|...++++++.+|.++..+..++.++...|++++|...+++..
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            99999999999999999999999999999999999999999999999999988654

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.65  E-value=2.1e-16  Score=165.06  Aligned_cols=128  Identities=17%  Similarity=0.185  Sum_probs=113.4

Q ss_pred             CCCchHHHHHHHHHHHhcCChHHHHHHHHhCC-------CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHH
Q 006580          377 FDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD-------KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRIT  449 (640)
Q Consensus       377 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  449 (640)
                      ......+|++||++||+.|++++|.++|.+|.       .||+++||+||.+||+.|+.++|.++|++|.+.|+.||..|
T Consensus       123 ~~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvT  202 (1134)
T 3spa_A          123 LSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS  202 (1134)
T ss_dssp             CCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HHhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHH
Confidence            34456789999999999999999999997753       58999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCC-HHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHH
Q 006580          450 LAAVLLACNYGGF-VDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDI  505 (640)
Q Consensus       450 ~~~ll~~~~~~~~-~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  505 (640)
                      |+++|.++++.|+ .++|.++|++|.++ |+.||..+|++++....+.+-++...++
T Consensus       203 YntLI~glcK~G~~~e~A~~Ll~EM~~k-G~~PD~vtY~~ll~~~eR~~vL~~Vrkv  258 (1134)
T 3spa_A          203 YAAALQCMGRQDQDAGTIERCLEQMSQE-GLKLQALFTAVLLSEEDRATVLKAVHKV  258 (1134)
T ss_dssp             HHHHHHHHHHHTCCHHHHHHHHHHHHHH-TCCSHHHHHHSCCCHHHHHHHHHHHGGG
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHc-CCCCChhhcccccChhhHHHHHHHHHHh
Confidence            9999999999997 57899999999998 9999999999998877776554444444

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.63  E-value=1e-16  Score=167.32  Aligned_cols=125  Identities=9%  Similarity=0.064  Sum_probs=113.0

Q ss_pred             CCCchhHHHHHHHhhhcCCChHHHHHHHhccC-------CCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcch
Q 006580          176 SLSNVVLGNSLIDMYGKLGVLYYAFGVFLNME-------ELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYT  248 (640)
Q Consensus       176 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t  248 (640)
                      ...-..+|++||++||+.|++++|.++|++|.       .||+++||+||.+|++.|++++|.++|++|.+.|+.||..|
T Consensus       123 ~~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvT  202 (1134)
T 3spa_A          123 LSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS  202 (1134)
T ss_dssp             CCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HHhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHH
Confidence            44456789999999999999999999997764       68999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCCc-hHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH
Q 006580          249 ISIVINACTKLRNL-DKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDS  300 (640)
Q Consensus       249 ~~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  300 (640)
                      |+++|.++++.|+. +.|.++|++|.+.|+.||..+|++++....+.+-++..
T Consensus       203 YntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~V  255 (1134)
T 3spa_A          203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV  255 (1134)
T ss_dssp             HHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHH
Confidence            99999999999985 78999999999999999999999998877665433333

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.61  E-value=6.1e-14  Score=131.14  Aligned_cols=220  Identities=9%  Similarity=-0.033  Sum_probs=179.7

Q ss_pred             hhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHH
Q 006580          313 AVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYA  392 (640)
Q Consensus       313 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  392 (640)
                      ..|..+...+...|++++|+..|++..+..                                    .+...+..+..+|.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~------------------------------------~~~~~~~~~~~~~~   49 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH------------------------------------KDITYLNNRAAAEY   49 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS------------------------------------CCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh------------------------------------ccHHHHHHHHHHHH
Confidence            456667777777777777777777766543                                    33445566777888


Q ss_pred             hcCChHHHHHHHHhCCC--C-C-------hhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC
Q 006580          393 KTGSIDSSTEIFVKLDK--R-D-------LVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGF  462 (640)
Q Consensus       393 ~~g~~~~A~~~~~~~~~--~-~-------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  462 (640)
                      ..|++++|...|.+..+  | +       ...|..+...+...|++++|+..+++..+.  .|+..       .+...|+
T Consensus        50 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~-------~~~~~~~  120 (258)
T 3uq3_A           50 EKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTAD-------ILTKLRN  120 (258)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHH-------HHHHHHH
T ss_pred             HcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--CchhH-------HHHHHhH
Confidence            88888888888887662  2 1       577888999999999999999999999984  55533       3556688


Q ss_pred             HHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 006580          463 VDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAER  540 (640)
Q Consensus       463 ~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  540 (640)
                      +++|...++.+...  .+.+...+..+...+...|++++|.+.++++.  .+.+..++..+...+...|++++|...+++
T Consensus       121 ~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  198 (258)
T 3uq3_A          121 AEKELKKAEAEAYV--NPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNK  198 (258)
T ss_dssp             HHHHHHHHHHHHHC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc--CcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            99999999988763  33356678889999999999999999999987  444788999999999999999999999999


Q ss_pred             HHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          541 MMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       541 ~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +++.+|.++..|..++.+|.+.|++++|...+++..+..
T Consensus       199 al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          199 AIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKD  237 (258)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC
Confidence            999999999999999999999999999999999987754

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.60  E-value=2.5e-13  Score=137.81  Aligned_cols=375  Identities=10%  Similarity=-0.053  Sum_probs=232.3

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCCh-
Q 006580          118 MISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVL-  196 (640)
Q Consensus       118 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-  196 (640)
                      +...+.+.|++++|+.+|++..+.|                                    +...+..|...|...|+. 
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g------------------------------------~~~A~~~Lg~~y~~~g~~~   52 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG------------------------------------YSEAQVGLADIQVGTRDPA   52 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT------------------------------------CCTGGGTCC----------
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC------------------------------------CHHHHHHHHHHHHccCCCC
Confidence            4455566677777777777765543                                    222233444555566777 


Q ss_pred             --HHHHHHHhccCCCCeeeHHHHHHHHHhcC-----ChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCch---HHH
Q 006580          197 --YYAFGVFLNMEELDIISWNSLISGCFNSG-----YGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLD---KGK  266 (640)
Q Consensus       197 --~~A~~~~~~~~~~~~~~~~~li~~~~~~~-----~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~---~a~  266 (640)
                        ++|...|+...+.+...+..+...+...+     ++++|+..|++..+.|.   ...+..+...+...+..+   .+.
T Consensus        53 d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~~~~~~~~~~a~  129 (452)
T 3e4b_A           53 QIKQAEATYRAAADTSPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANGE---GNTLIPLAMLYLQYPHSFPNVNAQ  129 (452)
T ss_dssp             ------------------CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTTC---SSCHHHHHHHHHHCGGGCTTCCHH
T ss_pred             CHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhCCCCCCCHHHH
Confidence              88999998887667777777777566655     67899999999988653   235666666666554433   344


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhcCC----HHHHHHHHHhcCCCChhhHHHHHHHHHhCC---ChHHHHHHHHHHh
Q 006580          267 QVFALSVKVGFLSNSIVLSATIDLFSKCNR----LEDSVRLFEQLDRWDYAVINVMISTYGRYG---FGEVALELFQLML  339 (640)
Q Consensus       267 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----~~~A~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~  339 (640)
                      +.+......|   +......|...|...+.    .+.+..+++.....++..+..|...|...|   +.++|++.|++..
T Consensus       130 ~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa  206 (452)
T 3e4b_A          130 QQISQWQAAG---YPEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGV  206 (452)
T ss_dssp             HHHHHHHHHT---CTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHH
Confidence            5555555544   35566677777777774    455556666666667778888888888888   7888888888887


Q ss_pred             hCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhc----CChHHHHHHHHhCCCCChhHH
Q 006580          340 REDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKT----GSIDSSTEIFVKLDKRDLVSW  415 (640)
Q Consensus       340 ~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~~~~~  415 (640)
                      +.|..                                   +...+..|..+|...    +++++|...|++....++..+
T Consensus       207 ~~g~~-----------------------------------~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~  251 (452)
T 3e4b_A          207 SRGTV-----------------------------------TAQRVDSVARVLGDATLGTPDEKTAQALLEKIAPGYPASW  251 (452)
T ss_dssp             HTTCS-----------------------------------CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHH
T ss_pred             HCCCH-----------------------------------HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHH
Confidence            76522                                   222223344444333    577777777777663355666


Q ss_pred             HHHHHH-H--HhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC-----CHHHHHHHHHHhHHhhCCCCChhHHH
Q 006580          416 NTIMMG-L--TQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGG-----FVDKGMLVFSAMKEEYGVMPGEEHYA  487 (640)
Q Consensus       416 ~~li~~-~--~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~-----~~~~A~~~~~~~~~~~~~~p~~~~~~  487 (640)
                      ..|... +  ...+++++|++.|++..+.|   +...+..+...|. .|     ++++|+..|++..     +-+...+.
T Consensus       252 ~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~  322 (452)
T 3e4b_A          252 VSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADY  322 (452)
T ss_dssp             HHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHH
T ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHH
Confidence            666666 3  45788999999999988876   5556666666665 44     8999999988765     34566777


Q ss_pred             HHHHHHHh----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCChhHHHHHHHHH
Q 006580          488 CIIDLLCQ----AGQLGKAIDITSTMPFQPGCSIWESILRASAI----YGDVKLTENVAERMMDLQLPSPLPYSLLTQAY  559 (640)
Q Consensus       488 ~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  559 (640)
                      .|...|..    ..++++|.+.|++.....++.....|...|..    .+|.++|..+++++.+.+++........+...
T Consensus       323 ~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~~a~~~l~~l~~~  402 (452)
T 3e4b_A          323 YLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTPEANDLATQLEAP  402 (452)
T ss_dssp             HHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            77777766    34899999999887634455566677777654    45899999999999998775544444443333


Q ss_pred             HhcCChHHHHHHHHHHHhC
Q 006580          560 AMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       560 ~~~g~~~~a~~~~~~m~~~  578 (640)
                      ...++..+|..+.++-++.
T Consensus       403 ~~~~~~~~a~~~~~~~~~~  421 (452)
T 3e4b_A          403 LTPAQRAEGQRLVQQELAA  421 (452)
T ss_dssp             CCHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHh
Confidence            4456777788777766543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.57  E-value=1.4e-13  Score=128.65  Aligned_cols=237  Identities=12%  Similarity=0.001  Sum_probs=192.7

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCC--CCChhhHHHHHhh
Q 006580          281 SIVLSATIDLFSKCNRLEDSVRLFEQLDR--WDYAVINVMISTYGRYGFGEVALELFQLMLREDI--RPTEFTLSCVLSS  356 (640)
Q Consensus       281 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~t~~~~l~~  356 (640)
                      ...+..+...+...|++++|...|++..+  .+..+|..+...+...|++++|+..+++..+...  .|+..        
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~--------   76 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYK--------   76 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHH--------
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchH--------
Confidence            45788899999999999999999988644  5677899999999999999999999999876321  11110        


Q ss_pred             CCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC--CChhHHHHHHHHHHhCCChHHHHHH
Q 006580          357 IPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK--RDLVSWNTIMMGLTQNGRAAETLDV  434 (640)
Q Consensus       357 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~  434 (640)
                                            .....+..+...|.+.|++++|...|++..+  |+.       ..+...|++++|...
T Consensus        77 ----------------------~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~-------~~~~~~~~~~~a~~~  127 (258)
T 3uq3_A           77 ----------------------VISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRTA-------DILTKLRNAEKELKK  127 (258)
T ss_dssp             ----------------------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCH-------HHHHHHHHHHHHHHH
T ss_pred             ----------------------HHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCchh-------HHHHHHhHHHHHHHH
Confidence                                  0135567788888999999999999988773  442       346667889999999


Q ss_pred             HHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--C
Q 006580          435 FEELLEEGLPPD-RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--F  511 (640)
Q Consensus       435 ~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~  511 (640)
                      ++++...  .|+ ...+..+...+...|++++|...+++..+.  .+.+...+..+...+.+.|++++|.+.++++.  .
T Consensus       128 ~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  203 (258)
T 3uq3_A          128 AEAEAYV--NPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD  203 (258)
T ss_dssp             HHHHHHC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHc--CcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            9999884  454 457788888899999999999999999874  34467889999999999999999999999887  3


Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC------CCChhHHHHHHHH
Q 006580          512 QPGCSIWESILRASAIYGDVKLTENVAERMMDLQ------LPSPLPYSLLTQA  558 (640)
Q Consensus       512 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~  558 (640)
                      +.+...|..+...+...|++++|...++++++..      |.+...+..+..+
T Consensus       204 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~~  256 (258)
T 3uq3_A          204 PNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKA  256 (258)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHHh
Confidence            4468899999999999999999999999999998      8777777766543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.56  E-value=1.4e-13  Score=130.07  Aligned_cols=185  Identities=10%  Similarity=-0.051  Sum_probs=141.5

Q ss_pred             chHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 006580          380 NAVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLA  456 (640)
Q Consensus       380 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  456 (640)
                      +...+..+...|...|++++|...|++..   ..+...+..+...+...|++++|+..++++.+.  .|+.......+..
T Consensus        76 ~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~  153 (275)
T 1xnf_A           76 MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYL  153 (275)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHH
Confidence            44556667777888888888888887776   235778888999999999999999999999884  5665555555555


Q ss_pred             HhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCC-----HHHHHHHHHHHHHcCC
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPG-----CSIWESILRASAIYGD  530 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-----~~~~~~l~~~~~~~~~  530 (640)
                      +...|++++|...++.....  .+++...+ .++..+...++.++|.+.+++.. ..|+     ...+..+...+...|+
T Consensus       154 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~  230 (275)
T 1xnf_A          154 AEQKLDEKQAKEVLKQHFEK--SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGD  230 (275)
T ss_dssp             HHHHHCHHHHHHHHHHHHHH--SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHhcCHHHHHHHHHHHHhc--CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCC
Confidence            67779999999999887764  23444444 46777778888899999998876 2332     5788899999999999


Q ss_pred             hHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHH
Q 006580          531 VKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVK  572 (640)
Q Consensus       531 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  572 (640)
                      +++|...++++++.+|.+...+   +.++...|++++|++.+
T Consensus       231 ~~~A~~~~~~al~~~p~~~~~~---~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          231 LDSATALFKLAVANNVHNFVEH---RYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHHHHHHTTCCTTCHHH---HHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHhCCchhHHHH---HHHHHHHHHHHhhHHHH
Confidence            9999999999999999775544   66788889999988776

>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=99.56  E-value=5.1e-13  Score=124.42  Aligned_cols=197  Identities=6%  Similarity=-0.098  Sum_probs=172.1

Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 006580          381 AVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLAC  457 (640)
Q Consensus       381 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  457 (640)
                      ...+..+...+...|++++|...|+++.   ..+...+..+...+...|++++|++.++++.+.. +.+...+..+...+
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            4566778888999999999999999876   3467788999999999999999999999998853 34667888888999


Q ss_pred             hccCCHHHHHHHHHHhHHhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHH
Q 006580          458 NYGGFVDKGMLVFSAMKEEYGVMP-GEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLT  534 (640)
Q Consensus       458 ~~~~~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a  534 (640)
                      ...|++++|..+++++.+. +..| +...+..+...+...|++++|.+.++++.  .+.+...+..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQD-TLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTC-TTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhC-ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999998762 3445 45678888999999999999999999876  344688999999999999999999


Q ss_pred             HHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          535 ENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       535 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ...++++++..|.+...+..++.++...|++++|.++++++.+..
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            999999999999999999999999999999999999999998765

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.56  E-value=6.8e-13  Score=121.04  Aligned_cols=200  Identities=11%  Similarity=-0.007  Sum_probs=173.3

Q ss_pred             CCchHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 006580          378 DSNAVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVL  454 (640)
Q Consensus       378 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll  454 (640)
                      +.+...+..+...+...|++++|...|+++.   ..+...|..+...+...|++++|.+.++++.+.. +.+..++..+.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~   83 (225)
T 2vq2_A            5 NQVSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYG   83 (225)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHH
Confidence            3345677888899999999999999999876   3467788999999999999999999999999853 44567888889


Q ss_pred             HHHhcc-CCHHHHHHHHHHhHHhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCC
Q 006580          455 LACNYG-GFVDKGMLVFSAMKEEYGVMPG-EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGD  530 (640)
Q Consensus       455 ~~~~~~-~~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~  530 (640)
                      ..+... |++++|...++.+.+. +..|+ ...+..+...+...|++++|.+.++++. ..| +...+..+...+...|+
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALAD-PTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHTS-TTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHhcCcHHHHHHHHHHHHcC-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCC
Confidence            999999 9999999999998872 33443 5678889999999999999999999876 344 68899999999999999


Q ss_pred             hHHHHHHHHHHHhcCC-CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          531 VKLTENVAERMMDLQL-PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       531 ~~~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +++|...++++++..| .++..+..++..+...|+.++|..+++.+.+..
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            9999999999999999 999999999999999999999999999987654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.55  E-value=4.3e-13  Score=126.57  Aligned_cols=242  Identities=12%  Similarity=0.015  Sum_probs=129.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCCh
Q 006580          286 ATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPV  362 (640)
Q Consensus       286 ~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~  362 (640)
                      .....+...|++++|+..|++..+   .+...|..+...+...|++++|+..+++..+.+..|+.               
T Consensus         8 ~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~---------------   72 (272)
T 3u4t_A            8 RYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKA---------------   72 (272)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTC---------------
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhH---------------
Confidence            344444555555555555554432   23335555555566666666666666655542211110               


Q ss_pred             HHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHH
Q 006580          363 EHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELL  439 (640)
Q Consensus       363 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  439 (640)
                                       ....+..+...|...|++++|...|++..   ..+...|..+...|...|++++|++.+++..
T Consensus        73 -----------------~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al  135 (272)
T 3u4t_A           73 -----------------KSADFEYYGKILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQI  135 (272)
T ss_dssp             -----------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGC
T ss_pred             -----------------HHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence                             11123344445555555555555555443   1234455555556666666666666666555


Q ss_pred             HCCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCC---hHHHHHHHHhCC----C
Q 006580          440 EEGLPP-DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQ---LGKAIDITSTMP----F  511 (640)
Q Consensus       440 ~~g~~p-~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~----~  511 (640)
                      +.  .| +...+..+...+...+++++|...++++.+.  .+.+...+..+..++...|+   +++|...++++.    .
T Consensus       136 ~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~  211 (272)
T 3u4t_A          136 RP--TTTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAP  211 (272)
T ss_dssp             CS--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGG
T ss_pred             hc--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhc
Confidence            53  23 2334444441222334666666666666543  12224455555555555555   555555554443    1


Q ss_pred             CCC------HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcC
Q 006580          512 QPG------CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRG  563 (640)
Q Consensus       512 ~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  563 (640)
                      .|+      ..+|..+...|...|++++|.+.++++++++|.++.++..+.......+
T Consensus       212 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          212 GGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             GGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             ccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence            122      2467778888888999999999999999999999988888877665544

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.54  E-value=2e-13  Score=126.35  Aligned_cols=197  Identities=10%  Similarity=0.027  Sum_probs=154.1

Q ss_pred             chHHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 006580          380 NAVVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLA  456 (640)
Q Consensus       380 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  456 (640)
                      ....+..+...+...|++++|...|+++.+   .+...+..+...+...|++++|+..++++.+.. +.+...+..+...
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            445566777888889999999998888763   367788888899999999999999999998852 3456788888889


Q ss_pred             HhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHH
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLT  534 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a  534 (640)
                      +...|++++|...++++.+.  .+.+...+..+...+.+.|++++|.+.++++.  .+.+...+..+...+...|++++|
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            99999999999999998874  24467788889999999999999999999876  444788899999999999999999


Q ss_pred             HHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          535 ENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       535 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ...++++++..|.++..+..++.+|...|++++|...++++.+..
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            999999999999999999999999999999999999999998755

>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=99.53  E-value=7.6e-12  Score=118.00  Aligned_cols=224  Identities=9%  Similarity=-0.106  Sum_probs=180.1

Q ss_pred             ChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHH
Q 006580          311 DYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEM  390 (640)
Q Consensus       311 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  390 (640)
                      +..++..+...+...|++++|++.|++..+.+                                     +...+..+...
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~-------------------------------------~~~a~~~lg~~   47 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK-------------------------------------ENSGCFNLGVL   47 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-------------------------------------CHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC-------------------------------------CHHHHHHHHHH
Confidence            34456666667777777777777777766521                                     22334556667


Q ss_pred             HHh----cCChHHHHHHHHhCCC-CChhHHHHHHHHHHh----CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc--
Q 006580          391 YAK----TGSIDSSTEIFVKLDK-RDLVSWNTIMMGLTQ----NGRAAETLDVFEELLEEGLPPDRITLAAVLLACNY--  459 (640)
Q Consensus       391 ~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~--  459 (640)
                      |..    .+++++|...|++..+ .+...+..+...|..    .+++++|++.|++..+.+   +..++..+...|..  
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            777    8888888888887663 467788888888888    999999999999998865   66778888888888  


Q ss_pred             --cCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHh----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cC
Q 006580          460 --GGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQ----AGQLGKAIDITSTMPFQPGCSIWESILRASAI----YG  529 (640)
Q Consensus       460 --~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~  529 (640)
                        .+++++|+..+++..+. +   +...+..+...|..    .+++++|.+.+++.....++..+..+...+..    .+
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              89999999999998875 3   56677788888888    89999999999887633467788889999999    99


Q ss_pred             ChHHHHHHHHHHHhcCCCChhHHHHHHHHHHh----cCChHHHHHHHHHHHhCCC
Q 006580          530 DVKLTENVAERMMDLQLPSPLPYSLLTQAYAM----RGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       530 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~  580 (640)
                      ++++|...++++++.+|  +..+..++.+|..    .|++++|.+.+++..+.+.
T Consensus       201 ~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          201 NFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             cHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCC
Confidence            99999999999999876  6788899999999    9999999999999988774

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.52  E-value=1.4e-12  Score=114.74  Aligned_cols=165  Identities=12%  Similarity=0.065  Sum_probs=143.3

Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHH
Q 006580          411 DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPP-DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACI  489 (640)
Q Consensus       411 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l  489 (640)
                      +...|..+...|...|++++|++.|++..+.  .| +..++..+...+.+.|++++|...+......  .+.+...+..+
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            5667888899999999999999999999884  45 4567888888899999999999999988764  33456677778


Q ss_pred             HHHHHhcCChHHHHHHHHhCC-C-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHH
Q 006580          490 IDLLCQAGQLGKAIDITSTMP-F-QPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEA  567 (640)
Q Consensus       490 ~~~~~~~g~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  567 (640)
                      ...+...++++.|.+.+.+.. . +.+...+..+...+...|++++|++.++++++.+|.++.+|..++.+|.+.|++++
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            888899999999999998876 3 44788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCC
Q 006580          568 IVRVKKVMRKNG  579 (640)
Q Consensus       568 a~~~~~~m~~~~  579 (640)
                      |.+.+++..+..
T Consensus       160 A~~~~~~al~~~  171 (184)
T 3vtx_A          160 AVKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCC
Confidence            999999998764

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.52  E-value=4.9e-13  Score=123.73  Aligned_cols=213  Identities=11%  Similarity=0.014  Sum_probs=157.3

Q ss_pred             hhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHH
Q 006580          312 YAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMY  391 (640)
Q Consensus       312 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  391 (640)
                      ...|..+...+...|++++|...|+++.+..                                   +.+...+..+...+
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-----------------------------------~~~~~~~~~la~~~   67 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-----------------------------------KEDAIPYINFANLL   67 (243)
T ss_dssp             -------------------CCTTHHHHHTTC-----------------------------------TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-----------------------------------cccHHHHHHHHHHH
Confidence            3445556666677777777777777766531                                   23345556677788


Q ss_pred             HhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 006580          392 AKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGML  468 (640)
Q Consensus       392 ~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~  468 (640)
                      .+.|++++|...|+++.   ..+...+..+...+...|++++|++.++++.+.. +.+...+..+...+...|++++|..
T Consensus        68 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~  146 (243)
T 2q7f_A           68 SSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALP  146 (243)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHH
Confidence            88888888888888776   3467788888999999999999999999998853 4466788888899999999999999


Q ss_pred             HHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 006580          469 VFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQL  546 (640)
Q Consensus       469 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  546 (640)
                      .++++.+.  .+.+...+..+...+.+.|++++|.+.++++.  .+.+..++..+...+...|++++|...++++++.+|
T Consensus       147 ~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p  224 (243)
T 2q7f_A          147 YLQRAVEL--NENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQP  224 (243)
T ss_dssp             HHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCT
T ss_pred             HHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCc
Confidence            99998874  34467788899999999999999999999876  444788999999999999999999999999999999


Q ss_pred             CChhHHHHHHHHHHhc
Q 006580          547 PSPLPYSLLTQAYAMR  562 (640)
Q Consensus       547 ~~~~~~~~l~~~~~~~  562 (640)
                      .++..+..+..+....
T Consensus       225 ~~~~~~~~~~~l~~~~  240 (243)
T 2q7f_A          225 DHMLALHAKKLLGHHH  240 (243)
T ss_dssp             TCHHHHHHHTC-----
T ss_pred             chHHHHHHHHHHHhhc
Confidence            9998888776554443

>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=99.52  E-value=3.3e-12  Score=118.93  Aligned_cols=206  Identities=14%  Similarity=-0.005  Sum_probs=167.5

Q ss_pred             hhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHH
Q 006580          312 YAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMY  391 (640)
Q Consensus       312 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  391 (640)
                      ...|..+...+...|++++|...|+++.+..                                   +.+...+..+...|
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            3456677777888888888888888776532                                   22344556777888


Q ss_pred             HhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHHH
Q 006580          392 AKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD-RITLAAVLLACNYGGFVDKGM  467 (640)
Q Consensus       392 ~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~A~  467 (640)
                      ...|++++|...|+++.   ..+...+..+...+...|++++|+++++++...+..|+ ...+..+...+...|++++|.
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            88899999998888776   33667888889999999999999999999987444564 457778888999999999999


Q ss_pred             HHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 006580          468 LVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQ  545 (640)
Q Consensus       468 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  545 (640)
                      ..++++.+.  .+.+...+..+...+...|++++|.+.++++.  .+.+...+..+...+...|++++|.+.++++++..
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            999998875  23457788899999999999999999999876  34477888999999999999999999999999999


Q ss_pred             CCChhHHHH
Q 006580          546 LPSPLPYSL  554 (640)
Q Consensus       546 p~~~~~~~~  554 (640)
                      |.++.....
T Consensus       240 p~~~~~~~~  248 (252)
T 2ho1_A          240 PGSLEYQEF  248 (252)
T ss_dssp             TTSHHHHHH
T ss_pred             CCCHHHHHH
Confidence            998776543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.50  E-value=6.6e-12  Score=114.42  Aligned_cols=207  Identities=14%  Similarity=0.018  Sum_probs=165.3

Q ss_pred             hhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHH
Q 006580          312 YAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMY  391 (640)
Q Consensus       312 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  391 (640)
                      ...|..+...+...|++++|.+.|+++.+..                                   +.+...+..+...|
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            4456667777777777777777777766532                                   22344556677788


Q ss_pred             HhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhC-CChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHH
Q 006580          392 AKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQN-GRAAETLDVFEELLEEGLPPD-RITLAAVLLACNYGGFVDKG  466 (640)
Q Consensus       392 ~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~A  466 (640)
                      ...|++++|...|+++.   ..+...+..+...+... |++++|+..++++.+.+..|+ ...+..+...+...|++++|
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            88888888888888776   33667888889999999 999999999999988434454 45778888899999999999


Q ss_pred             HHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 006580          467 MLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQ-PGCSIWESILRASAIYGDVKLTENVAERMMD  543 (640)
Q Consensus       467 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  543 (640)
                      +..++++.+.  .+.+...+..+...+.+.|++++|.+.++++.  .+ .+...+..+...+...|+.+.|..+++.+.+
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            9999998874  23457788899999999999999999999876  34 5777888888888999999999999999999


Q ss_pred             cCCCChhHHHHH
Q 006580          544 LQLPSPLPYSLL  555 (640)
Q Consensus       544 ~~p~~~~~~~~l  555 (640)
                      ..|.++.....+
T Consensus       211 ~~p~~~~~~~~l  222 (225)
T 2vq2_A          211 NFPYSEELQTVL  222 (225)
T ss_dssp             HCTTCHHHHHHH
T ss_pred             hCCCCHHHHHHh
Confidence            999988776544

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.49  E-value=2.8e-12  Score=120.96  Aligned_cols=228  Identities=8%  Similarity=-0.029  Sum_probs=179.2

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh
Q 006580          314 VINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAK  393 (640)
Q Consensus       314 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  393 (640)
                      .+......+...|++++|+..|++..+..                                   +.+...+..+...|..
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-----------------------------------p~~~~~~~~l~~~~~~   49 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKK-----------------------------------YNSPYIYNRRAVCYYE   49 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-----------------------------------CCCSTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-----------------------------------CCcHHHHHHHHHHHHH
Confidence            34445566677777777777777776542                                   2233455677788999


Q ss_pred             cCChHHHHHHHHhCCC--CCh----hHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHH
Q 006580          394 TGSIDSSTEIFVKLDK--RDL----VSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGM  467 (640)
Q Consensus       394 ~g~~~~A~~~~~~~~~--~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~  467 (640)
                      .|++++|...|++..+  ++.    ..|..+...+...|++++|++.+++..+.. +.+..++..+...+...|++++|+
T Consensus        50 ~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  128 (272)
T 3u4t_A           50 LAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAI  128 (272)
T ss_dssp             TTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHH
Confidence            9999999999988763  222    348889999999999999999999999852 335578889999999999999999


Q ss_pred             HHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCC---hHHHHHHHHHHH
Q 006580          468 LVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGD---VKLTENVAERMM  542 (640)
Q Consensus       468 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~  542 (640)
                      ..+++..+.  .+.+...+..+...+...+++++|.+.++++. ..| +...+..+...+...|+   +++|...+++++
T Consensus       129 ~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~  206 (272)
T 3u4t_A          129 QYMEKQIRP--TTTDPKVFYELGQAYYYNKEYVKADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLI  206 (272)
T ss_dssp             HHHGGGCCS--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHH
T ss_pred             HHHHHHhhc--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHH
Confidence            999988753  33456677777734445569999999999987 444 57888888888888888   888999999999


Q ss_pred             hcC---CCC-----hhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          543 DLQ---LPS-----PLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       543 ~~~---p~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +..   |+.     ...|..++..|...|++++|.+.++++.+..
T Consensus       207 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  251 (272)
T 3u4t_A          207 EVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALD  251 (272)
T ss_dssp             HHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            884   432     2578899999999999999999999998865

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.49  E-value=1.2e-11  Score=125.39  Aligned_cols=340  Identities=7%  Similarity=-0.042  Sum_probs=225.9

Q ss_pred             HHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCc---hHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 006580          216 SLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNL---DKGKQVFALSVKVGFLSNSIVLSATIDLFS  292 (640)
Q Consensus       216 ~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  292 (640)
                      .+...+.+.|++++|+.+|++..+.|   +...+..+...+...|+.   ++|...|+...+.    +...+..|...+.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            46677888999999999999998876   334445555566667777   8999999888755    4555666777555


Q ss_pred             hcC-----CHHHHHHHHHhcCCC-ChhhHHHHHHHHHhCCChH---HHHHHHHHHhhCCCCCChhhHHHHHhhCCC-C--
Q 006580          293 KCN-----RLEDSVRLFEQLDRW-DYAVINVMISTYGRYGFGE---VALELFQLMLREDIRPTEFTLSCVLSSIPI-P--  360 (640)
Q Consensus       293 ~~g-----~~~~A~~~~~~~~~~-~~~~~~~li~~~~~~~~~~---~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~--  360 (640)
                      ..+     +.++|..+|++..++ +...+..|...|...+..+   ++.+.+....+.|...   ....+-..+.. +  
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~---a~~~Lg~~y~~~~~~  157 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPE---AGLAQVLLYRTQGTY  157 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTT---HHHHHHHHHHHHTCG
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHH---HHHHHHHHHHcCCCc
Confidence            555     788999999887664 4557888888887766533   4555555555554322   22222222223 4  


Q ss_pred             --ChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcC---ChHHHHHHHHhCCC---CChhHHHHHHHHHHhC----CCh
Q 006580          361 --PVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTG---SIDSSTEIFVKLDK---RDLVSWNTIMMGLTQN----GRA  428 (640)
Q Consensus       361 --~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~----g~~  428 (640)
                        +.+.+..++....    ..++..+..|..+|.+.|   +.++|...|++..+   ++...+..+...|...    +++
T Consensus       158 ~~~~~~a~~~~~~a~----~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~  233 (452)
T 3e4b_A          158 DQHLDDVERICKAAL----NTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDE  233 (452)
T ss_dssp             GGGHHHHHHHHHHHT----TTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCH
T ss_pred             ccCHHHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCH
Confidence              3444444443332    334447788888999999   89999999988763   3444446677777554    689


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHH-H--hccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcC-----ChH
Q 006580          429 AETLDVFEELLEEGLPPDRITLAAVLLA-C--NYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAG-----QLG  500 (640)
Q Consensus       429 ~~a~~~~~~m~~~g~~p~~~~~~~ll~~-~--~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-----~~~  500 (640)
                      ++|+..|++.. .|   +...+..+... +  ...+++++|+..|++..+. |   +...+..|...|. .|     +++
T Consensus       234 ~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~-~G~g~~~d~~  304 (452)
T 3e4b_A          234 KTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA-D---QPRAELLLGKLYY-EGKWVPADAK  304 (452)
T ss_dssp             HHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHH-HCSSSCCCHH
T ss_pred             HHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHH-cCCCCCCCHH
Confidence            99999999987 33   34455555554 3  5689999999999998875 4   6677778888887 55     999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHh----cCChHHHHHHH
Q 006580          501 KAIDITSTMPFQPGCSIWESILRASAI----YGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAM----RGRWEAIVRVK  572 (640)
Q Consensus       501 ~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~  572 (640)
                      +|.+.|++.. ..++..+..|...|..    ..++++|...++++.+.+  ++.....|+.+|..    ..+.++|..++
T Consensus       305 ~A~~~~~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g--~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~  381 (452)
T 3e4b_A          305 AAEAHFEKAV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG--QNSADFAIAQLFSQGKGTKPDPLNAYVFS  381 (452)
T ss_dssp             HHHHHHHTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT--CTTHHHHHHHHHHSCTTBCCCHHHHHHHH
T ss_pred             HHHHHHHHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC--hHHHHHHHHHHHHhCCCCCCCHHHHHHHH
Confidence            9999999998 6688888888888776    349999999999998764  46678889888875    45899999999


Q ss_pred             HHHHhCCCc
Q 006580          573 KVMRKNGIN  581 (640)
Q Consensus       573 ~~m~~~~~~  581 (640)
                      ++..+.|..
T Consensus       382 ~~A~~~g~~  390 (452)
T 3e4b_A          382 QLAKAQDTP  390 (452)
T ss_dssp             HHHHTTCCH
T ss_pred             HHHHHCCCH
Confidence            999998853

>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=99.49  E-value=1.2e-12  Score=128.49  Aligned_cols=229  Identities=11%  Similarity=0.094  Sum_probs=185.9

Q ss_pred             hhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHH
Q 006580          312 YAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMY  391 (640)
Q Consensus       312 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  391 (640)
                      ...|+.+...+.+.|++++|+..+++..+.  .|                                 .+...++.+..++
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l--~P---------------------------------~~~~a~~~~g~~l  141 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIEL--NA---------------------------------ANYTVWHFRRVLL  141 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHH--CT---------------------------------TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHh--Cc---------------------------------cCHHHHHHHHHHH
Confidence            345777777888888888888888888763  33                                 3344566777788


Q ss_pred             HhcCC-hHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHH
Q 006580          392 AKTGS-IDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGM  467 (640)
Q Consensus       392 ~~~g~-~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~  467 (640)
                      ...|+ +++|...|+++.   ..+...|+.+..++...|++++|+..|+++++.. +-+...|..+..++...|++++|+
T Consensus       142 ~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl  220 (382)
T 2h6f_A          142 KSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNEL  220 (382)
T ss_dssp             HHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHH
T ss_pred             HHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHH
Confidence            88886 999999998887   2367789999999999999999999999999852 335568888889999999999999


Q ss_pred             HHHHHhHHhhCCCCChhHHHHHHHHHHh-cCChHHH-----HHHHHhCC-CCC-CHHHHHHHHHHHHHcC--ChHHHHHH
Q 006580          468 LVFSAMKEEYGVMPGEEHYACIIDLLCQ-AGQLGKA-----IDITSTMP-FQP-GCSIWESILRASAIYG--DVKLTENV  537 (640)
Q Consensus       468 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~g~~~~A-----~~~~~~~~-~~~-~~~~~~~l~~~~~~~~--~~~~a~~~  537 (640)
                      ..++++.+.  -+-+...|..+..++.+ .|..++|     ++.++++. ..| +...|..+...+...|  ++++|.+.
T Consensus       221 ~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~  298 (382)
T 2h6f_A          221 QYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQ  298 (382)
T ss_dssp             HHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHH
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHH
Confidence            999999874  23457788899999988 6665777     47777766 455 7889999999998888  69999999


Q ss_pred             HHHHHhcCCCChhHHHHHHHHHHhcC---------ChHHHHHHHHHH-HhCC
Q 006580          538 AERMMDLQLPSPLPYSLLTQAYAMRG---------RWEAIVRVKKVM-RKNG  579 (640)
Q Consensus       538 ~~~~~~~~p~~~~~~~~l~~~~~~~g---------~~~~a~~~~~~m-~~~~  579 (640)
                      ++++ +.+|+++.++..++++|.+.|         .+++|+++++++ .+.+
T Consensus       299 ~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~D  349 (382)
T 2h6f_A          299 LLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKD  349 (382)
T ss_dssp             HHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHh-ccCCCCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHhC
Confidence            9998 889999999999999999875         358999999998 5543

>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=99.47  E-value=3.7e-12  Score=124.95  Aligned_cols=241  Identities=10%  Similarity=0.063  Sum_probs=169.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHhCCC-hHHHHHHHHHHhhCCCCCChhhHHHHHhhCC
Q 006580          283 VLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMISTYGRYGF-GEVALELFQLMLREDIRPTEFTLSCVLSSIP  358 (640)
Q Consensus       283 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~  358 (640)
                      ++..+..++.+.|++++|+..++++.+   .+..+|+.+...+...|+ +++|+..|++..+.  .              
T Consensus        99 a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l--~--------------  162 (382)
T 2h6f_A           99 VYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--Q--------------  162 (382)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--C--------------
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHH--C--------------
Confidence            445555566666666666666665543   344566666667777775 77777777776653  2              


Q ss_pred             CCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHH
Q 006580          359 IPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVF  435 (640)
Q Consensus       359 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~  435 (640)
                                         +.+...+..+..++.+.|++++|...|+++.   ..+...|..+..++...|++++|+..+
T Consensus       163 -------------------P~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~  223 (382)
T 2h6f_A          163 -------------------PKNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYV  223 (382)
T ss_dssp             -------------------TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHH
T ss_pred             -------------------CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHH
Confidence                               2233445556666666777777777777665   236677888888888888888888888


Q ss_pred             HHHHHCCCCC-CHHHHHHHHHHHhc-cCCHHHH-----HHHHHHhHHhhCCCCChhHHHHHHHHHHhcC--ChHHHHHHH
Q 006580          436 EELLEEGLPP-DRITLAAVLLACNY-GGFVDKG-----MLVFSAMKEEYGVMPGEEHYACIIDLLCQAG--QLGKAIDIT  506 (640)
Q Consensus       436 ~~m~~~g~~p-~~~~~~~ll~~~~~-~~~~~~A-----~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g--~~~~A~~~~  506 (640)
                      +++++.  .| +...|+.+..++.. .|..++|     +..+++....  -+-+...|..+..++...|  ++++|++.+
T Consensus       224 ~~al~l--~P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~  299 (382)
T 2h6f_A          224 DQLLKE--DVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQL  299 (382)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHH
T ss_pred             HHHHHh--CCCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHH
Confidence            888884  44 45677777777777 5554666     4777777653  2334567888888888877  688888888


Q ss_pred             HhCCCCC-CHHHHHHHHHHHHHcC---------ChHHHHHHHHHH-HhcCCCChhHHHHHHHHHHhc
Q 006580          507 STMPFQP-GCSIWESILRASAIYG---------DVKLTENVAERM-MDLQLPSPLPYSLLTQAYAMR  562 (640)
Q Consensus       507 ~~~~~~~-~~~~~~~l~~~~~~~~---------~~~~a~~~~~~~-~~~~p~~~~~~~~l~~~~~~~  562 (640)
                      .++...| +...+..++..|...|         ..++|+++++++ ++.+|.....|..++..+...
T Consensus       300 ~~~~~~p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          300 LDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             HHhccCCCCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence            8775344 6778888888888764         258999999999 899999999999888776644

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.46  E-value=3.7e-12  Score=115.26  Aligned_cols=192  Identities=13%  Similarity=0.038  Sum_probs=95.8

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHH
Q 006580          278 LSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVL  354 (640)
Q Consensus       278 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l  354 (640)
                      +++...+..+...+.+.|++++|...|++..+   .+...|..+...+.+.|++++|+..|++..+.  .|+        
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~--------   71 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVAR--TPR--------   71 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT--------
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC--------
Confidence            34556666677777777777777777776544   34556777777777888888888887777663  232        


Q ss_pred             hhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhc-----------CChHHHHHHHHhCC--CC-ChhHHHHHHH
Q 006580          355 SSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKT-----------GSIDSSTEIFVKLD--KR-DLVSWNTIMM  420 (640)
Q Consensus       355 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------g~~~~A~~~~~~~~--~~-~~~~~~~li~  420 (640)
                                               +...+..+..++.+.           |++++|...|++..  .| +...|..+..
T Consensus        72 -------------------------~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~  126 (217)
T 2pl2_A           72 -------------------------YLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGL  126 (217)
T ss_dssp             -------------------------CHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             -------------------------cHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence                                     223334444444444           45555555554443  12 3344444444


Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChH
Q 006580          421 GLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLG  500 (640)
Q Consensus       421 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  500 (640)
                      .+...|++++|+..|++..+..  .+...+..+..++...|++++|+..|++..+.  -+.+...+..+..++.+.|+++
T Consensus       127 ~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~  202 (217)
T 2pl2_A          127 VYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQ--APKDLDLRVRYASALLLKGKAE  202 (217)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTC-----
T ss_pred             HHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHH
Confidence            5555555555555555554433  34444444444455555555555555544432  1223334444444444444444


Q ss_pred             HHHHHHHh
Q 006580          501 KAIDITST  508 (640)
Q Consensus       501 ~A~~~~~~  508 (640)
                      +|.+.+++
T Consensus       203 ~A~~~~~~  210 (217)
T 2pl2_A          203 EAARAAAL  210 (217)
T ss_dssp             --------
T ss_pred             HHHHHHHH
Confidence            44444443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.45  E-value=1.4e-12  Score=133.05  Aligned_cols=192  Identities=9%  Similarity=0.000  Sum_probs=169.1

Q ss_pred             CCchHHHHHHHHHHHhcCCh-HHHHHHHHhCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 006580          378 DSNAVVASSLMEMYAKTGSI-DSSTEIFVKLD--KR-DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAV  453 (640)
Q Consensus       378 ~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  453 (640)
                      +.+...+..+...|...|++ ++|...|++..  .| +...|..+...|...|++++|++.|++..+.  .|+...+..+
T Consensus        99 ~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~l  176 (474)
T 4abn_A           99 QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNL  176 (474)
T ss_dssp             CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHH
T ss_pred             chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHH
Confidence            34566777788888889999 99999998876  33 5778999999999999999999999999984  6887888889


Q ss_pred             HHHHhcc---------CCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhc--------CChHHHHHHHHhCC-CCC--
Q 006580          454 LLACNYG---------GFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQA--------GQLGKAIDITSTMP-FQP--  513 (640)
Q Consensus       454 l~~~~~~---------~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~--------g~~~~A~~~~~~~~-~~~--  513 (640)
                      ...+...         |++++|+..+++..+.  .+.+...|..+..+|...        |++++|++.|+++. ..|  
T Consensus       177 g~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~  254 (474)
T 4abn_A          177 SMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKA  254 (474)
T ss_dssp             HHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGG
T ss_pred             HHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCc
Confidence            9999999         9999999999999874  244577899999999998        99999999999987 445  


Q ss_pred             --CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHH
Q 006580          514 --GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKK  573 (640)
Q Consensus       514 --~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  573 (640)
                        +...|..+...+...|++++|.+.++++++++|.++..+..++.++...|++++|.+.++
T Consensus       255 ~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          255 SSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence              788999999999999999999999999999999999999999999999999999997543

>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=99.45  E-value=3.5e-11  Score=113.38  Aligned_cols=228  Identities=7%  Similarity=-0.073  Sum_probs=168.1

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhcCCC-ChhhHHHHHHHHHh----CCChHHHHHHHHHHhhCCCCCChhhHHHHH
Q 006580          280 NSIVLSATIDLFSKCNRLEDSVRLFEQLDRW-DYAVINVMISTYGR----YGFGEVALELFQLMLREDIRPTEFTLSCVL  354 (640)
Q Consensus       280 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l  354 (640)
                      +...+..+...|...|++++|...|++..++ +..++..+...|..    .+++++|+..|++..+.+            
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~------------   72 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN------------   72 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT------------
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC------------
Confidence            3445555666666667777777776665543 34456666666666    777777777777666543            


Q ss_pred             hhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh----cCChHHHHHHHHhCCC-CChhHHHHHHHHHHh----C
Q 006580          355 SSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAK----TGSIDSSTEIFVKLDK-RDLVSWNTIMMGLTQ----N  425 (640)
Q Consensus       355 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~  425 (640)
                                               ++..+..+...|..    .+++++|...|++..+ .+...+..+...|..    .
T Consensus        73 -------------------------~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~  127 (273)
T 1ouv_A           73 -------------------------YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVT  127 (273)
T ss_dssp             -------------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSC
T ss_pred             -------------------------CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcc
Confidence                                     22233445566666    7777777777776653 366777888888888    8


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHh----cC
Q 006580          426 GRAAETLDVFEELLEEGLPPDRITLAAVLLACNY----GGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQ----AG  497 (640)
Q Consensus       426 g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g  497 (640)
                      +++++|++.|++..+.+   +...+..+...+..    .+++++|+..+++..+. +   +...+..+...|..    .+
T Consensus       128 ~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~g~~~~~  200 (273)
T 1ouv_A          128 RDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL-K---DSPGCFNAGNMYHHGEGATK  200 (273)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTCSSCC
T ss_pred             cCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHHcCCCCCc
Confidence            99999999999998865   45566677777776    89999999999988765 3   46778888888988    99


Q ss_pred             ChHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCChhH
Q 006580          498 QLGKAIDITSTMPFQPGCSIWESILRASAI----YGDVKLTENVAERMMDLQLPSPLP  551 (640)
Q Consensus       498 ~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~  551 (640)
                      ++++|++.+++.....+...+..+...|..    .+++++|...++++++.+|++...
T Consensus       201 ~~~~A~~~~~~a~~~~~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~  258 (273)
T 1ouv_A          201 NFKEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKGACD  258 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHHHHH
T ss_pred             cHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHHHHH
Confidence            999999999887622347788888888888    899999999999999998865443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.44  E-value=2.9e-12  Score=120.98  Aligned_cols=215  Identities=15%  Similarity=0.027  Sum_probs=172.0

Q ss_pred             CChHHHHHHHHHHHHhCC---CCchHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHH
Q 006580          360 PPVEHGSQFHSMAIKSGF---DSNAVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLD  433 (640)
Q Consensus       360 ~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~  433 (640)
                      ++++.|...++.+.+...   +.+...+..+...+...|++++|...|+++.   ..+...|..+...+...|++++|++
T Consensus        19 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~   98 (275)
T 1xnf_A           19 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYE   98 (275)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             chHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHHHH
Confidence            455555555555554321   1245667888999999999999999999887   3467899999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--C
Q 006580          434 VFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--F  511 (640)
Q Consensus       434 ~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~  511 (640)
                      .|+++.+.. +.+..++..+...+...|++++|...++++.+.   .|+..........+...|++++|...+++..  .
T Consensus        99 ~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~  174 (275)
T 1xnf_A           99 AFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  174 (275)
T ss_dssp             HHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            999999852 335678889999999999999999999999865   4555555555566677899999999997765  3


Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC----ChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          512 QPGCSIWESILRASAIYGDVKLTENVAERMMDLQLP----SPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       512 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +++...+. ++..+...++.++|...++++++..|.    ++..+..++.+|.+.|++++|...++++.+..
T Consensus       175 ~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          175 DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            44444444 677777888999999999999888663    36889999999999999999999999998765

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.44  E-value=4e-12  Score=127.62  Aligned_cols=93  Identities=14%  Similarity=0.042  Sum_probs=51.8

Q ss_pred             chHHHHHHHHhccCCchHHHHHHHHHHHhCCCCc---hhHHHHHHHHHHhcCCHHHHHHHHHhcCC-----C----Chhh
Q 006580          247 YTISIVINACTKLRNLDKGKQVFALSVKVGFLSN---SIVLSATIDLFSKCNRLEDSVRLFEQLDR-----W----DYAV  314 (640)
Q Consensus       247 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~----~~~~  314 (640)
                      ..+......+...|++++|...++.+++.+....   ..++..+...|...|++++|...+++...     .    ...+
T Consensus        10 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   89 (406)
T 3sf4_A           10 LELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   89 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHH
Confidence            3445556666777777777777777776642211   23455666666666666666666655421     0    1223


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHh
Q 006580          315 INVMISTYGRYGFGEVALELFQLML  339 (640)
Q Consensus       315 ~~~li~~~~~~~~~~~a~~~~~~m~  339 (640)
                      +..+...|...|++++|...+++..
T Consensus        90 ~~~la~~~~~~g~~~~A~~~~~~al  114 (406)
T 3sf4_A           90 SGNLGNTLKVLGNFDEAIVCCQRHL  114 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4445555555555555555555443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.44  E-value=2.6e-12  Score=129.04  Aligned_cols=303  Identities=11%  Similarity=-0.011  Sum_probs=196.7

Q ss_pred             eeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCc-----chHHHHHHHHhccCCchHHHHHHHHHHHh----CCCC-ch
Q 006580          212 ISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDE-----YTISIVINACTKLRNLDKGKQVFALSVKV----GFLS-NS  281 (640)
Q Consensus       212 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-----~t~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~  281 (640)
                      ..+......+...|++++|...|++..+.+  |+.     ..+..+...+...|+++.|...++.+++.    +..| ..
T Consensus        10 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   87 (406)
T 3sf4_A           10 LELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   87 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHH
Confidence            345566778889999999999999988753  432     46777888888999999999999887654    2122 24


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCCC-----C----hhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHH
Q 006580          282 IVLSATIDLFSKCNRLEDSVRLFEQLDRW-----D----YAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSC  352 (640)
Q Consensus       282 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~  352 (640)
                      .++..+...|...|++++|...+++..+.     +    ..++..+...|...|+...+...                  
T Consensus        88 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~------------------  149 (406)
T 3sf4_A           88 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGP------------------  149 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC----------------------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCccccccc------------------
Confidence            56778888999999999999988765321     0    00111222111111111100000                  


Q ss_pred             HHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC-------CC--ChhHHHHHHHHH
Q 006580          353 VLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD-------KR--DLVSWNTIMMGL  422 (640)
Q Consensus       353 ~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~--~~~~~~~li~~~  422 (640)
                          ... ...+.+...                            +++|...+.+..       .+  ...++..+...+
T Consensus       150 ----~~~~~~~~~a~~~----------------------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~  197 (406)
T 3sf4_A          150 ----QDVGEFPEEVRDA----------------------------LQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTH  197 (406)
T ss_dssp             -------CCCCHHHHHH----------------------------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             ----chhhhhhhhHHHH----------------------------HHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHH
Confidence                000 111111111                            333333333222       11  234677778888


Q ss_pred             HhCCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC----hhHHHHHHHHH
Q 006580          423 TQNGRAAETLDVFEELLEEGL-PPD----RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG----EEHYACIIDLL  493 (640)
Q Consensus       423 ~~~g~~~~a~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~  493 (640)
                      ...|++++|+..+++..+... .++    ..++..+...+...|++++|...+++..+...-.++    ..++..+...|
T Consensus       198 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~  277 (406)
T 3sf4_A          198 YLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTY  277 (406)
T ss_dssp             HHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHH
Confidence            888888888888888775210 122    136777778888899999999988887653211112    45677888889


Q ss_pred             HhcCChHHHHHHHHhCC----CCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC------CChhHHHHHHHHH
Q 006580          494 CQAGQLGKAIDITSTMP----FQPG----CSIWESILRASAIYGDVKLTENVAERMMDLQL------PSPLPYSLLTQAY  559 (640)
Q Consensus       494 ~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p------~~~~~~~~l~~~~  559 (640)
                      ...|++++|.+.+++..    ..++    ..++..+...+...|++++|...++++++..+      ....++..++.++
T Consensus       278 ~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~  357 (406)
T 3sf4_A          278 TLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQ  357 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHH
Confidence            99999999999888765    1122    55788888999999999999999999988832      3356778888888


Q ss_pred             HhcCChH
Q 006580          560 AMRGRWE  566 (640)
Q Consensus       560 ~~~g~~~  566 (640)
                      ...|+..
T Consensus       358 ~~~g~~~  364 (406)
T 3sf4_A          358 MVLGLSY  364 (406)
T ss_dssp             HHHHTTS
T ss_pred             HHhhHhH
Confidence            8888764

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.41  E-value=2e-12  Score=130.23  Aligned_cols=266  Identities=10%  Similarity=0.000  Sum_probs=192.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC--C-Ch----hhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHh
Q 006580          283 VLSATIDLFSKCNRLEDSVRLFEQLDR--W-DY----AVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLS  355 (640)
Q Consensus       283 ~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~  355 (640)
                      .+..+...+...|++++|+..|++..+  + +.    ..|..+...|...|++++|...+++..+..             
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-------------  116 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLA-------------  116 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-------------
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH-------------
Confidence            445566677788888888888877654  2 22    356677777777888888888777765420             


Q ss_pred             hCCCCChHHHHHHHHHHHHhCC-CCchHHHHHHHHHHHhcCChHHHHHHHHhCCC---------CChhHHHHHHHHHHhC
Q 006580          356 SIPIPPVEHGSQFHSMAIKSGF-DSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK---------RDLVSWNTIMMGLTQN  425 (640)
Q Consensus       356 ~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~~li~~~~~~  425 (640)
                                       .+.+. +.....+..+...|...|++++|...|.+..+         ....++..+...|...
T Consensus       117 -----------------~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~  179 (411)
T 4a1s_A          117 -----------------KSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAK  179 (411)
T ss_dssp             -----------------HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             -----------------HHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHc
Confidence                             00000 11234556677788888888888888877652         1234677788888888


Q ss_pred             CC-----------------hHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC-
Q 006580          426 GR-----------------AAETLDVFEELLEE----GLPPD-RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG-  482 (640)
Q Consensus       426 g~-----------------~~~a~~~~~~m~~~----g~~p~-~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~-  482 (640)
                      |+                 +++|++.+++..+.    +-.|. ..++..+...+...|++++|...+++..+...-.++ 
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            88                 88888888876552    11222 236777788889999999999999987754211122 


Q ss_pred             ---hhHHHHHHHHHHhcCChHHHHHHHHhCC-C---CC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC----
Q 006580          483 ---EEHYACIIDLLCQAGQLGKAIDITSTMP-F---QP----GCSIWESILRASAIYGDVKLTENVAERMMDLQLP----  547 (640)
Q Consensus       483 ---~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~---~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~----  547 (640)
                         ...+..+...|...|++++|.+.+++.. .   ..    ...++..+...+...|++++|...++++++..+.    
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               2367888899999999999999998875 1   11    1567888899999999999999999999988442    


Q ss_pred             --ChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          548 --SPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       548 --~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                        ....+..++.+|.+.|++++|...+++..+.
T Consensus       340 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          340 IGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence              2457889999999999999999999988764

>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=99.40  E-value=9.3e-10  Score=115.31  Aligned_cols=214  Identities=8%  Similarity=-0.017  Sum_probs=145.6

Q ss_pred             HHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHH-HHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006580          331 ALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGS-QFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD  408 (640)
Q Consensus       331 a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  408 (640)
                      +..+|++.... ..-....|......+.. |+.+.|. .+++..... +|.+...+-.++....+.|++++|..+|+++.
T Consensus       328 v~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l  405 (679)
T 4e6h_A          328 MTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCI  405 (679)
T ss_dssp             HHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            44566666553 12233444444444444 7777785 888888764 35566667777888888888888888888776


Q ss_pred             C-------------CC------------hhHHHHHHHHHHhCCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHhc-cC
Q 006580          409 K-------------RD------------LVSWNTIMMGLTQNGRAAETLDVFEELLEE-GLPPDRITLAAVLLACNY-GG  461 (640)
Q Consensus       409 ~-------------~~------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~ll~~~~~-~~  461 (640)
                      .             |+            ...|...+....+.|+.+.|..+|.+..+. + .+....|...+..-.+ .+
T Consensus       406 ~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~~  484 (679)
T 4e6h_A          406 DRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHISK  484 (679)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTTS
T ss_pred             HHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhCC
Confidence            3             21            235777777777788888899999888875 2 1122333322222223 34


Q ss_pred             CHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC----CHHHHHHHHHHHHHcCChHHHHH
Q 006580          462 FVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP----GCSIWESILRASAIYGDVKLTEN  536 (640)
Q Consensus       462 ~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~~~~~~a~~  536 (640)
                      +.+.|..+|+...+.+  +.+...+...++.....|+.+.|..+|++.. ..|    ....|...+..-...|+.+.+..
T Consensus       485 d~e~Ar~ife~~Lk~~--p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~  562 (679)
T 4e6h_A          485 DTKTACKVLELGLKYF--ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRT  562 (679)
T ss_dssp             CCHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHH
T ss_pred             CHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            5888999988888753  3455566777887788888999999998876 233    24578888888888899999999


Q ss_pred             HHHHHHhcCCCCh
Q 006580          537 VAERMMDLQLPSP  549 (640)
Q Consensus       537 ~~~~~~~~~p~~~  549 (640)
                      +.+++.+..|+++
T Consensus       563 v~~R~~~~~P~~~  575 (679)
T 4e6h_A          563 LEKRFFEKFPEVN  575 (679)
T ss_dssp             HHHHHHHHSTTCC
T ss_pred             HHHHHHHhCCCCc
Confidence            9999988888764

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.39  E-value=1.9e-11  Score=107.42  Aligned_cols=168  Identities=9%  Similarity=0.012  Sum_probs=145.9

Q ss_pred             CchHHHHHHHHHHHhcCChHHHHHHHHhCC--C-CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 006580          379 SNAVVASSLMEMYAKTGSIDSSTEIFVKLD--K-RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLL  455 (640)
Q Consensus       379 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  455 (640)
                      .++.+|..+...|.+.|++++|...|++..  . .++..|..+..+|...|++++|+..+.+..... +.+...+..+..
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            356788899999999999999999999887  3 467889999999999999999999999998852 334557777778


Q ss_pred             HHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHH
Q 006580          456 ACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKL  533 (640)
Q Consensus       456 ~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~  533 (640)
                      .+...++++.|...+......  .+.+...+..+...|.+.|++++|++.|++.. ..| +..+|..+...+...|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHH
Confidence            889999999999999998864  34457788899999999999999999999987 445 78899999999999999999


Q ss_pred             HHHHHHHHHhcCCCCh
Q 006580          534 TENVAERMMDLQLPSP  549 (640)
Q Consensus       534 a~~~~~~~~~~~p~~~  549 (640)
                      |.+.++++++.+|.++
T Consensus       160 A~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          160 AVKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHHhCCccCH
Confidence            9999999999999764

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.39  E-value=5.6e-12  Score=122.81  Aligned_cols=267  Identities=13%  Similarity=0.045  Sum_probs=192.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC--C-C----hhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHh
Q 006580          283 VLSATIDLFSKCNRLEDSVRLFEQLDR--W-D----YAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLS  355 (640)
Q Consensus       283 ~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~  355 (640)
                      .+......+...|++++|...|+++.+  + +    ...+..+...+...|++++|.+.+++..+..             
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-------------   73 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLA-------------   73 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-------------
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh-------------
Confidence            344456677778888888888877643  2 2    2456677777777888888888777765420             


Q ss_pred             hCCCCChHHHHHHHHHHHHhCC-CCchHHHHHHHHHHHhcCChHHHHHHHHhCCC-----CC----hhHHHHHHHHHHhC
Q 006580          356 SIPIPPVEHGSQFHSMAIKSGF-DSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK-----RD----LVSWNTIMMGLTQN  425 (640)
Q Consensus       356 ~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~  425 (640)
                                       ...+. +.....+..+...|...|++++|...+.+..+     ++    ..++..+...+...
T Consensus        74 -----------------~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~  136 (338)
T 3ro2_A           74 -----------------RTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAK  136 (338)
T ss_dssp             -----------------HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             -----------------hcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHc
Confidence                             00111 11234556677888888888888888877652     22    33677788888888


Q ss_pred             CC--------------------hHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCC
Q 006580          426 GR--------------------AAETLDVFEELLEE----GLPPD-RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVM  480 (640)
Q Consensus       426 g~--------------------~~~a~~~~~~m~~~----g~~p~-~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~  480 (640)
                      |+                    +++|.+.+++....    +..|. ..++..+...+...|++++|...+++..+...-.
T Consensus       137 ~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~  216 (338)
T 3ro2_A          137 GKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEF  216 (338)
T ss_dssp             HHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             CcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhc
Confidence            88                    89999888876542    11222 2367777888899999999999999876542111


Q ss_pred             CC----hhHHHHHHHHHHhcCChHHHHHHHHhCC----CCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-
Q 006580          481 PG----EEHYACIIDLLCQAGQLGKAIDITSTMP----FQPG----CSIWESILRASAIYGDVKLTENVAERMMDLQLP-  547 (640)
Q Consensus       481 p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-  547 (640)
                      ++    ...+..+...+...|++++|.+.+++..    ..++    ..++..+...+...|++++|...++++++..+. 
T Consensus       217 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~  296 (338)
T 3ro2_A          217 GDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQEL  296 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhc
Confidence            22    3377888899999999999999998875    1122    557788889999999999999999999988442 


Q ss_pred             -C----hhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          548 -S----PLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       548 -~----~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                       +    ..++..++.+|.+.|++++|...+++..+..
T Consensus       297 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  333 (338)
T 3ro2_A          297 KDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  333 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC-
T ss_pred             CCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence             2    4578899999999999999999999988753

>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=99.38  E-value=1.6e-09  Score=113.60  Aligned_cols=216  Identities=6%  Similarity=-0.047  Sum_probs=167.0

Q ss_pred             HHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHH-HHHHhCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHH
Q 006580          364 HGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSST-EIFVKLDK--R-DLVSWNTIMMGLTQNGRAAETLDVFEELL  439 (640)
Q Consensus       364 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~-~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  439 (640)
                      .+..++++++.. ++.+..++-..+..+.+.|+.++|. .+|++...  | +...|-..+...-+.|+++.|.++|+++.
T Consensus       327 Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l  405 (679)
T 4e6h_A          327 RMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCI  405 (679)
T ss_dssp             HHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            345677777765 3567788888888888899999996 99988762  3 56667788888889999999999999998


Q ss_pred             HCCC---------CCC------------HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcC-
Q 006580          440 EEGL---------PPD------------RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAG-  497 (640)
Q Consensus       440 ~~g~---------~p~------------~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-  497 (640)
                      ....         .|+            ...|...+....+.|+.+.|..+|....+. .-.+....|...+..-.+.+ 
T Consensus       406 ~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~-~~~~~~~lyi~~A~lE~~~~~  484 (679)
T 4e6h_A          406 DRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRL-KKLVTPDIYLENAYIEYHISK  484 (679)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHT-GGGSCTHHHHHHHHHHHTTTS
T ss_pred             HHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-cCCCChHHHHHHHHHHHHhCC
Confidence            7310         142            235677777777889999999999998864 12223445554444445554 


Q ss_pred             ChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC---ChhHHHHHHHHHHhcCChHHHHHHH
Q 006580          498 QLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLP---SPLPYSLLTQAYAMRGRWEAIVRVK  572 (640)
Q Consensus       498 ~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~a~~~~  572 (640)
                      +.+.|.++|+...  .+.+...|...+......|+.+.|..+|++++...|+   ....|...+..-.+.|+.+.+.++.
T Consensus       485 d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~  564 (679)
T 4e6h_A          485 DTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLE  564 (679)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            5899999999886  4457778888888888899999999999999999873   5567888888888899999999999


Q ss_pred             HHHHhCCCc
Q 006580          573 KVMRKNGIN  581 (640)
Q Consensus       573 ~~m~~~~~~  581 (640)
                      +++.+.-++
T Consensus       565 ~R~~~~~P~  573 (679)
T 4e6h_A          565 KRFFEKFPE  573 (679)
T ss_dssp             HHHHHHSTT
T ss_pred             HHHHHhCCC
Confidence            999886554

>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=99.38  E-value=1e-11  Score=131.83  Aligned_cols=163  Identities=12%  Similarity=0.131  Sum_probs=143.1

Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHH
Q 006580          411 DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD-RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACI  489 (640)
Q Consensus       411 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l  489 (640)
                      +...|+.|...|.+.|++++|++.|++.++.  .|+ ..++..+..+|.+.|++++|++.|++..+.  -+-+...|..+
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nL   83 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNM   83 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            3567888889999999999999999999884  565 468888889999999999999999988864  13346788999


Q ss_pred             HHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHH
Q 006580          490 IDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEA  567 (640)
Q Consensus       490 ~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  567 (640)
                      ..+|.+.|++++|++.|+++. ..| +...|..+...+...|++++|++.|+++++++|+++..|..++.+|...|++++
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHH
Confidence            999999999999999999877 555 688999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 006580          568 IVRVKKVMRK  577 (640)
Q Consensus       568 a~~~~~~m~~  577 (640)
                      |.+.++++.+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999888765

>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=99.36  E-value=3.6e-11  Score=105.65  Aligned_cols=163  Identities=12%  Similarity=0.053  Sum_probs=114.7

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLL  493 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~  493 (640)
                      .|..+...+...|++++|+..++++.+.. +.+...+..+...+...|++++|...++++.+.  .+.+...+..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~   86 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHH
Confidence            34444555555566666666665555431 223445555566666666666666666666543  233455666666667


Q ss_pred             HhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHH
Q 006580          494 CQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRV  571 (640)
Q Consensus       494 ~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  571 (640)
                      ...|++++|.+.++++.  .+.+...+..+...+...|++++|...++++++..|.++..+..++.++...|++++|...
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  166 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPH  166 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHH
Confidence            77777777777776655  3446778888888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhCC
Q 006580          572 KKVMRKNG  579 (640)
Q Consensus       572 ~~~m~~~~  579 (640)
                      ++++.+..
T Consensus       167 ~~~~~~~~  174 (186)
T 3as5_A          167 FKKANELD  174 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHcC
Confidence            99887654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.36  E-value=2.9e-11  Score=121.63  Aligned_cols=234  Identities=11%  Similarity=-0.004  Sum_probs=154.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC---------CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCC-CChhhHHH
Q 006580          283 VLSATIDLFSKCNRLEDSVRLFEQLDR---------WDYAVINVMISTYGRYGFGEVALELFQLMLREDIR-PTEFTLSC  352 (640)
Q Consensus       283 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~t~~~  352 (640)
                      ++..+..+|...|++++|...+++..+         ....++..+...|...|++++|...+++..+.... .+.     
T Consensus        88 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~-----  162 (411)
T 4a1s_A           88 IYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDR-----  162 (411)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH-----
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhch-----
Confidence            344444445555555555554444321         12234566666777777777777777665542100 000     


Q ss_pred             HHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCC-----------------hHHHHHHHHhCCC-----C
Q 006580          353 VLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGS-----------------IDSSTEIFVKLDK-----R  410 (640)
Q Consensus       353 ~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-----------------~~~A~~~~~~~~~-----~  410 (640)
                                               +.....+..+...|...|+                 +++|...+.+..+     .
T Consensus       163 -------------------------~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~  217 (411)
T 4a1s_A          163 -------------------------LSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLG  217 (411)
T ss_dssp             -------------------------HHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             -------------------------HHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcC
Confidence                                     1112344556666777777                 7777776665431     1


Q ss_pred             ----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCC
Q 006580          411 ----DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGL-PPD----RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMP  481 (640)
Q Consensus       411 ----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p  481 (640)
                          ....+..+...+...|++++|+..+++..+... .++    ..++..+...+...|++++|...+++..+...-..
T Consensus       218 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  297 (411)
T 4a1s_A          218 DRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELG  297 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcC
Confidence                234677788889999999999999988876311 112    13677788889999999999999988775421111


Q ss_pred             C----hhHHHHHHHHHHhcCChHHHHHHHHhCC-C---CCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 006580          482 G----EEHYACIIDLLCQAGQLGKAIDITSTMP-F---QPG----CSIWESILRASAIYGDVKLTENVAERMMDLQL  546 (640)
Q Consensus       482 ~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~---~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  546 (640)
                      +    ...+..+...|...|++++|.+.+++.. .   .++    ..++..+...+...|++++|...+++++++.+
T Consensus       298 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  374 (411)
T 4a1s_A          298 EREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAX  374 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHh
Confidence            1    4577888899999999999999998875 1   112    44778889999999999999999999988855

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.36  E-value=1.1e-10  Score=112.11  Aligned_cols=213  Identities=9%  Similarity=0.028  Sum_probs=161.5

Q ss_pred             HHHHHHHHHHHHhCCCCchHHHHHHHHHHH-------hcCCh-------HHHHHHHHhCCC---C-ChhHHHHHHHHHHh
Q 006580          363 EHGSQFHSMAIKSGFDSNAVVASSLMEMYA-------KTGSI-------DSSTEIFVKLDK---R-DLVSWNTIMMGLTQ  424 (640)
Q Consensus       363 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~g~~-------~~A~~~~~~~~~---~-~~~~~~~li~~~~~  424 (640)
                      +.|..++++++... +.++..+..++..+.       +.|++       ++|..+|++..+   | +...|..++..+..
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            34444555555432 445556666666554       35776       889999987653   3 55688899999999


Q ss_pred             CCChHHHHHHHHHHHHCCCCCCH-H-HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHH-hcCChHH
Q 006580          425 NGRAAETLDVFEELLEEGLPPDR-I-TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLC-QAGQLGK  501 (640)
Q Consensus       425 ~g~~~~a~~~~~~m~~~g~~p~~-~-~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~-~~g~~~~  501 (640)
                      .|++++|.++|++..+  +.|+. . .|..+...+.+.|++++|..+|++..+.  .+++...|...+.... ..|++++
T Consensus       112 ~~~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             TTCHHHHHHHHHHHHT--SSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             cCCHHHHHHHHHHHHh--ccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999998  45653 3 7888888888899999999999988763  2334445544443322 3699999


Q ss_pred             HHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc---CC-CChhHHHHHHHHHHhcCChHHHHHHHHHH
Q 006580          502 AIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDL---QL-PSPLPYSLLTQAYAMRGRWEAIVRVKKVM  575 (640)
Q Consensus       502 A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  575 (640)
                      |.++|++..  .+.+...|..++..+...|++++|..+|+++++.   .| .+...|..++..+.+.|+.++|..+++++
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            999999876  3347889999999999999999999999999996   44 36678889999999999999999999999


Q ss_pred             HhCCC
Q 006580          576 RKNGI  580 (640)
Q Consensus       576 ~~~~~  580 (640)
                      .+...
T Consensus       268 ~~~~p  272 (308)
T 2ond_A          268 FTAFR  272 (308)
T ss_dssp             HHHTT
T ss_pred             HHHcc
Confidence            87654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.35  E-value=3.5e-11  Score=117.13  Aligned_cols=234  Identities=11%  Similarity=0.013  Sum_probs=147.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC---------CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCC-CChhhHHH
Q 006580          283 VLSATIDLFSKCNRLEDSVRLFEQLDR---------WDYAVINVMISTYGRYGFGEVALELFQLMLREDIR-PTEFTLSC  352 (640)
Q Consensus       283 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~t~~~  352 (640)
                      ++..+...+...|++++|.+.+++..+         ....++..+...+...|++++|...+++..+.... ++...   
T Consensus        45 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~---  121 (338)
T 3ro2_A           45 IYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVG---  121 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH---
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchH---
Confidence            344444445555555555554444321         11234556666677777777777777665442100 11000   


Q ss_pred             HHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCC--------------------hHHHHHHHHhCCC---
Q 006580          353 VLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGS--------------------IDSSTEIFVKLDK---  409 (640)
Q Consensus       353 ~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--------------------~~~A~~~~~~~~~---  409 (640)
                                                 ...++..+...|...|+                    +++|...+++...   
T Consensus       122 ---------------------------~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~  174 (338)
T 3ro2_A          122 ---------------------------EARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVT  174 (338)
T ss_dssp             ---------------------------HHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ---------------------------HHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence                                       11233445555555666                    6666666655431   


Q ss_pred             --C----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhC
Q 006580          410 --R----DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGL-PPD----RITLAAVLLACNYGGFVDKGMLVFSAMKEEYG  478 (640)
Q Consensus       410 --~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~  478 (640)
                        +    ....+..+...+...|++++|.+.+++..+... .++    ..++..+...+...|++++|...+++..+...
T Consensus       175 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  254 (338)
T 3ro2_A          175 ALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLAR  254 (338)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence              1    234677778888889999999998888775210 111    23677777888889999999999988765321


Q ss_pred             CCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC-C---CCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 006580          479 VMPG----EEHYACIIDLLCQAGQLGKAIDITSTMP-F---QPG----CSIWESILRASAIYGDVKLTENVAERMMDLQL  546 (640)
Q Consensus       479 ~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~---~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  546 (640)
                      -.++    ...+..+...+...|++++|.+.++++. .   .++    ..++..+...+...|++++|...++++++..+
T Consensus       255 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  334 (338)
T 3ro2_A          255 QLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  334 (338)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC--
T ss_pred             hhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHH
Confidence            1122    4567778888999999999999988775 1   112    44778888999999999999999999998855

>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=99.34  E-value=5.9e-11  Score=108.45  Aligned_cols=189  Identities=10%  Similarity=-0.063  Sum_probs=103.8

Q ss_pred             chHHHHHHHHHHHhcCChHHHHHHHHhCC---C-CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH-HHHHHHH
Q 006580          380 NAVVASSLMEMYAKTGSIDSSTEIFVKLD---K-RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDR-ITLAAVL  454 (640)
Q Consensus       380 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~ll  454 (640)
                      ++..+......+...|++++|...|+...   . ++...+..+..++...|++++|++.+++..+.  .|+. ..+..+.
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~   83 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK--NYNLANAYIGKS   83 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCSHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh--CcchHHHHHHHH
Confidence            34555555566666666666666666554   1 44455555566666666666666666666653  3433 3555555


Q ss_pred             HHHhccCCHHHHHHHHHHhHHhhCCCCCh-------hHHHHHHHHHHhcCChHHHHHHHHhCC-CCCC---HHHHHHHHH
Q 006580          455 LACNYGGFVDKGMLVFSAMKEEYGVMPGE-------EHYACIIDLLCQAGQLGKAIDITSTMP-FQPG---CSIWESILR  523 (640)
Q Consensus       455 ~~~~~~~~~~~A~~~~~~~~~~~~~~p~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~---~~~~~~l~~  523 (640)
                      ..+...|++++|+..+++..+.  .+.+.       ..|..+...+...|++++|++.++++. ..|+   ...|..+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHH
Confidence            6666666666666666665543  11122       234555555556666666666665554 3443   334444444


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          524 ASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       524 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      .+..     .+...++++..+.+.+...|...  .....+.+++|...+++..+..
T Consensus       162 ~~~~-----~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          162 LFYN-----NGADVLRKATPLASSNKEKYASE--KAKADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHH-----HHHHHHHHHGGGTTTCHHHHHHH--HHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHH-----HHHHHHHHHHhcccCCHHHHHHH--HHHHHHHHHHHHHHHHHHhhcC
Confidence            4433     23344455555555444444333  2233455699999999888754

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.34  E-value=6.7e-11  Score=117.66  Aligned_cols=230  Identities=12%  Similarity=-0.038  Sum_probs=162.9

Q ss_pred             HHHHHHhCCChHHHHHHHHHHhhCCC-CCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCC
Q 006580          318 MISTYGRYGFGEVALELFQLMLREDI-RPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGS  396 (640)
Q Consensus       318 li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  396 (640)
                      ....+...|++++|+..|++..+.-. .++...                              ...++..+...|...|+
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~------------------------------~a~~~~~lg~~~~~~~~  158 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIE------------------------------KAEFFFKMSESYYYMKQ  158 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHH------------------------------HHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHH------------------------------HHHHHHHHHHHHHHcCC
Confidence            45566778888888888888765311 122111                              12345667777888888


Q ss_pred             hHHHHHHHHhCCC-----C-----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCC-CCCH----HHHHHHHHHHhccC
Q 006580          397 IDSSTEIFVKLDK-----R-----DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGL-PPDR----ITLAAVLLACNYGG  461 (640)
Q Consensus       397 ~~~A~~~~~~~~~-----~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~~----~~~~~ll~~~~~~~  461 (640)
                      +++|...+.+..+     +     ...+++.+...|...|++++|++.+++..+..- .++.    .++..+...|...|
T Consensus       159 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g  238 (383)
T 3ulq_A          159 TYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQS  238 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCC
Confidence            8888777776551     1     134677888889999999999999888775210 1111    36777888889999


Q ss_pred             CHHHHHHHHHHhHHhh---CC-CCChhHHHHHHHHHHhcCChHHHHHHHHhCC------CCCC-HHHHHHHHHHHHHcCC
Q 006580          462 FVDKGMLVFSAMKEEY---GV-MPGEEHYACIIDLLCQAGQLGKAIDITSTMP------FQPG-CSIWESILRASAIYGD  530 (640)
Q Consensus       462 ~~~~A~~~~~~~~~~~---~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~------~~~~-~~~~~~l~~~~~~~~~  530 (640)
                      ++++|+..+++..+..   +. +....++..+...|.+.|++++|.+.+++..      ..|. ...+..+...+...|+
T Consensus       239 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~  318 (383)
T 3ulq_A          239 QYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPD  318 (383)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCC
T ss_pred             CHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCc
Confidence            9999999998876621   22 2335578888899999999999999988875      1221 2335667777888888


Q ss_pred             ---hHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          531 ---VKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       531 ---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                         +++|..++++. ...|.....+..++.+|...|++++|...+++..+.
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               77777777776 333445567889999999999999999999988653

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.32  E-value=1.2e-10  Score=115.88  Aligned_cols=230  Identities=7%  Similarity=-0.029  Sum_probs=172.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC-----C----ChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhC
Q 006580          287 TIDLFSKCNRLEDSVRLFEQLDR-----W----DYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSI  357 (640)
Q Consensus       287 l~~~~~~~g~~~~A~~~~~~~~~-----~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~  357 (640)
                      ....+...|++++|...|++..+     +    ...++..+...|...|++++|+..+.+..+.....+...        
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~--------  180 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYN--------  180 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTH--------
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccch--------
Confidence            55677888999999998888754     2    234678888899999999999999888765211000000        


Q ss_pred             CCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC-----CC----hhHHHHHHHHHHhCCCh
Q 006580          358 PIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK-----RD----LVSWNTIMMGLTQNGRA  428 (640)
Q Consensus       358 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~  428 (640)
                                          +....+++.+...|...|++++|...|.+..+     ++    ..++..+...|...|++
T Consensus       181 --------------------~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~  240 (383)
T 3ulq_A          181 --------------------IRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQY  240 (383)
T ss_dssp             --------------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             --------------------HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCH
Confidence                                01133557778888999999999988887662     11    24788899999999999


Q ss_pred             HHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhC---CCCChhHHHHHHHHHHhcCC--
Q 006580          429 AETLDVFEELLEE----GLPPD-RITLAAVLLACNYGGFVDKGMLVFSAMKEEYG---VMPGEEHYACIIDLLCQAGQ--  498 (640)
Q Consensus       429 ~~a~~~~~~m~~~----g~~p~-~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~---~~p~~~~~~~l~~~~~~~g~--  498 (640)
                      ++|++.+++..+.    +..|+ ..++..+...+...|++++|...+++..+...   .+.....+..+...+...|+  
T Consensus       241 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  320 (383)
T 3ulq_A          241 EDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEE  320 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHH
T ss_pred             HHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHH
Confidence            9999999998872    33243 45788889999999999999999998765421   11223345678888889998  


Q ss_pred             -hHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          499 -LGKAIDITSTMPFQP-GCSIWESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       499 -~~~A~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                       +++|+.++++....| ....+..+...|...|++++|...++++++.
T Consensus       321 ~~~~al~~~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          321 AIQGFFDFLESKMLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence             899999999987444 3457788999999999999999999999877

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.32  E-value=3.6e-11  Score=115.71  Aligned_cols=219  Identities=12%  Similarity=0.072  Sum_probs=112.1

Q ss_pred             CChHHHHHHHHHHHHh-------CCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC-------C----ChhHHHHHHHH
Q 006580          360 PPVEHGSQFHSMAIKS-------GFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK-------R----DLVSWNTIMMG  421 (640)
Q Consensus       360 ~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~  421 (640)
                      |+++.|..+++.+.+.       ..+.....+..+...|...|++++|...+++...       +    ....+..+...
T Consensus        41 g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~  120 (311)
T 3nf1_A           41 GRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVL  120 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            6666666666555542       2223344455555566666666666655555431       1    12345555555


Q ss_pred             HHhCCChHHHHHHHHHHHHC------CCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhhC------CCCChhHHHH
Q 006580          422 LTQNGRAAETLDVFEELLEE------GLPPDR-ITLAAVLLACNYGGFVDKGMLVFSAMKEEYG------VMPGEEHYAC  488 (640)
Q Consensus       422 ~~~~g~~~~a~~~~~~m~~~------g~~p~~-~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~------~~p~~~~~~~  488 (640)
                      +...|++++|+..++++.+.      +-.|+. ..+..+...+...|++++|+.+++++.+...      .+.....+..
T Consensus       121 ~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~  200 (311)
T 3nf1_A          121 YGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNN  200 (311)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            66666666666666655542      112222 2445555555566666666666655544210      1111234555


Q ss_pred             HHHHHHhcCChHHHHHHHHhCC-C---------CCC-------HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhH
Q 006580          489 IIDLLCQAGQLGKAIDITSTMP-F---------QPG-------CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLP  551 (640)
Q Consensus       489 l~~~~~~~g~~~~A~~~~~~~~-~---------~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  551 (640)
                      +...|...|++++|.+.++++. .         .+.       ...+..+...+...+.+.++...++++....|..+.+
T Consensus       201 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  280 (311)
T 3nf1_A          201 LASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTT  280 (311)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHH
Confidence            5555666666666666555543 0         000       1111122222233344444555555555566777889


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          552 YSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       552 ~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      +..++.+|.+.|++++|.+++++..+.
T Consensus       281 ~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          281 LKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            999999999999999999999988753

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.30  E-value=1.1e-10  Score=119.24  Aligned_cols=178  Identities=7%  Similarity=-0.058  Sum_probs=157.1

Q ss_pred             hHHHHHHHHhCC---CCChhHHHHHHHHHHhCCCh-HHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHHHHHHH
Q 006580          397 IDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRA-AETLDVFEELLEEGLPPD-RITLAAVLLACNYGGFVDKGMLVFS  471 (640)
Q Consensus       397 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~A~~~~~  471 (640)
                      ++++...++...   ..+...|..+...+...|++ ++|++.|++..+.  .|+ ...+..+...|...|++++|+..|+
T Consensus        84 ~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKL--EPELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            455556665544   34677889999999999999 9999999999985  454 6789999999999999999999999


Q ss_pred             HhHHhhCCCCChhHHHHHHHHHHhc---------CChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHc--------CChH
Q 006580          472 AMKEEYGVMPGEEHYACIIDLLCQA---------GQLGKAIDITSTMP-FQP-GCSIWESILRASAIY--------GDVK  532 (640)
Q Consensus       472 ~~~~~~~~~p~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~--------~~~~  532 (640)
                      +..+   +.|+...+..+..+|...         |++++|++.++++. ..| +...|..+..+|...        |+++
T Consensus       162 ~al~---~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALT---HCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHT---TCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHh---hCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            9885   468888899999999999         99999999999987 444 788999999999998        9999


Q ss_pred             HHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          533 LTENVAERMMDLQL---PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       533 ~a~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +|+..++++++++|   .++..|..++.+|...|++++|.+.+++..+..
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~  288 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD  288 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999   999999999999999999999999999998765

>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=99.27  E-value=5e-10  Score=102.20  Aligned_cols=203  Identities=10%  Similarity=-0.035  Sum_probs=154.5

Q ss_pred             ChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC--CC-ChhHHHHHHHH
Q 006580          346 TEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD--KR-DLVSWNTIMMG  421 (640)
Q Consensus       346 ~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~  421 (640)
                      |...+...-..+.. |++++|...++.+.+...+++...+..+..++.+.|++++|...|++..  .| +...|..+...
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   85 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSAA   85 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHHH
Confidence            33444444444555 9999999999999998754777777779999999999999999999887  33 56688899999


Q ss_pred             HHhCCChHHHHHHHHHHHHCCCCCC-H-------HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC---hhHHHHHH
Q 006580          422 LTQNGRAAETLDVFEELLEEGLPPD-R-------ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG---EEHYACII  490 (640)
Q Consensus       422 ~~~~g~~~~a~~~~~~m~~~g~~p~-~-------~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~---~~~~~~l~  490 (640)
                      +...|++++|++.+++..+.  .|+ .       ..|..+...+...|++++|+..|++..+   ..|+   ...+..+.
T Consensus        86 ~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~l~  160 (228)
T 4i17_A           86 YRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHHHH
Confidence            99999999999999999984  444 3       3467777888899999999999999874   3565   56777788


Q ss_pred             HHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 006580          491 DLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       491 ~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      .+|...|+.     .++++.  ...+...+....  ....+.+++|...++++++++|.++.+...+..+..
T Consensus       161 ~~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~~  225 (228)
T 4i17_A          161 VLFYNNGAD-----VLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVKA  225 (228)
T ss_dssp             HHHHHHHHH-----HHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHH-----HHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            888766543     223322  133444444443  334567899999999999999999988887766543

>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=99.26  E-value=3.7e-10  Score=99.09  Aligned_cols=167  Identities=12%  Similarity=0.022  Sum_probs=144.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 006580          382 VVASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACN  458 (640)
Q Consensus       382 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  458 (640)
                      ..+..+...+...|++++|...|+++.+   .+...+..+...+...|++++|...++++.+.. +.+...+..+...+.
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            4556678889999999999999999873   367788899999999999999999999999852 445678888889999


Q ss_pred             ccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHH
Q 006580          459 YGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTEN  536 (640)
Q Consensus       459 ~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~  536 (640)
                      ..|++++|...++++.+.  .+.+...+..+...+...|++++|.+.++++.  .+.+...+..+...+...|++++|..
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            999999999999998874  34567788899999999999999999999876  44478899999999999999999999


Q ss_pred             HHHHHHhcCCCChhH
Q 006580          537 VAERMMDLQLPSPLP  551 (640)
Q Consensus       537 ~~~~~~~~~p~~~~~  551 (640)
                      .++++++..|.+...
T Consensus       166 ~~~~~~~~~~~~~~~  180 (186)
T 3as5_A          166 HFKKANELDEGASVE  180 (186)
T ss_dssp             HHHHHHHHHHCCCGG
T ss_pred             HHHHHHHcCCCchhh
Confidence            999999998876543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.25  E-value=2.1e-09  Score=102.99  Aligned_cols=167  Identities=13%  Similarity=0.085  Sum_probs=133.8

Q ss_pred             chHHHHHHHHHHHhcCChHHHHHHHHhCCC--C-Chh-HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 006580          380 NAVVASSLMEMYAKTGSIDSSTEIFVKLDK--R-DLV-SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLL  455 (640)
Q Consensus       380 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  455 (640)
                      +...+..++..+.+.|++++|..+|++..+  | +.. .|..++..+.+.|++++|..+|++..+.. +++...|.....
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~  176 (308)
T 2ond_A           98 NMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAAL  176 (308)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            445667788888889999999999988773  4 343 78999999999999999999999999853 334445544333


Q ss_pred             HH-hccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-C---CC--CHHHHHHHHHHHHHc
Q 006580          456 AC-NYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-F---QP--GCSIWESILRASAIY  528 (640)
Q Consensus       456 ~~-~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~---~~--~~~~~~~l~~~~~~~  528 (640)
                      .. ...|++++|..+|+...+..  +.+...|..++..+.+.|++++|..+|+++. .   .|  ....|..++......
T Consensus       177 ~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~  254 (308)
T 2ond_A          177 MEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNI  254 (308)
T ss_dssp             HHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHc
Confidence            32 23699999999999988752  3467788999999999999999999999886 2   44  467899999999999


Q ss_pred             CChHHHHHHHHHHHhcCCCCh
Q 006580          529 GDVKLTENVAERMMDLQLPSP  549 (640)
Q Consensus       529 ~~~~~a~~~~~~~~~~~p~~~  549 (640)
                      |+.+.|..+++++++..|++.
T Consensus       255 g~~~~a~~~~~~a~~~~p~~~  275 (308)
T 2ond_A          255 GDLASILKVEKRRFTAFREEY  275 (308)
T ss_dssp             SCHHHHHHHHHHHHHHTTTTT
T ss_pred             CCHHHHHHHHHHHHHHccccc
Confidence            999999999999999999754

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.23  E-value=1.7e-09  Score=107.24  Aligned_cols=229  Identities=12%  Similarity=-0.047  Sum_probs=158.4

Q ss_pred             HHHHHHhCCChHHHHHHHHHHhhCCC-CCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCC
Q 006580          318 MISTYGRYGFGEVALELFQLMLREDI-RPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGS  396 (640)
Q Consensus       318 li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  396 (640)
                      ....+...|++++|+..|++..+... .++...                              ...++..+...|...|+
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~------------------------------~a~~~~~lg~~y~~~~~  156 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIE------------------------------KAEFHFKVAEAYYHMKQ  156 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHH------------------------------HHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHH------------------------------HHHHHHHHHHHHHHcCC
Confidence            34455677778888887777665311 112111                              12345667777888888


Q ss_pred             hHHHHHHHHhCCC-----C-----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHhccC
Q 006580          397 IDSSTEIFVKLDK-----R-----DLVSWNTIMMGLTQNGRAAETLDVFEELLEE----GLPPD-RITLAAVLLACNYGG  461 (640)
Q Consensus       397 ~~~A~~~~~~~~~-----~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~~~~~ll~~~~~~~  461 (640)
                      ++.|...+.+..+     +     ...+++.+...|...|++++|++.+++..+.    +-++. ..++..+...+...|
T Consensus       157 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~  236 (378)
T 3q15_A          157 THVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSG  236 (378)
T ss_dssp             HHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             cHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC
Confidence            8888777766541     1     2346778888899999999999998887762    11111 246777888888999


Q ss_pred             CHHHHHHHHHHhHHhh---CCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC------CCCC-HHHHHHHHHHHHHcCC-
Q 006580          462 FVDKGMLVFSAMKEEY---GVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP------FQPG-CSIWESILRASAIYGD-  530 (640)
Q Consensus       462 ~~~~A~~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~------~~~~-~~~~~~l~~~~~~~~~-  530 (640)
                      ++++|+..+++..+..   +.+....++..+...+.+.|++++|.+.+++..      ..|. ...+..+...+...++ 
T Consensus       237 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~  316 (378)
T 3q15_A          237 DDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDE  316 (378)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCH
T ss_pred             CHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcH
Confidence            9999999998877621   222235678888899999999999999988765      1222 3345666666667777 


Q ss_pred             --hHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          531 --VKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       531 --~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                        +.+|...+++. ...|.....+..++..|...|++++|...+++..+
T Consensus       317 ~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          317 RKIHDLLSYFEKK-NLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence              77777777762 22334456778899999999999999999988865

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.21  E-value=1e-08  Score=101.42  Aligned_cols=264  Identities=15%  Similarity=0.024  Sum_probs=174.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCC----CChh----hHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhh
Q 006580          285 SATIDLFSKCNRLEDSVRLFEQLDR----WDYA----VINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSS  356 (640)
Q Consensus       285 ~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~  356 (640)
                      ..+...+...|++++|...+++...    .+..    +++.+...+...|++++|...+++..+...             
T Consensus        18 ~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-------------   84 (373)
T 1hz4_A           18 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMAR-------------   84 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH-------------
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHH-------------
Confidence            3344455666777777776665422    1111    344455556666677776666666543210             


Q ss_pred             CCCCChHHHHHHHHHHHHhCCC-CchHHHHHHHHHHHhcCChHHHHHHHHhCCC----------C-ChhHHHHHHHHHHh
Q 006580          357 IPIPPVEHGSQFHSMAIKSGFD-SNAVVASSLMEMYAKTGSIDSSTEIFVKLDK----------R-DLVSWNTIMMGLTQ  424 (640)
Q Consensus       357 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----------~-~~~~~~~li~~~~~  424 (640)
                                       +.+.+ .....+..+...+...|++++|...+++...          | ....+..+...+..
T Consensus        85 -----------------~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~  147 (373)
T 1hz4_A           85 -----------------QHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWA  147 (373)
T ss_dssp             -----------------HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHH
T ss_pred             -----------------hcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHH
Confidence                             00100 0112345567778888898888888876651          1 12355667788899


Q ss_pred             CCChHHHHHHHHHHHHCCCC--C--CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHH-----HHHHHHHh
Q 006580          425 NGRAAETLDVFEELLEEGLP--P--DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYA-----CIIDLLCQ  495 (640)
Q Consensus       425 ~g~~~~a~~~~~~m~~~g~~--p--~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~-----~l~~~~~~  495 (640)
                      .|++++|...+++.......  +  ...++..+...+...|++++|...+++.............+.     ..+..+..
T Consensus       148 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  227 (373)
T 1hz4_A          148 WARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQM  227 (373)
T ss_dssp             TTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHH
Confidence            99999999999988873211  1  234677778888899999999999998875422111111222     23345778


Q ss_pred             cCChHHHHHHHHhCC-CCCC-----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-----C-hhHHHHHHHHHHhcC
Q 006580          496 AGQLGKAIDITSTMP-FQPG-----CSIWESILRASAIYGDVKLTENVAERMMDLQLP-----S-PLPYSLLTQAYAMRG  563 (640)
Q Consensus       496 ~g~~~~A~~~~~~~~-~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-----~-~~~~~~l~~~~~~~g  563 (640)
                      .|++++|...+++.. ..|.     ...+..+...+...|++++|...++++++..+.     . ...+..++.++...|
T Consensus       228 ~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g  307 (373)
T 1hz4_A          228 TGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAG  307 (373)
T ss_dssp             TTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhC
Confidence            999999999999886 2221     335677888899999999999999999877331     1 236778889999999


Q ss_pred             ChHHHHHHHHHHHhC
Q 006580          564 RWEAIVRVKKVMRKN  578 (640)
Q Consensus       564 ~~~~a~~~~~~m~~~  578 (640)
                      ++++|...+++....
T Consensus       308 ~~~~A~~~l~~al~~  322 (373)
T 1hz4_A          308 RKSDAQRVLLDALKL  322 (373)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999888654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.20  E-value=4.6e-11  Score=114.93  Aligned_cols=241  Identities=13%  Similarity=0.068  Sum_probs=157.5

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhcCC--------C---ChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChh
Q 006580          280 NSIVLSATIDLFSKCNRLEDSVRLFEQLDR--------W---DYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEF  348 (640)
Q Consensus       280 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  348 (640)
                      +..++..+...+...|++++|..+|+++.+        .   ...++..+...|...|++++|...+++..+..      
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~------   99 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIR------   99 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH------
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH------
Confidence            445677888888888999988888887654        1   23456777788888888888888888766420      


Q ss_pred             hHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC----------C-ChhHHHH
Q 006580          349 TLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK----------R-DLVSWNT  417 (640)
Q Consensus       349 t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----------~-~~~~~~~  417 (640)
                                           ........+.....+..+...|...|++++|...|++..+          + ....+..
T Consensus       100 ---------------------~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~  158 (311)
T 3nf1_A          100 ---------------------EKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNN  158 (311)
T ss_dssp             ---------------------HHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             ---------------------HHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHH
Confidence                                 0000000122344566677788888888888888876652          1 2346778


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHC------CCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhh------CCCCCh-
Q 006580          418 IMMGLTQNGRAAETLDVFEELLEE------GLPPDR-ITLAAVLLACNYGGFVDKGMLVFSAMKEEY------GVMPGE-  483 (640)
Q Consensus       418 li~~~~~~g~~~~a~~~~~~m~~~------g~~p~~-~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~------~~~p~~-  483 (640)
                      +...+...|++++|+++++++.+.      +..|+. .++..+...+...|++++|...++++.+..      ...+.. 
T Consensus       159 la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  238 (311)
T 3nf1_A          159 LALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENK  238 (311)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------C
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchH
Confidence            888899999999999999988774      223433 467788888999999999999999887531      111111 


Q ss_pred             ------hHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 006580          484 ------EHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLP  547 (640)
Q Consensus       484 ------~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  547 (640)
                            ..+..+...+...+.+.++...+.... ..| +..++..+...|...|++++|...+++++++.|.
T Consensus       239 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          239 PIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             CHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence                  122223333444555556666666655 334 4668899999999999999999999999988664

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.18  E-value=1.8e-09  Score=100.79  Aligned_cols=203  Identities=11%  Similarity=-0.026  Sum_probs=120.3

Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHhCCC--C-C---hhHHHHHHHHHHhCCChHHHHHHHHHHHHCCC-CCC-HHHHHH
Q 006580          381 AVVASSLMEMYAKTGSIDSSTEIFVKLDK--R-D---LVSWNTIMMGLTQNGRAAETLDVFEELLEEGL-PPD-RITLAA  452 (640)
Q Consensus       381 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~-~~~~~~  452 (640)
                      ...+..+...+.+.|++++|...|+.+.+  | +   ...+..+..+|...|++++|+..|++..+... .|. ...+..
T Consensus        15 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~   94 (261)
T 3qky_A           15 PQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYE   94 (261)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHH
Confidence            34444455555566666666666665542  2 2   33455555556666666666666666655311 111 223444


Q ss_pred             HHHHHhc--------cCCHHHHHHHHHHhHHhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHH
Q 006580          453 VLLACNY--------GGFVDKGMLVFSAMKEEYGVMPG-EEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILR  523 (640)
Q Consensus       453 ll~~~~~--------~~~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~  523 (640)
                      +..++..        .|++++|+..|+++.+.   .|+ ......+.......++.               ...+..+..
T Consensus        95 lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~p~~~~~~~a~~~~~~~~~~~---------------~~~~~~la~  156 (261)
T 3qky_A           95 RAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR---YPNHELVDDATQKIRELRAKL---------------ARKQYEAAR  156 (261)
T ss_dssp             HHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH---CTTCTTHHHHHHHHHHHHHHH---------------HHHHHHHHH
T ss_pred             HHHHHHHhcccccccchhHHHHHHHHHHHHHH---CcCchhHHHHHHHHHHHHHHH---------------HHHHHHHHH
Confidence            4444544        55566666666655543   122 11111111100000000               112356788


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCC---hhHHHHHHHHHHhc----------CChHHHHHHHHHHHhCCCccCCceeeEE
Q 006580          524 ASAIYGDVKLTENVAERMMDLQLPS---PLPYSLLTQAYAMR----------GRWEAIVRVKKVMRKNGINKVTGCSWIG  590 (640)
Q Consensus       524 ~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~----------g~~~~a~~~~~~m~~~~~~~~~~~~~~~  590 (640)
                      .+...|++++|+..++++++..|.+   +..+..++.+|...          |++++|...++++.+..+          
T Consensus       157 ~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p----------  226 (261)
T 3qky_A          157 LYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP----------  226 (261)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT----------
T ss_pred             HHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC----------
Confidence            8999999999999999999999874   45888999999877          999999999999987643          


Q ss_pred             ecCEEEEEecCCCCCCChHHHHHHHHHHHHHHHH
Q 006580          591 IKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMED  624 (640)
Q Consensus       591 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  624 (640)
                                   .+|...+....+..+...+++
T Consensus       227 -------------~~~~~~~a~~~l~~~~~~~~~  247 (261)
T 3qky_A          227 -------------DSPLLRTAEELYTRARQRLTE  247 (261)
T ss_dssp             -------------TCTHHHHHHHHHHHHHHHHHH
T ss_pred             -------------CChHHHHHHHHHHHHHHHHHH
Confidence                         345556667777777777664

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.15  E-value=4.5e-09  Score=104.13  Aligned_cols=230  Identities=7%  Similarity=-0.029  Sum_probs=166.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCC-----CC----hhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCC-CChhhHHHHHh
Q 006580          286 ATIDLFSKCNRLEDSVRLFEQLDR-----WD----YAVINVMISTYGRYGFGEVALELFQLMLREDIR-PTEFTLSCVLS  355 (640)
Q Consensus       286 ~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~t~~~~l~  355 (640)
                      .....+...|++++|...|++..+     ++    ..++..+...|...|+++.|...+.+..+.... ++..       
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~-------  178 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYS-------  178 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCH-------
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCch-------
Confidence            345566778888888888887643     22    336777888899999999999988887652110 0000       


Q ss_pred             hCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC-----CC----hhHHHHHHHHHHhCC
Q 006580          356 SIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK-----RD----LVSWNTIMMGLTQNG  426 (640)
Q Consensus       356 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g  426 (640)
                                            +....+++.+...|...|++++|...|.+..+     ++    ..++..+...|...|
T Consensus       179 ----------------------~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~  236 (378)
T 3q15_A          179 ----------------------IRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSG  236 (378)
T ss_dssp             ----------------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             ----------------------hhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC
Confidence                                  00133456677888888888888888877652     12    346778888999999


Q ss_pred             ChHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC---hhHHHHHHHHHHhcCC-
Q 006580          427 RAAETLDVFEELLEE----GLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG---EEHYACIIDLLCQAGQ-  498 (640)
Q Consensus       427 ~~~~a~~~~~~m~~~----g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~-  498 (640)
                      ++++|++.+++..+.    +.+....++..+...+.+.|++++|...+++..+...-.++   ...+..+...+...++ 
T Consensus       237 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~  316 (378)
T 3q15_A          237 DDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDE  316 (378)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCH
T ss_pred             CHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcH
Confidence            999999999988871    22223567888888999999999999999998775222122   3356666677777888 


Q ss_pred             --hHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          499 --LGKAIDITSTMPFQP-GCSIWESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       499 --~~~A~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                        +.+|+..+++....| ....+..+...|...|++++|...++++++.
T Consensus       317 ~~~~~al~~~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          317 RKIHDLLSYFEKKNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence              899999999866333 3446778889999999999999999998765

>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=99.15  E-value=6.9e-10  Score=104.85  Aligned_cols=219  Identities=13%  Similarity=0.112  Sum_probs=147.5

Q ss_pred             CChHHHHHHHHHHHHh-------CCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC----------C-ChhHHHHHHHH
Q 006580          360 PPVEHGSQFHSMAIKS-------GFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK----------R-DLVSWNTIMMG  421 (640)
Q Consensus       360 ~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----------~-~~~~~~~li~~  421 (640)
                      |+++.|...+++..+.       ..+....++..+...|...|++++|...|++..+          | ...++..+...
T Consensus        15 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~   94 (283)
T 3edt_B           15 VPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVL   94 (283)
T ss_dssp             SCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHH
Confidence            6777777777666652       2233466778888888999999999888877651          1 24567888888


Q ss_pred             HHhCCChHHHHHHHHHHHHC------CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhh------CCCCChhHHHH
Q 006580          422 LTQNGRAAETLDVFEELLEE------GLPPD-RITLAAVLLACNYGGFVDKGMLVFSAMKEEY------GVMPGEEHYAC  488 (640)
Q Consensus       422 ~~~~g~~~~a~~~~~~m~~~------g~~p~-~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~------~~~p~~~~~~~  488 (640)
                      |...|++++|++.+++....      .-.|+ ..++..+...+...|++++|...+++..+..      ..+.....+..
T Consensus        95 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  174 (283)
T 3edt_B           95 YGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNN  174 (283)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            88999999999998888763      11233 3567778888888999999999988876531      01223456778


Q ss_pred             HHHHHHhcCChHHHHHHHHhCC----------CCC-CHHHHHHHHHHHHHcC------ChHHHHHHHHHHHhcCCCChhH
Q 006580          489 IIDLLCQAGQLGKAIDITSTMP----------FQP-GCSIWESILRASAIYG------DVKLTENVAERMMDLQLPSPLP  551 (640)
Q Consensus       489 l~~~~~~~g~~~~A~~~~~~~~----------~~~-~~~~~~~l~~~~~~~~------~~~~a~~~~~~~~~~~p~~~~~  551 (640)
                      +...|.+.|++++|.+.++++.          ..+ ....|..+...+...+      .+..+...++......|..+..
T Consensus       175 la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  254 (283)
T 3edt_B          175 LASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTT  254 (283)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            8888888999999988887764          122 2223333333333322      2333444444433344566778


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          552 YSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       552 ~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      +..++.+|...|++++|..++++..+.
T Consensus       255 ~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          255 LRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999999999988753

>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=2.8e-09  Score=87.73  Aligned_cols=128  Identities=14%  Similarity=0.116  Sum_probs=88.0

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHH
Q 006580          450 LAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAI  527 (640)
Q Consensus       450 ~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~  527 (640)
                      +..+...+...|++++|..+++.+.+. . +.+...+..+...+...|++++|.+.++++.  .+.+...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALEL-D-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHc-C-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHH
Confidence            334444555555555555555555442 1 2234455555556666666666666666554  23356677777888888


Q ss_pred             cCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          528 YGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       528 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      .|++++|...++++++..|.++..+..++.++...|++++|...++++.+..
T Consensus        82 ~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             hcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            8888888888888888888888888888888888999999998888887654

>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=99.08  E-value=1.4e-09  Score=115.49  Aligned_cols=165  Identities=12%  Similarity=0.109  Sum_probs=145.4

Q ss_pred             CCchHHHHHHHHHHHhcCChHHHHHHHHhCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 006580          378 DSNAVVASSLMEMYAKTGSIDSSTEIFVKLD--KR-DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD-RITLAAV  453 (640)
Q Consensus       378 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~l  453 (640)
                      |.+...++.|..+|.+.|++++|...|++..  .| +...|+.+..+|.+.|++++|++.|++.++.  .|+ ...|..+
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 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNM   83 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            4456778999999999999999999999887  34 6789999999999999999999999999984  565 5689999


Q ss_pred             HHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCCh
Q 006580          454 LLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDV  531 (640)
Q Consensus       454 l~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~  531 (640)
                      ..++...|++++|++.|++..+.  -+-+...|..+..+|.+.|++++|++.|+++. ..| +...+..+...+...|++
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~  161 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccH
Confidence            99999999999999999998864  23357789999999999999999999999987 566 688999999999999999


Q ss_pred             HHHHHHHHHHHhcCC
Q 006580          532 KLTENVAERMMDLQL  546 (640)
Q Consensus       532 ~~a~~~~~~~~~~~p  546 (640)
                      ++|.+.+++++++.|
T Consensus       162 ~~A~~~~~kal~l~~  176 (723)
T 4gyw_A          162 TDYDERMKKLVSIVA  176 (723)
T ss_dssp             TTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCh
Confidence            999999999988743

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.08  E-value=1.1e-08  Score=97.12  Aligned_cols=172  Identities=9%  Similarity=-0.077  Sum_probs=112.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCCC-----CC----hhHHHHHHHHHHhC-CChHHHHHHHHHHHHCCCCCC------
Q 006580          383 VASSLMEMYAKTGSIDSSTEIFVKLDK-----RD----LVSWNTIMMGLTQN-GRAAETLDVFEELLEEGLPPD------  446 (640)
Q Consensus       383 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~g~~p~------  446 (640)
                      .++.+..+|.+.|++++|...|++..+     .+    ..+++.+...|... |++++|+..|++..+.  .|+      
T Consensus        79 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~--~~~~~~~~~  156 (292)
T 1qqe_A           79 TYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEW--YAQDQSVAL  156 (292)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--HHHTTCHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHH--HHhCCChHH
Confidence            445566666777777777666665541     11    34677788888885 8888888888888762  121      


Q ss_pred             -HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCCh-----hHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCHH---
Q 006580          447 -RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGE-----EHYACIIDLLCQAGQLGKAIDITSTMP-FQPGCS---  516 (640)
Q Consensus       447 -~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~---  516 (640)
                       ..++..+...+...|++++|+..|++..+...-.+..     ..|..+..++...|++++|...+++.. ..|+..   
T Consensus       157 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~  236 (292)
T 1qqe_A          157 SNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSR  236 (292)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC--------
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcH
Confidence             2457777888888888888888888887641111111     156677778888888888888888876 444321   


Q ss_pred             ---HHHHHHHHHH--HcCChHHHHHHHHHHHhcCCCChhHHHHHH
Q 006580          517 ---IWESILRASA--IYGDVKLTENVAERMMDLQLPSPLPYSLLT  556 (640)
Q Consensus       517 ---~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  556 (640)
                         .+..++.++.  ..+++++|+..|++++.++|.+...+..+-
T Consensus       237 ~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~~~~~~~k  281 (292)
T 1qqe_A          237 ESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKITILNKIK  281 (292)
T ss_dssp             -HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHHHHHHHHH
Confidence               3444555554  345788888888888777776554444443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.06  E-value=1.1e-08  Score=93.00  Aligned_cols=180  Identities=13%  Similarity=0.040  Sum_probs=111.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHhCCC--CC----hhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH----HHH
Q 006580          382 VVASSLMEMYAKTGSIDSSTEIFVKLDK--RD----LVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRI----TLA  451 (640)
Q Consensus       382 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~----~~~  451 (640)
                      ..+..+...+.+.|++++|...|+++.+  |+    ...+..+..++.+.|++++|+..|+++.+.  .|+..    .+.
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a~~   82 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVMY   82 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHHHH
Confidence            3344455666777777777777777652  32    235666667777777777777777777763  23321    233


Q ss_pred             HHHHHHhc------------------cCCHHHHHHHHHHhHHhhCCCCCh-hHHHHHHHHHHhcCChHHHHHHHHhCCCC
Q 006580          452 AVLLACNY------------------GGFVDKGMLVFSAMKEEYGVMPGE-EHYACIIDLLCQAGQLGKAIDITSTMPFQ  512 (640)
Q Consensus       452 ~ll~~~~~------------------~~~~~~A~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  512 (640)
                      .+..++..                  .|++++|+..|+++.+.   .|+. ..+.......    ......         
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~P~~~~a~~a~~~l~----~~~~~~---------  146 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG---YPNSQYTTDATKRLV----FLKDRL---------  146 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT---CTTCTTHHHHHHHHH----HHHHHH---------
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH---CcCChhHHHHHHHHH----HHHHHH---------
Confidence            33333332                  34555555555555542   2221 1111111000    000000         


Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCh---hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 006580          513 PGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSP---LPYSLLTQAYAMRGRWEAIVRVKKVMRKNGIN  581 (640)
Q Consensus       513 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  581 (640)
                        ......+...+...|+++.|...++++++..|+++   ..+..++.+|.+.|++++|.+.++.+...+..
T Consensus       147 --~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          147 --AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             --HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             --HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence              01113456678899999999999999999999876   56889999999999999999999999887653

>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=99.05  E-value=3.4e-10  Score=95.30  Aligned_cols=140  Identities=12%  Similarity=-0.023  Sum_probs=98.8

Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCCh
Q 006580          421 GLTQNGRAAETLDVFEELLEEGLPPDR-ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQL  499 (640)
Q Consensus       421 ~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  499 (640)
                      .+...|++++|++.+++...  ..|+. ..+..+...|.+.|++++|++.|++..+.  -+-+...|..+..+|.+.|++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~--~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTP--SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSC--SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHcChHHHHHHHHHHhcc--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCch
Confidence            34455667777777766654  23333 24455666777777777777777777653  233466777777777777888


Q ss_pred             HHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHH-HHHHHHhcCCCChhHHHHHHHHHHhcCC
Q 006580          500 GKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTEN-VAERMMDLQLPSPLPYSLLTQAYAMRGR  564 (640)
Q Consensus       500 ~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~~~~p~~~~~~~~l~~~~~~~g~  564 (640)
                      ++|+..|+++. ..| ++..|..+...+...|++++|.+ .++++++++|.++.+|.....++...|+
T Consensus        82 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           82 DKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            88887777766 455 67788888888888888876554 4688899999998888888888887775

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.04  E-value=7.1e-08  Score=95.29  Aligned_cols=121  Identities=8%  Similarity=-0.105  Sum_probs=52.4

Q ss_pred             HHHhcCChhHHHHHHHHhHHCCCCCCcc----hHHHHHHHHhccCCchHHHHHHHHHHHhCCC-Cc----hhHHHHHHHH
Q 006580          220 GCFNSGYGELALDQFYSMRYSGYSPDEY----TISIVINACTKLRNLDKGKQVFALSVKVGFL-SN----SIVLSATIDL  290 (640)
Q Consensus       220 ~~~~~~~~~~A~~~~~~m~~~g~~p~~~----t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~  290 (640)
                      .+...|++++|...+++........+..    ++..+...+...|+++.|...++...+.... .+    ..++..+...
T Consensus        23 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  102 (373)
T 1hz4_A           23 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  102 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            3344555555555555544422111111    2233334444455555555555544432110 01    1123344445


Q ss_pred             HHhcCCHHHHHHHHHhcCC-------C----ChhhHHHHHHHHHhCCChHHHHHHHHHHhh
Q 006580          291 FSKCNRLEDSVRLFEQLDR-------W----DYAVINVMISTYGRYGFGEVALELFQLMLR  340 (640)
Q Consensus       291 ~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  340 (640)
                      +...|++++|...+++...       +    ....+..+...+...|++++|...+++..+
T Consensus       103 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  163 (373)
T 1hz4_A          103 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIE  163 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            5555555555555544321       0    011233444555555555555555555443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.03  E-value=8.9e-09  Score=96.03  Aligned_cols=196  Identities=12%  Similarity=0.083  Sum_probs=136.6

Q ss_pred             HHHHHhhCCCCChHHHHHHHHHHHHhCCCCc---hHHHHHHHHHHHhcCChHHHHHHHHhCCC--CC----hhHHHHHHH
Q 006580          350 LSCVLSSIPIPPVEHGSQFHSMAIKSGFDSN---AVVASSLMEMYAKTGSIDSSTEIFVKLDK--RD----LVSWNTIMM  420 (640)
Q Consensus       350 ~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~  420 (640)
                      |......+..|+++.|...++.+.+.. |.+   ...+..+..+|.+.|++++|...|++..+  |+    ...+..+..
T Consensus        19 ~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~   97 (261)
T 3qky_A           19 FERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAM   97 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHH
Confidence            333333333499999999999998865 223   56778889999999999999999999873  32    346777788


Q ss_pred             HHHh--------CCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHH
Q 006580          421 GLTQ--------NGRAAETLDVFEELLEEGLPPDRI-TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIID  491 (640)
Q Consensus       421 ~~~~--------~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  491 (640)
                      ++..        .|++++|+..|++..+.  .|+.. ....              ...+..+...     -...+..+..
T Consensus        98 ~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a--------------~~~~~~~~~~-----~~~~~~~la~  156 (261)
T 3qky_A           98 CYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDA--------------TQKIRELRAK-----LARKQYEAAR  156 (261)
T ss_dssp             HHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHH--------------HHHHHHHHHH-----HHHHHHHHHH
T ss_pred             HHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHH--------------HHHHHHHHHH-----HHHHHHHHHH
Confidence            8888        99999999999999984  45432 2211              1111111111     0122556677


Q ss_pred             HHHhcCChHHHHHHHHhCC-CCCC----HHHHHHHHHHHHHc----------CChHHHHHHHHHHHhcCCCChh---HHH
Q 006580          492 LLCQAGQLGKAIDITSTMP-FQPG----CSIWESILRASAIY----------GDVKLTENVAERMMDLQLPSPL---PYS  553 (640)
Q Consensus       492 ~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~p~~~~---~~~  553 (640)
                      .|.+.|++++|+..|+++. ..|+    ...+..+..++...          |++++|...++++++..|+++.   ...
T Consensus       157 ~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~  236 (261)
T 3qky_A          157 LYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLRTAEE  236 (261)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHHHHHH
Confidence            8888888888888888775 3332    45677777777765          8899999999999999998864   344


Q ss_pred             HHHHHHHhcCChHH
Q 006580          554 LLTQAYAMRGRWEA  567 (640)
Q Consensus       554 ~l~~~~~~~g~~~~  567 (640)
                      .+..++...|++++
T Consensus       237 ~l~~~~~~~~~~~~  250 (261)
T 3qky_A          237 LYTRARQRLTELEG  250 (261)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhhh
Confidence            55555555555443

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.02  E-value=3.9e-09  Score=100.22  Aligned_cols=199  Identities=12%  Similarity=0.012  Sum_probs=144.0

Q ss_pred             hHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC-------C--ChhHHHHHHHHHHhCCChHHHH
Q 006580          362 VEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK-------R--DLVSWNTIMMGLTQNGRAAETL  432 (640)
Q Consensus       362 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~--~~~~~~~li~~~~~~g~~~~a~  432 (640)
                      ++.|...+..+               ...|...|++++|...|.+...       +  ...+|+.+..+|...|++++|+
T Consensus        33 ~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~   97 (292)
T 1qqe_A           33 FEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAV   97 (292)
T ss_dssp             HHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHH
Confidence            66666665554               4567888999999988877652       1  1458889999999999999999


Q ss_pred             HHHHHHHHCCC---CCC--HHHHHHHHHHHhcc-CCHHHHHHHHHHhHHhhCCCCC----hhHHHHHHHHHHhcCChHHH
Q 006580          433 DVFEELLEEGL---PPD--RITLAAVLLACNYG-GFVDKGMLVFSAMKEEYGVMPG----EEHYACIIDLLCQAGQLGKA  502 (640)
Q Consensus       433 ~~~~~m~~~g~---~p~--~~~~~~ll~~~~~~-~~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A  502 (640)
                      ..+++..+...   .+.  ..++..+...|... |++++|+..|++..+...-..+    ..++..+...+.+.|++++|
T Consensus        98 ~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A  177 (292)
T 1qqe_A           98 DSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEA  177 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHH
Confidence            99998876211   111  34788888889986 9999999999988764211111    35688889999999999999


Q ss_pred             HHHHHhCC-CCCCH--------HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChh-----HHHHHHHHHH--hcCChH
Q 006580          503 IDITSTMP-FQPGC--------SIWESILRASAIYGDVKLTENVAERMMDLQLPSPL-----PYSLLTQAYA--MRGRWE  566 (640)
Q Consensus       503 ~~~~~~~~-~~~~~--------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-----~~~~l~~~~~--~~g~~~  566 (640)
                      +..+++.. ..|+.        ..|..+...+...|++++|...++++++++|....     .+..++..+.  ..++++
T Consensus       178 ~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~  257 (292)
T 1qqe_A          178 SDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLS  257 (292)
T ss_dssp             HHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHH
T ss_pred             HHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHH
Confidence            99999876 33321        25777888899999999999999999999886544     3445566664  456788


Q ss_pred             HHHHHHHHH
Q 006580          567 AIVRVKKVM  575 (640)
Q Consensus       567 ~a~~~~~~m  575 (640)
                      +|+..++.+
T Consensus       258 ~A~~~~~~~  266 (292)
T 1qqe_A          258 EHCKEFDNF  266 (292)
T ss_dssp             HHHHHHTTS
T ss_pred             HHHHHhccC
Confidence            877777543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.01  E-value=1.3e-08  Score=96.29  Aligned_cols=174  Identities=8%  Similarity=-0.034  Sum_probs=138.2

Q ss_pred             HHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhh
Q 006580          399 SSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPP-DRITLAAVLLACNYGGFVDKGMLVFSAMKEEY  477 (640)
Q Consensus       399 ~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~  477 (640)
                      .....+......+...+..+...+...|++++|+..|++..+.  .| +...+..+...+...|++++|...++.+... 
T Consensus       104 ~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~-  180 (287)
T 3qou_A          104 AIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ-  180 (287)
T ss_dssp             HHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG-
T ss_pred             HHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh-
Confidence            3344444444445566777788888999999999999999884  45 4567888888999999999999999988653 


Q ss_pred             CCCCChhHHHHH-HHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC--hhHH
Q 006580          478 GVMPGEEHYACI-IDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPS--PLPY  552 (640)
Q Consensus       478 ~~~p~~~~~~~l-~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~--~~~~  552 (640)
                        .|+....... ...+.+.++.++|.+.+++.. ..| +...+..+...+...|++++|...++++++.+|.+  ...+
T Consensus       181 --~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~  258 (287)
T 3qou_A          181 --DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTR  258 (287)
T ss_dssp             --GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHH
T ss_pred             --hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHH
Confidence              4554433332 233667778888888888876 444 78899999999999999999999999999999977  8899


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          553 SLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       553 ~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      ..++.+|...|+.++|...+++...
T Consensus       259 ~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          259 XTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            9999999999999999998887653

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.01  E-value=4.9e-08  Score=90.58  Aligned_cols=179  Identities=11%  Similarity=0.058  Sum_probs=114.3

Q ss_pred             HHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC-----CChhHHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 006580          367 QFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK-----RDLVSWNTIMMGLTQNGRAAETLDVFEELLEE  441 (640)
Q Consensus       367 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  441 (640)
                      ..++.+...+ +++......+..++...|++++|++++.+...     .+...+..++..+.+.|+.+.|.+.+++|.+ 
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 EELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN-  164 (310)
T ss_dssp             HHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-
T ss_pred             HHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-
Confidence            3344433333 33344445667777788888888888877642     2455666777788888888888888888877 


Q ss_pred             CCCC-----CHHHHHHHHHHH--hc--cCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-C
Q 006580          442 GLPP-----DRITLAAVLLAC--NY--GGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-F  511 (640)
Q Consensus       442 g~~p-----~~~~~~~ll~~~--~~--~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~  511 (640)
                       ..|     +..+...+..++  ..  .+++.+|..+|+++.+.   .|+..+-..+..++.+.|++++|.+.++.+. .
T Consensus       165 -~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~  240 (310)
T 3mv2_B          165 -AIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSD  240 (310)
T ss_dssp             -HSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSH
T ss_pred             -cCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             466     355555555552  22  23788888888887653   3443333344447778888888888876543 1


Q ss_pred             ----------CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHH
Q 006580          512 ----------QP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYS  553 (640)
Q Consensus       512 ----------~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  553 (640)
                                .| |+.++-.++......|+  +|.++++++.+..|+++.+..
T Consensus       241 ~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~d  291 (310)
T 3mv2_B          241 YYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIKH  291 (310)
T ss_dssp             HHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHHH
T ss_pred             cccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHHH
Confidence                      14 55566556555555666  777888888888887765543

>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=99.00  E-value=1.3e-08  Score=83.67  Aligned_cols=131  Identities=15%  Similarity=0.162  Sum_probs=104.8

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLL  493 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~  493 (640)
                      .|..+...+...|++++|+.+++++.+.+ +.+...+..+...+...|++++|...++++...  .+.+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHHHHH
Confidence            46677778888888888888888888753 335567777778888888999999988888764  234566777888888


Q ss_pred             HhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 006580          494 CQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLP  547 (640)
Q Consensus       494 ~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  547 (640)
                      ...|++++|.+.++++.  .+.+...+..+...+...|++++|...++++++.+|.
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            89999999998888876  3446778888899999999999999999999988775

>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=99.00  E-value=9.7e-09  Score=109.64  Aligned_cols=169  Identities=10%  Similarity=-0.087  Sum_probs=125.1

Q ss_pred             HhcCChHHHHHHHHhCC-----------CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 006580          392 AKTGSIDSSTEIFVKLD-----------KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYG  460 (640)
Q Consensus       392 ~~~g~~~~A~~~~~~~~-----------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  460 (640)
                      ...|++++|.+.+++..           ..+...+..+..++...|++++|++.|++..+.. +-+...+..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            56777777777777664           2355677777778888888888888888888742 23445777777778888


Q ss_pred             CCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHH
Q 006580          461 GFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVA  538 (640)
Q Consensus       461 ~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  538 (640)
                      |++++|+..|++..+.  .+-+...+..+..++.+.|++++ ++.|+++. ..| +...|..+..++...|++++|...+
T Consensus       481 g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            8888888888887764  23345677778888888888888 88887766 444 6778888888888888888888888


Q ss_pred             HHHHhcCCCChhHHHHHHHHHHhcCC
Q 006580          539 ERMMDLQLPSPLPYSLLTQAYAMRGR  564 (640)
Q Consensus       539 ~~~~~~~p~~~~~~~~l~~~~~~~g~  564 (640)
                      +++++++|.+..++..++.++...|+
T Consensus       558 ~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HhhcccCcccHHHHHHHHHHHHccCC
Confidence            88888888888888888888876555

>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=98.97  E-value=1.6e-09  Score=91.19  Aligned_cols=124  Identities=7%  Similarity=-0.110  Sum_probs=103.0

Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcC
Q 006580          453 VLLACNYGGFVDKGMLVFSAMKEEYGVMPG-EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYG  529 (640)
Q Consensus       453 ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~  529 (640)
                      |...+...|++++|+..++....   ..|+ ...+..+...|.+.|++++|++.|+++. ..| ++.+|..+...+...|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~---~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTP---SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSC---SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhcc---cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            34456677889999999987653   2333 4456678999999999999999999987 555 7889999999999999


Q ss_pred             ChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHH-HHHHHhCC
Q 006580          530 DVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRV-KKVMRKNG  579 (640)
Q Consensus       530 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~-~~~m~~~~  579 (640)
                      ++++|+..++++++++|.++.+|..++.+|.+.|++++|.+. +++..+..
T Consensus        80 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~  130 (150)
T 4ga2_A           80 NTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF  130 (150)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS
T ss_pred             chHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC
Confidence            999999999999999999999999999999999999877664 58777643

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.97  E-value=3.8e-08  Score=91.28  Aligned_cols=176  Identities=10%  Similarity=0.039  Sum_probs=138.2

Q ss_pred             HHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 006580          400 STEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPP-DRITLAAVLLACNYGGFVDKGMLVFSAMKE  475 (640)
Q Consensus       400 A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~  475 (640)
                      |...|++..   .++...+..+..++...|++++|++++.+.+..|-.+ +...+..++..+.+.|+.+.|.+.++.|.+
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            667777665   3455666788889999999999999999987765323 445788888999999999999999999976


Q ss_pred             hhCCCC-----ChhHHHHHHHH--HHhcC--ChHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-
Q 006580          476 EYGVMP-----GEEHYACIIDL--LCQAG--QLGKAIDITSTMP-FQPGCSIWESILRASAIYGDVKLTENVAERMMDL-  544 (640)
Q Consensus       476 ~~~~~p-----~~~~~~~l~~~--~~~~g--~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  544 (640)
                      .   .|     +..+...|..+  ....|  ++.+|..+|+++. ..|+..+-..++.++...|++++|++.++.+.+. 
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            4   56     35556666655  33334  9999999999987 4566444445555889999999999999988876 


Q ss_pred             ---------CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          545 ---------QLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       545 ---------~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                               +|.++.++.+++.+....|+  +|.++++++.+..+
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P  284 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDH  284 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTC
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCC
Confidence                     48899999888888888887  89999999998653

>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=98.96  E-value=3.2e-09  Score=100.23  Aligned_cols=223  Identities=11%  Similarity=0.039  Sum_probs=152.9

Q ss_pred             HHhCCChHHHHHHHHHHhhC-----C-CCC-ChhhHHHHHhhCCC-CChHHHHHHHHHHHHh------CC-CCchHHHHH
Q 006580          322 YGRYGFGEVALELFQLMLRE-----D-IRP-TEFTLSCVLSSIPI-PPVEHGSQFHSMAIKS------GF-DSNAVVASS  386 (640)
Q Consensus       322 ~~~~~~~~~a~~~~~~m~~~-----~-~~p-~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~------~~-~~~~~~~~~  386 (640)
                      ....|++++|+..|++..+.     + -.| ....+..+-..+.. |+++.|...+..+.+.      +- +.....+..
T Consensus        11 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~   90 (283)
T 3edt_B           11 SSGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNN   90 (283)
T ss_dssp             --CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHH
Confidence            34567778888777776552     1 123 23445555555566 9999999999888865      22 334667888


Q ss_pred             HHHHHHhcCChHHHHHHHHhCCC-------C----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHC------CCCCC-HH
Q 006580          387 LMEMYAKTGSIDSSTEIFVKLDK-------R----DLVSWNTIMMGLTQNGRAAETLDVFEELLEE------GLPPD-RI  448 (640)
Q Consensus       387 l~~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p~-~~  448 (640)
                      +...|...|++++|...|.+...       +    ...++..+...+...|++++|+..+++..+.      +-.|+ ..
T Consensus        91 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  170 (283)
T 3edt_B           91 LAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAK  170 (283)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            99999999999999999988762       1    2457888899999999999999999999874      11343 35


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhh------CCCCC-hhHHHHHHHHHHhcC------ChHHHHHHHHhCC-CCC-
Q 006580          449 TLAAVLLACNYGGFVDKGMLVFSAMKEEY------GVMPG-EEHYACIIDLLCQAG------QLGKAIDITSTMP-FQP-  513 (640)
Q Consensus       449 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~------~~~p~-~~~~~~l~~~~~~~g------~~~~A~~~~~~~~-~~~-  513 (640)
                      ++..+...+...|++++|..++++..+..      ...+. ...+..+...+...+      .+.++...++... ..| 
T Consensus       171 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  250 (283)
T 3edt_B          171 TKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPT  250 (283)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHH
Confidence            78888899999999999999999987631      11222 233444443333333      2444555555544 223 


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          514 GCSIWESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       514 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                      ...++..+...|...|++++|...++++++.
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3557888999999999999999999998875

>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=98.94  E-value=8.5e-08  Score=85.95  Aligned_cols=162  Identities=10%  Similarity=-0.056  Sum_probs=133.4

Q ss_pred             CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC----CHHHHHHHHHHhHHhhCCCCChhH
Q 006580          410 RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGG----FVDKGMLVFSAMKEEYGVMPGEEH  485 (640)
Q Consensus       410 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~----~~~~A~~~~~~~~~~~~~~p~~~~  485 (640)
                      .++..+..+...|...+++++|++.|++..+.|   +...+..+...|.. +    ++++|+..|++..+.    -+...
T Consensus        16 g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~----g~~~a   87 (212)
T 3rjv_A           16 GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEA----GSKSG   87 (212)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHT----TCHHH
T ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHC----CCHHH
Confidence            466777778888888899999999999988865   55666677777777 6    899999999988664    35667


Q ss_pred             HHHHHHHHHh----cCChHHHHHHHHhCC-CCCC---HHHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCChhHHH
Q 006580          486 YACIIDLLCQ----AGQLGKAIDITSTMP-FQPG---CSIWESILRASAI----YGDVKLTENVAERMMDLQLPSPLPYS  553 (640)
Q Consensus       486 ~~~l~~~~~~----~g~~~~A~~~~~~~~-~~~~---~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~  553 (640)
                      +..|...|..    .+++++|++.|++.. ..|.   +..+..|...|..    .+++++|...++++.+. |.++..+.
T Consensus        88 ~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~a~~  166 (212)
T 3rjv_A           88 EIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL-SRTGYAEY  166 (212)
T ss_dssp             HHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT-SCTTHHHH
T ss_pred             HHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc-CCCHHHHH
Confidence            7788888877    789999999999987 4443   7888899999988    78999999999999998 66777899


Q ss_pred             HHHHHHHhc-C-----ChHHHHHHHHHHHhCCC
Q 006580          554 LLTQAYAMR-G-----RWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       554 ~l~~~~~~~-g-----~~~~a~~~~~~m~~~~~  580 (640)
                      .|+.+|... |     ++++|..++++..+.|.
T Consensus       167 ~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          167 WAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            999999764 3     89999999999988874

>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=1.8e-08  Score=105.70  Aligned_cols=160  Identities=11%  Similarity=0.031  Sum_probs=124.6

Q ss_pred             cCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 006580          394 TGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVF  470 (640)
Q Consensus       394 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~  470 (640)
                      .|++++|...|++..+   .+...|..+...+...|++++|++.+++..+.. +.+...+..+...+...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4788999999998873   357788999999999999999999999999852 334568888889999999999999999


Q ss_pred             HHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHc---CChHHHHHHHHHHHhcC
Q 006580          471 SAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIY---GDVKLTENVAERMMDLQ  545 (640)
Q Consensus       471 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~  545 (640)
                      ++..+.  .+.+...+..+..+|.+.|++++|.+.+++.. ..| +...+..+...+...   |++++|.+.++++++.+
T Consensus        81 ~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            998874  23457788999999999999999999999986 444 688899999999999   99999999999999999


Q ss_pred             CCChhHHHHHH
Q 006580          546 LPSPLPYSLLT  556 (640)
Q Consensus       546 p~~~~~~~~l~  556 (640)
                      |.+...|..++
T Consensus       159 p~~~~~~~~l~  169 (568)
T 2vsy_A          159 VGAVEPFAFLS  169 (568)
T ss_dssp             CCCSCHHHHTT
T ss_pred             CcccChHHHhC
Confidence            99888887776

>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=98.92  E-value=9.4e-09  Score=89.25  Aligned_cols=156  Identities=13%  Similarity=0.032  Sum_probs=99.2

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHH-HH
Q 006580          417 TIMMGLTQNGRAAETLDVFEELLEEGLPP-DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDL-LC  494 (640)
Q Consensus       417 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~-~~  494 (640)
                      .+...+...|++++|+..|++..+.  .| +...+..+...+...|++++|+..++.....   .|+...+..+... +.
T Consensus        11 ~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A           11 KQVSELLQQGEHAQALNVIQTLSDE--LQSRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSCHH--HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHHHHH
Confidence            3444455555566665555555442  22 2334555555555566666666666555432   2222222211111 11


Q ss_pred             hcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC--hhHHHHHHHHHHhcCChHHHHH
Q 006580          495 QAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPS--PLPYSLLTQAYAMRGRWEAIVR  570 (640)
Q Consensus       495 ~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~a~~  570 (640)
                      ..+...+|.+.+++.. ..| +...+..+...+...|++++|...++++++.+|..  +..+..++.++...|+.++|..
T Consensus        86 ~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             hhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            1122233556666654 345 68889999999999999999999999999999854  6689999999999999999999


Q ss_pred             HHHHHHh
Q 006580          571 VKKVMRK  577 (640)
Q Consensus       571 ~~~~m~~  577 (640)
                      .+++...
T Consensus       166 ~y~~al~  172 (176)
T 2r5s_A          166 KYRRQLY  172 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9987654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.90  E-value=1.2e-08  Score=85.25  Aligned_cols=97  Identities=6%  Similarity=-0.073  Sum_probs=87.7

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 006580          483 EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       483 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      ...+..+...+.+.|++++|++.|+++. ..| ++..|..+..++...|++++|+..|+++++++|.++..|..++.+|.
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHH
Confidence            4467777788888999999999998887 455 78899999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhCC
Q 006580          561 MRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       561 ~~g~~~~a~~~~~~m~~~~  579 (640)
                      +.|++++|...+++..+..
T Consensus       116 ~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HcCCHHHHHHHHHHHHHhC
Confidence            9999999999999998865

>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=98.89  E-value=7.7e-09  Score=86.60  Aligned_cols=98  Identities=8%  Similarity=-0.017  Sum_probs=86.6

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHH
Q 006580          482 GEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAY  559 (640)
Q Consensus       482 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  559 (640)
                      +...+..+...+.+.|++++|+..|+++. ..| +...|..+..++...|++++|+..++++++++|.++..+..++.+|
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            34466677888889999999999998876 444 7889999999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHHhCC
Q 006580          560 AMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       560 ~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ...|++++|...+++..+..
T Consensus       100 ~~~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQELI  119 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHC
Confidence            99999999999999988754

>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=98.87  E-value=1e-07  Score=99.92  Aligned_cols=152  Identities=12%  Similarity=-0.014  Sum_probs=98.9

Q ss_pred             CCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHH
Q 006580          425 NGRAAETLDVFEELLEEGLPP-DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAI  503 (640)
Q Consensus       425 ~g~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  503 (640)
                      .|++++|++.+++..+.  .| +...+..+...+...|++++|.+.+++..+.  .+.+...+..+..+|...|++++|.
T Consensus         2 ~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~   77 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH--RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAA   77 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            36777788888777763  34 3456777777777788888888888877652  2334667777777888888888888


Q ss_pred             HHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhc---CChHHHHHHHHHHHhC
Q 006580          504 DITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMR---GRWEAIVRVKKVMRKN  578 (640)
Q Consensus       504 ~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~---g~~~~a~~~~~~m~~~  578 (640)
                      +.+++.. ..| +...+..+...+...|++++|.+.++++++.+|.++..+..++.++...   |++++|.+.+++..+.
T Consensus        78 ~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           78 VLLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            8887765 333 5677777888888888888888888888888888888888888888888   8888888877777655


Q ss_pred             CC
Q 006580          579 GI  580 (640)
Q Consensus       579 ~~  580 (640)
                      +.
T Consensus       158 ~p  159 (568)
T 2vsy_A          158 GV  159 (568)
T ss_dssp             TC
T ss_pred             CC
Confidence            43

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.86  E-value=3.5e-08  Score=79.92  Aligned_cols=107  Identities=7%  Similarity=-0.072  Sum_probs=59.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHH
Q 006580          449 TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASA  526 (640)
Q Consensus       449 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~  526 (640)
                      .+......+.+.|++++|++.|++..+.  -+.+...|..+..+|.+.|++++|++.+++.. ..| +...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            3444455555556666666665555542  12334455555555555555555555555544 222 4555666666666


Q ss_pred             HcCChHHHHHHHHHHHhcCCCChhHHHHHHH
Q 006580          527 IYGDVKLTENVAERMMDLQLPSPLPYSLLTQ  557 (640)
Q Consensus       527 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  557 (640)
                      ..|++++|.+.++++++++|.++.++..|..
T Consensus        93 ~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~  123 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVDPSNEEAREGVRN  123 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCcCCHHHHHHHHH
Confidence            6666666666666666666666655555544

>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=98.84  E-value=1.3e-08  Score=108.61  Aligned_cols=153  Identities=12%  Similarity=-0.036  Sum_probs=134.5

Q ss_pred             HhCCChHHHHHHHHHHH--------HCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHH
Q 006580          423 TQNGRAAETLDVFEELL--------EEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLC  494 (640)
Q Consensus       423 ~~~g~~~~a~~~~~~m~--------~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~  494 (640)
                      ...|++++|++.+++..        +. -+.+...+..+..++...|++++|+..++++.+.  -+.+...|..+..+|.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~  478 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAER--VGWRWRLVWYRAVAEL  478 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HCCCHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhcc--CcchHHHHHHHHHHHH
Confidence            77899999999999998        42 1334567888889999999999999999999874  2346778899999999


Q ss_pred             hcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHH
Q 006580          495 QAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVK  572 (640)
Q Consensus       495 ~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  572 (640)
                      ..|++++|++.|+++. ..| +...|..+...+...|++++ ++.|+++++.+|.++..|..++.+|.+.|++++|+..+
T Consensus       479 ~~g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          479 LTGDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             HHTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999999987 555 67899999999999999999 99999999999999999999999999999999999999


Q ss_pred             HHHHhCC
Q 006580          573 KVMRKNG  579 (640)
Q Consensus       573 ~~m~~~~  579 (640)
                      ++..+.+
T Consensus       558 ~~al~l~  564 (681)
T 2pzi_A          558 DEVPPTS  564 (681)
T ss_dssp             HTSCTTS
T ss_pred             HhhcccC
Confidence            8776544

>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=9.6e-08  Score=85.77  Aligned_cols=128  Identities=11%  Similarity=-0.083  Sum_probs=67.9

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHH
Q 006580          415 WNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLC  494 (640)
Q Consensus       415 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~  494 (640)
                      +..+...+...|++++|+..|++.    +.|+...+..+...+...|++++|+..+++..+.  .+.+...+..+..+|.
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHH
Confidence            344455555666666666666554    2445555555556666666666666666655543  1223445555555555


Q ss_pred             hcCChHHHHHHHHhCC-CCC-CH----------------HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 006580          495 QAGQLGKAIDITSTMP-FQP-GC----------------SIWESILRASAIYGDVKLTENVAERMMDLQLPS  548 (640)
Q Consensus       495 ~~g~~~~A~~~~~~~~-~~~-~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  548 (640)
                      ..|++++|.+.++++. ..| +.                ..+..+...+...|++++|...++++++..|.+
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            5555555555555543 111 11                445555555555555555555555555555543

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.83  E-value=1.1e-07  Score=84.91  Aligned_cols=156  Identities=8%  Similarity=0.010  Sum_probs=110.4

Q ss_pred             HHHHHhcCChHHHHHHHHhCCC--C-ChhHHHH----------------HHHHHHhCCChHHHHHHHHHHHHCCCCC-CH
Q 006580          388 MEMYAKTGSIDSSTEIFVKLDK--R-DLVSWNT----------------IMMGLTQNGRAAETLDVFEELLEEGLPP-DR  447 (640)
Q Consensus       388 ~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~----------------li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~  447 (640)
                      ...+...|++++|...|+...+  | +...|..                +..+|.+.|++++|+..|++..+.  .| +.
T Consensus        11 g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~   88 (208)
T 3urz_A           11 VSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK--APNNV   88 (208)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCH
Confidence            3445566777777777776652  2 2334444                788888999999999999999884  45 45


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCC--hHHHHHHHHhCCCCCCHH--HHHHHHH
Q 006580          448 ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQ--LGKAIDITSTMPFQPGCS--IWESILR  523 (640)
Q Consensus       448 ~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~~~~~--~~~~l~~  523 (640)
                      ..+..+...+...|++++|+..|++..+.  -+.+...+..+...|...|+  .+.+...+.... .|++.  .+.....
T Consensus        89 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~a~~~~g~  165 (208)
T 3urz_A           89 DCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTAEQEKKKLETDYKKLS-SPTKMQYARYRDGL  165 (208)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh-CCCchhHHHHHHHH
Confidence            67888888899999999999999988864  23356678888887766553  445666666665 44433  3444566


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCC
Q 006580          524 ASAIYGDVKLTENVAERMMDLQLPS  548 (640)
Q Consensus       524 ~~~~~~~~~~a~~~~~~~~~~~p~~  548 (640)
                      ++...|++++|+..+++++++.|.+
T Consensus       166 ~~~~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          166 SKLFTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HHHHHHTHHHHHHHHHHHTTTSCCH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCH
Confidence            6677889999999999999998864

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.83  E-value=4.6e-08  Score=79.19  Aligned_cols=101  Identities=8%  Similarity=0.035  Sum_probs=90.9

Q ss_pred             CCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHH
Q 006580          479 VMPG-EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLL  555 (640)
Q Consensus       479 ~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  555 (640)
                      +.|+ ...+......|.+.|++++|++.|++.. ..| +...|..+..++...|++++|+..++++++++|.++..|..+
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            3444 3467778899999999999999999987 445 788999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCC
Q 006580          556 TQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       556 ~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +.+|...|++++|.+.+++..+..
T Consensus        88 g~~~~~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           88 AACLVAMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHC
Confidence            999999999999999999998754

>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=98.82  E-value=9.4e-07  Score=83.75  Aligned_cols=161  Identities=11%  Similarity=-0.022  Sum_probs=123.2

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHCC-CCCCHH----HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC----hhHHH
Q 006580          417 TIMMGLTQNGRAAETLDVFEELLEEG-LPPDRI----TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG----EEHYA  487 (640)
Q Consensus       417 ~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~----~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~----~~~~~  487 (640)
                      ..+..+...|++++|..++++..+.. ..|+..    .+..+...+...|++++|+..+++..+...-.++    ..+++
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            34667888999999999999988742 122321    2334566677788999999999998874122223    23688


Q ss_pred             HHHHHHHhcCChHHHHHHHHhCC-----CCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC------hhHH
Q 006580          488 CIIDLLCQAGQLGKAIDITSTMP-----FQPG----CSIWESILRASAIYGDVKLTENVAERMMDLQLPS------PLPY  552 (640)
Q Consensus       488 ~l~~~~~~~g~~~~A~~~~~~~~-----~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~  552 (640)
                      .+...|...|++++|+..++++.     .+.+    ..++..+...|...|++++|...++++++..+..      ..+|
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            89999999999999999988875     2122    3478899999999999999999999999884322      6789


Q ss_pred             HHHHHHHHhcCC-hHHHHHHHHHHHh
Q 006580          553 SLLTQAYAMRGR-WEAIVRVKKVMRK  577 (640)
Q Consensus       553 ~~l~~~~~~~g~-~~~a~~~~~~m~~  577 (640)
                      ..++.+|.+.|+ +++|.+.+++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            999999999995 6999999988864

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.80  E-value=7.4e-08  Score=80.03  Aligned_cols=97  Identities=10%  Similarity=-0.057  Sum_probs=84.9

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 006580          483 EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       483 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      ...+..+...+.+.|++++|.+.|+++. ..| +...|..+...+...|++++|...++++++++|.++..+..++.+|.
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence            3455666777888899999999888876 444 78889999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhCC
Q 006580          561 MRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       561 ~~g~~~~a~~~~~~m~~~~  579 (640)
                      ..|++++|.+.+++..+..
T Consensus        98 ~~g~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARALA  116 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC
Confidence            9999999999999988754

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.79  E-value=1.4e-07  Score=84.25  Aligned_cols=161  Identities=10%  Similarity=0.025  Sum_probs=124.6

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH-HHHHH----------------HHHHHhccCCHHHHHHHHHHhHHh
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDR-ITLAA----------------VLLACNYGGFVDKGMLVFSAMKEE  476 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~----------------ll~~~~~~~~~~~A~~~~~~~~~~  476 (640)
                      .+......+...|++++|+..|++..+.  .|+. ..+..                +..++...|++++|+..|++..+.
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   83 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK   83 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            3444556778999999999999999984  5654 45666                788899999999999999999874


Q ss_pred             hCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcC--ChHHHHHHHHHHHhcCCCChhHH
Q 006580          477 YGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYG--DVKLTENVAERMMDLQLPSPLPY  552 (640)
Q Consensus       477 ~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~p~~~~~~  552 (640)
                        -+-+...+..+..++...|++++|++.|+++. ..| +...|..+...+...|  +.+.+...++++....|. ...+
T Consensus        84 --~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~a~  160 (208)
T 3urz_A           84 --APNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTKM-QYAR  160 (208)
T ss_dssp             --CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCHH-HHHH
T ss_pred             --CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCch-hHHH
Confidence              24467789999999999999999999999987 555 7889999988886655  345566667666543322 2345


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          553 SLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       553 ~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ..++.++...|++++|+..+++..+..
T Consensus       161 ~~~g~~~~~~~~~~~A~~~~~~al~l~  187 (208)
T 3urz_A          161 YRDGLSKLFTTRYEKARNSLQKVILRF  187 (208)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHTTTS
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            667888889999999999999988765

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.77  E-value=3.8e-07  Score=86.47  Aligned_cols=164  Identities=10%  Similarity=-0.062  Sum_probs=120.9

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH-----HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCC--CCC--hh
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDR-----ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGV--MPG--EE  484 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-----~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~--~p~--~~  484 (640)
                      .+...+..+...|++++|++.+.+..+.......     ..+..+...+...|++++|+..+++..+...-  .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            4445666778888999999988888774322111     12334455667788999999998887643111  111  34


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC----CCCC-----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC------Ch
Q 006580          485 HYACIIDLLCQAGQLGKAIDITSTMP----FQPG-----CSIWESILRASAIYGDVKLTENVAERMMDLQLP------SP  549 (640)
Q Consensus       485 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~------~~  549 (640)
                      .+..+...|...|++++|...++++.    ..|+     ..++..+...|...|++++|...++++++..+.      -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            78888889999999999999888764    1222     258889999999999999999999999987431      25


Q ss_pred             hHHHHHHHHHHhcCChHHH-HHHHHHHHh
Q 006580          550 LPYSLLTQAYAMRGRWEAI-VRVKKVMRK  577 (640)
Q Consensus       550 ~~~~~l~~~~~~~g~~~~a-~~~~~~m~~  577 (640)
                      .+|..++.+|.+.|++++| ...+++...
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            7889999999999999999 777877654

>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=98.77  E-value=1.7e-07  Score=80.11  Aligned_cols=127  Identities=8%  Similarity=-0.055  Sum_probs=96.8

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHH
Q 006580          449 TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASA  526 (640)
Q Consensus       449 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  526 (640)
                      .+..+...+...|++++|...++...+.  .+.+...+..+...+...|++++|.+.+++..  .+.+...|..+...+.
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            3445555666677777777777776653  23345667777777777788888877777765  3346778889999999


Q ss_pred             HcCChHHHHHHHHHHHhcCCCChhHHHHHHHH--HHhcCChHHHHHHHHHHHh
Q 006580          527 IYGDVKLTENVAERMMDLQLPSPLPYSLLTQA--YAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       527 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~a~~~~~~m~~  577 (640)
                      ..|++++|...++++++.+|.+...+..+..+  +.+.|++++|.+.++....
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            99999999999999999999998888555544  8889999999999887754

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.76  E-value=2.9e-06  Score=79.60  Aligned_cols=186  Identities=11%  Similarity=0.218  Sum_probs=123.7

Q ss_pred             HHHHhcC--ChHHHHHHHHhCCC---CChhHHHHHHHHH----HhC---CChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 006580          389 EMYAKTG--SIDSSTEIFVKLDK---RDLVSWNTIMMGL----TQN---GRAAETLDVFEELLEEGLPPDRITLAAVLLA  456 (640)
Q Consensus       389 ~~~~~~g--~~~~A~~~~~~~~~---~~~~~~~~li~~~----~~~---g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  456 (640)
                      ..+...|  ++++++..++.+..   .+..+|+.-...+    ...   +++++++++++++.+.. +-+..++..-...
T Consensus        75 ~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~v  153 (306)
T 3dra_A           75 NILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWL  153 (306)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3334444  66666666666552   2334444433333    333   67788888888887742 3355566666666


Q ss_pred             HhccCCHH--HHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCC------hHHHHHHHHhCC-CCC-CHHHHHHHHHHHH
Q 006580          457 CNYGGFVD--KGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQ------LGKAIDITSTMP-FQP-GCSIWESILRASA  526 (640)
Q Consensus       457 ~~~~~~~~--~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~------~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~  526 (640)
                      +.+.|.++  +++++++.+.+. . +-|...|+.-..++.+.|+      ++++++.++++. ..| |...|+.+...+.
T Consensus       154 l~~l~~~~~~~EL~~~~~~i~~-d-~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~  231 (306)
T 3dra_A          154 VDTFDLHNDAKELSFVDKVIDT-D-LKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQNPSTWNYLLGIHE  231 (306)
T ss_dssp             HHHTTCTTCHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHhcccChHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCCCccHHHHHHHHHH
Confidence            66667766  788888877764 2 3355566666666666665      777888777765 344 7888888888887


Q ss_pred             HcCC-hHHHHHHHHHHHhcC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          527 IYGD-VKLTENVAERMMDLQ---LPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       527 ~~~~-~~~a~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      +.|+ .+.+..+.+++++++   |.++.++..++.+|.+.|+.++|.++++.+.+
T Consensus       232 ~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          232 RFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             HTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            7776 444666777777665   77888888888888888888888888888875

>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=98.75  E-value=4e-07  Score=86.96  Aligned_cols=219  Identities=12%  Similarity=0.025  Sum_probs=157.0

Q ss_pred             CCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCC-CCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHH
Q 006580          325 YGFGEVALELFQLMLREDIRPTEFTLSCVLSSIP-IPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEI  403 (640)
Q Consensus       325 ~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  403 (640)
                      .|++++|.+++++..+... ..         .+. .++++.|...+..+               ...|...|++++|...
T Consensus         4 ~~~~~eA~~~~~~a~k~~~-~~---------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~   58 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK-TS---------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDA   58 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-CC---------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc-cc---------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHH
Confidence            4678889988887765311 10         122 26777777776654               4567788999999888


Q ss_pred             HHhCCC-----CC----hhHHHHHHHHHHhCCChHHHHHHHHHHHHCC---CCCC--HHHHHHHHHHHhccCCHHHHHHH
Q 006580          404 FVKLDK-----RD----LVSWNTIMMGLTQNGRAAETLDVFEELLEEG---LPPD--RITLAAVLLACNYGGFVDKGMLV  469 (640)
Q Consensus       404 ~~~~~~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---~~p~--~~~~~~ll~~~~~~~~~~~A~~~  469 (640)
                      |.+...     .+    ..+|+.+...|...|++++|+..|++..+.-   -.|.  ..++..+...|.. |++++|+..
T Consensus        59 ~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~  137 (307)
T 2ifu_A           59 YLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHL  137 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHH
Confidence            877652     11    3478888999999999999999999877621   1222  2467788888888 999999999


Q ss_pred             HHHhHHhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC-C---CCC----HHHHHHHHHHHHHcCChHHHHHH
Q 006580          470 FSAMKEEYGVMPG----EEHYACIIDLLCQAGQLGKAIDITSTMP-F---QPG----CSIWESILRASAIYGDVKLTENV  537 (640)
Q Consensus       470 ~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~---~~~----~~~~~~l~~~~~~~~~~~~a~~~  537 (640)
                      |++..+...-..+    ..++..+...|.+.|++++|++.+++.. .   .++    ...+..++..+...|++++|...
T Consensus       138 ~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~  217 (307)
T 2ifu_A          138 YQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKC  217 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9988764211111    4578888999999999999999999876 1   122    23566777778888999999999


Q ss_pred             HHHHHhcCCCChh-----HHHHHHHHHHhcCChHHHHHH
Q 006580          538 AERMMDLQLPSPL-----PYSLLTQAYAMRGRWEAIVRV  571 (640)
Q Consensus       538 ~~~~~~~~p~~~~-----~~~~l~~~~~~~g~~~~a~~~  571 (640)
                      +++++ .+|....     ....++..+ ..|+.+.+..+
T Consensus       218 ~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          218 VRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            99999 8885432     244555555 57777766663

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.75  E-value=1.5e-07  Score=88.81  Aligned_cols=135  Identities=8%  Similarity=-0.040  Sum_probs=114.2

Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCHHHHHHHH
Q 006580          444 PPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPGCSIWESIL  522 (640)
Q Consensus       444 ~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~  522 (640)
                      +.+...+..+...+...|++++|...|++..+.  -+-+...+..+..++.+.|++++|.+.++++. ..|+........
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~  191 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVA  191 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHH
Confidence            344456777888899999999999999999874  23456788899999999999999999999998 667655443333


Q ss_pred             -HHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          523 -RASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       523 -~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                       ..+...++.+.|...++++++.+|+++..+..++.+|...|++++|...++++.+...
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p  250 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDL  250 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhccc
Confidence             3466778889999999999999999999999999999999999999999999988654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.74  E-value=4.4e-07  Score=82.21  Aligned_cols=173  Identities=10%  Similarity=-0.035  Sum_probs=122.6

Q ss_pred             hCCC-CChHHHHHHHHHHHHhCCCC--chHHHHHHHHHHHhcCChHHHHHHHHhCC--CCCh----hHHHHHHHHHHh--
Q 006580          356 SIPI-PPVEHGSQFHSMAIKSGFDS--NAVVASSLMEMYAKTGSIDSSTEIFVKLD--KRDL----VSWNTIMMGLTQ--  424 (640)
Q Consensus       356 ~~~~-~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~----~~~~~li~~~~~--  424 (640)
                      .+.. |+++.|...++.+.+.....  ....+..+..+|.+.|++++|...|+++.  .|+.    ..+..+..++..  
T Consensus        13 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~   92 (225)
T 2yhc_A           13 QKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALD   92 (225)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhh
Confidence            3444 99999999999999864321  23567778899999999999999999987  3432    144455555544  


Q ss_pred             ----------------CCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHH
Q 006580          425 ----------------NGRAAETLDVFEELLEEGLPPDRI-TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYA  487 (640)
Q Consensus       425 ----------------~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~  487 (640)
                                      .|++++|+..|+++.+.  .|+.. .......          ...+...+.         ....
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~----------l~~~~~~~~---------~~~~  151 (225)
T 2yhc_A           93 DSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR----------LVFLKDRLA---------KYEY  151 (225)
T ss_dssp             C--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH----------HHHHHHHHH---------HHHH
T ss_pred             hhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH----------HHHHHHHHH---------HHHH
Confidence                            57899999999999984  45543 2211111          001111111         1223


Q ss_pred             HHHHHHHhcCChHHHHHHHHhCC-CCCC-H---HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCh
Q 006580          488 CIIDLLCQAGQLGKAIDITSTMP-FQPG-C---SIWESILRASAIYGDVKLTENVAERMMDLQLPSP  549 (640)
Q Consensus       488 ~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  549 (640)
                      .+...|.+.|++++|+..|+++. ..|+ +   ..+..+..++.+.|+.++|.+.++++....|.+.
T Consensus       152 ~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~  218 (225)
T 2yhc_A          152 SVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTL  218 (225)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCC
T ss_pred             HHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCch
Confidence            56778889999999999999876 3443 2   5688889999999999999999999998888664

>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=98.73  E-value=9e-08  Score=83.07  Aligned_cols=121  Identities=6%  Similarity=0.034  Sum_probs=90.9

Q ss_pred             hccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHH-HHHcCCh--H
Q 006580          458 NYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRA-SAIYGDV--K  532 (640)
Q Consensus       458 ~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~-~~~~~~~--~  532 (640)
                      ...|++++|+..++...+.  .+.+...+..+...|...|++++|...++++. ..| +...+..+... +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchH
Confidence            3456677777777776653  23455677777777777788888877777765 333 67777788877 7788888  9


Q ss_pred             HHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          533 LTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       533 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      +|...++++++.+|.++..+..++.+|...|++++|...++++.+...
T Consensus        99 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  146 (177)
T 2e2e_A           99 QTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNS  146 (177)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCC
Confidence            999999999999999999999999999999999999999998887653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.72  E-value=2.6e-07  Score=74.37  Aligned_cols=114  Identities=14%  Similarity=0.072  Sum_probs=83.1

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHH
Q 006580          448 ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRAS  525 (640)
Q Consensus       448 ~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~  525 (640)
                      ..+..+...+...|++++|.+.++++.+.  .+.+...+..+...+.+.|++++|...++++.  .+.+..++..+...+
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            45555666666677777777777766653  13345566667777777777777777777665  334677788888888


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcC
Q 006580          526 AIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRG  563 (640)
Q Consensus       526 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  563 (640)
                      ...|++++|...++++++.+|.++..+..++.++...|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            88899999999999999999988888888888776654

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.70  E-value=2.5e-07  Score=75.24  Aligned_cols=116  Identities=8%  Similarity=-0.122  Sum_probs=88.7

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHH
Q 006580          448 ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRAS  525 (640)
Q Consensus       448 ~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~  525 (640)
                      ..+..+...+...|++++|...+++....  .+.+...+..+...+...|++++|.+.+++..  .+.+...+..+...+
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            35555666666777777777777776653  23345666777777777777777777777765  333677888888899


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCh
Q 006580          526 AIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRW  565 (640)
Q Consensus       526 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  565 (640)
                      ...|++++|...++++++..|.++..+..++.++.+.|++
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999888875

>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=98.70  E-value=1.5e-07  Score=81.62  Aligned_cols=156  Identities=8%  Similarity=-0.030  Sum_probs=119.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-Hhc
Q 006580          384 ASSLMEMYAKTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLA-CNY  459 (640)
Q Consensus       384 ~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~-~~~  459 (640)
                      ...+...+.+.|++++|...|++..+   .+...+..+...+...|++++|+..+++....  .|+...+..+... +..
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHHHHh
Confidence            34566778899999999999999883   46778899999999999999999999998764  4444333222211 122


Q ss_pred             cCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCC---HHHHHHHHHHHHHcCChHHHH
Q 006580          460 GGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPG---CSIWESILRASAIYGDVKLTE  535 (640)
Q Consensus       460 ~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~---~~~~~~l~~~~~~~~~~~~a~  535 (640)
                      .+....|+..+++..+.  .+.+...+..+...+...|++++|...++++. ..|+   ...+..+...+...|+.++|.
T Consensus        87 ~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A           87 QAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             HHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHH
T ss_pred             hcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHH
Confidence            22333578888887764  23357788899999999999999999999876 5553   568999999999999999999


Q ss_pred             HHHHHHHh
Q 006580          536 NVAERMMD  543 (640)
Q Consensus       536 ~~~~~~~~  543 (640)
                      ..|++++.
T Consensus       165 ~~y~~al~  172 (176)
T 2r5s_A          165 SKYRRQLY  172 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998764

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.69  E-value=2.1e-07  Score=76.01  Aligned_cols=114  Identities=9%  Similarity=-0.039  Sum_probs=71.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHH
Q 006580          449 TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASA  526 (640)
Q Consensus       449 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  526 (640)
                      .+..+...+...|++++|+..+++..+.  .+.+...+..+...+...|++++|.+.++++.  .+.+...+..+...+.
T Consensus        18 ~~~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~   95 (133)
T 2lni_A           18 MVKNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAALE   95 (133)
T ss_dssp             HHHHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHHH
Confidence            4444444555555555555555554431  12234445555555555555555555555544  2335667777778888


Q ss_pred             HcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCC
Q 006580          527 IYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGR  564 (640)
Q Consensus       527 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  564 (640)
                      ..|++++|...++++++.+|.+...+..++.++...|+
T Consensus        96 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           96 AMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            88888888888888888888888888888888777664

>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=98.68  E-value=5.6e-08  Score=91.47  Aligned_cols=189  Identities=6%  Similarity=-0.082  Sum_probs=137.4

Q ss_pred             chHHHHHHHHHHHhcCChHHHHHHHHhCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC-CHHHHHHHHH
Q 006580          380 NAVVASSLMEMYAKTGSIDSSTEIFVKLD--KR-DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPP-DRITLAAVLL  455 (640)
Q Consensus       380 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~  455 (640)
                      +...+..+...+.+.|++++|...|++..  .| +...|..+..+|...|++++|+..+++..+.  .| +...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            44566778888999999999999999876  34 7788999999999999999999999999884  45 4568888889


Q ss_pred             HHhccCCHHHHHHHHHHhHHhhCCCC---ChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChH
Q 006580          456 ACNYGGFVDKGMLVFSAMKEEYGVMP---GEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVK  532 (640)
Q Consensus       456 ~~~~~~~~~~A~~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  532 (640)
                      ++...|++++|...|+...+...-.+   ....+..+  ...+...+..    .......++......+...  ..|+.+
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~--~~~~~~~~~~----~~~~~~~~~~~i~~~l~~l--~~~~~~  152 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSAL--RIAKKKRWNS----IEERRIHQESELHSYLTRL--IAAERE  152 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHH--HHHHHHHHHH----HHHTCCCCCCHHHHHHHHH--HHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHH--HHHHHHHHHH----HHHHHHhhhHHHHHHHHHH--HHHHHH
Confidence            99999999999999998876411111   11111111  1222222222    2222334455554444332  368999


Q ss_pred             HHHHHHHHHHhcCCCChhHHHHHHHHHHhc-CChHHHHHHHHHHHhC
Q 006580          533 LTENVAERMMDLQLPSPLPYSLLTQAYAMR-GRWEAIVRVKKVMRKN  578 (640)
Q Consensus       533 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~  578 (640)
                      +|.+.++++++.+|.+......+...+.+. +.+++|.++|+.+.+.
T Consensus       153 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          153 RELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999999999999999888888888777776 7899999999988654

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.68  E-value=1.2e-05  Score=81.79  Aligned_cols=81  Identities=6%  Similarity=-0.118  Sum_probs=42.8

Q ss_pred             CChHHHHHHHhccCC--CCeeeHHHHHHHHHhcCC-hhHHHHHHHHhHHC-CCCC-CcchHHHHHHHHh----ccCCchH
Q 006580          194 GVLYYAFGVFLNMEE--LDIISWNSLISGCFNSGY-GELALDQFYSMRYS-GYSP-DEYTISIVINACT----KLRNLDK  264 (640)
Q Consensus       194 g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~-~~~A~~~~~~m~~~-g~~p-~~~t~~~ll~~~~----~~~~~~~  264 (640)
                      |+++.+..+|+....  |++..|...+....+.+. .+....+|+..... |..| +...|...+..+.    ..++++.
T Consensus        28 ~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~  107 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEK  107 (493)
T ss_dssp             TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHH
T ss_pred             CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHH
Confidence            566777777766653  566666666655555542 23445555555442 3223 3334444444432    2345666


Q ss_pred             HHHHHHHHHH
Q 006580          265 GKQVFALSVK  274 (640)
Q Consensus       265 a~~~~~~~~~  274 (640)
                      +.++|+.++.
T Consensus       108 vR~iy~rAL~  117 (493)
T 2uy1_A          108 IRNGYMRALQ  117 (493)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            7777777765

>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=98.67  E-value=5.4e-07  Score=80.79  Aligned_cols=123  Identities=8%  Similarity=-0.120  Sum_probs=73.3

Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcC
Q 006580          452 AVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYG  529 (640)
Q Consensus       452 ~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~  529 (640)
                      .+...+...|++++|+..+++.     +.|+...+..+...|.+.|++++|++.+++..  .+.+...|..+...+...|
T Consensus        11 ~~g~~~~~~~~~~~A~~~~~~a-----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~~   85 (213)
T 1hh8_A           11 NEGVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTE   85 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHH-----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcc
Confidence            3444455566666666666543     23455566666666666666666666666554  2234556666666666666


Q ss_pred             ChHHHHHHHHHHHhcCCCCh----------------hHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          530 DVKLTENVAERMMDLQLPSP----------------LPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       530 ~~~~a~~~~~~~~~~~p~~~----------------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ++++|...++++++..|.+.                ..+..++.+|.+.|++++|.+.+++..+..
T Consensus        86 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           86 KYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             CHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             cHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            66666666666666655544                566666666666666666666666665544

>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=98.67  E-value=2e-06  Score=76.86  Aligned_cols=174  Identities=6%  Similarity=-0.089  Sum_probs=139.0

Q ss_pred             HHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC-CChhHHHHHHHHHHhCC----ChHHHHHHHHHHH
Q 006580          365 GSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK-RDLVSWNTIMMGLTQNG----RAAETLDVFEELL  439 (640)
Q Consensus       365 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g----~~~~a~~~~~~m~  439 (640)
                      |...+....+.|   ++..+..|...|...+++++|...|++..+ .++..+..|...|.. +    ++++|++.|++..
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            445555555543   566677788889899999999999998774 467788888888877 6    8999999999998


Q ss_pred             HCCCCCCHHHHHHHHHHHhc----cCCHHHHHHHHHHhHHhhCCCCC---hhHHHHHHHHHHh----cCChHHHHHHHHh
Q 006580          440 EEGLPPDRITLAAVLLACNY----GGFVDKGMLVFSAMKEEYGVMPG---EEHYACIIDLLCQ----AGQLGKAIDITST  508 (640)
Q Consensus       440 ~~g~~p~~~~~~~ll~~~~~----~~~~~~A~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~----~g~~~~A~~~~~~  508 (640)
                      +.|   +...+..|...|..    .+++++|+..|++..+.   .|+   ...+..|...|..    .+++++|++.|++
T Consensus        81 ~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~---~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           81 EAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARD---SESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSS---TTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHc---CCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            865   56677777777877    88999999999988754   342   6788889999988    8899999999999


Q ss_pred             CC-CCCCHHHHHHHHHHHHHc-C-----ChHHHHHHHHHHHhcCCCC
Q 006580          509 MP-FQPGCSIWESILRASAIY-G-----DVKLTENVAERMMDLQLPS  548 (640)
Q Consensus       509 ~~-~~~~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~~~~~p~~  548 (640)
                      .. ..+++..+..|...|... |     ++++|...++++.+.+.+.
T Consensus       155 A~~~~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~~  201 (212)
T 3rjv_A          155 SSSLSRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFDT  201 (212)
T ss_dssp             HHHTSCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCHH
Confidence            86 435677788888888653 3     8999999999999886543

>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=98.66  E-value=3.6e-07  Score=88.37  Aligned_cols=143  Identities=9%  Similarity=-0.052  Sum_probs=102.6

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHH
Q 006580          412 LVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIID  491 (640)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  491 (640)
                      ...|..+...+.+.|++++|+..|++..+.  .|+...+           ..+.+.+.- .        .....|..+..
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~-----------~~~~~~~~~-~--------~~~~~~~nla~  204 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSW--LEYESSF-----------SNEEAQKAQ-A--------LRLASHLNLAM  204 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCCC-----------CSHHHHHHH-H--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--hhccccC-----------ChHHHHHHH-H--------HHHHHHHHHHH
Confidence            445566666666666666666666666653  2221000           001111000 0        01356777888


Q ss_pred             HHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHH-
Q 006580          492 LLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAI-  568 (640)
Q Consensus       492 ~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a-  568 (640)
                      +|.+.|++++|++.++++. ..| +...|..+..++...|++++|...++++++++|.+..++..++.++.+.|++++| 
T Consensus       205 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  284 (336)
T 1p5q_A          205 CHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLARE  284 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888888888888876 344 7889999999999999999999999999999999999999999999999999999 


Q ss_pred             HHHHHHHH
Q 006580          569 VRVKKVMR  576 (640)
Q Consensus       569 ~~~~~~m~  576 (640)
                      ...++.|.
T Consensus       285 ~~~~~~~~  292 (336)
T 1p5q_A          285 KKLYANMF  292 (336)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44666664

>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=98.66  E-value=2.3e-07  Score=75.19  Aligned_cols=97  Identities=9%  Similarity=-0.025  Sum_probs=84.1

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 006580          483 EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       483 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      ...+..+...+.+.|++++|++.|++.. ..| +...|..+...+...|++++|+..++++++.+|.++..|..++.++.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            3456667778888888888888888876 344 78889999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhCC
Q 006580          561 MRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       561 ~~g~~~~a~~~~~~m~~~~  579 (640)
                      ..|++++|...+++..+..
T Consensus        84 ~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           84 AVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHhC
Confidence            9999999999999888754

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.64  E-value=1.1e-05  Score=75.65  Aligned_cols=161  Identities=4%  Similarity=-0.012  Sum_probs=126.6

Q ss_pred             CChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChH--HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC------H
Q 006580          395 GSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAA--ETLDVFEELLEEGLPPDRITLAAVLLACNYGGF------V  463 (640)
Q Consensus       395 g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~--~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~------~  463 (640)
                      ++++++..+++.+.   ..+..+|+.-.-.+.+.|.++  ++++.++++.+.. +-|...++.-...+.+.+.      +
T Consensus       124 ~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~  202 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTI  202 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhH
Confidence            67889999998887   346677777777778888888  9999999999864 4455677766666666666      8


Q ss_pred             HHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHH-HHHHHHhCC-C----CCCHHHHHHHHHHHHHcCChHHHHHH
Q 006580          464 DKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGK-AIDITSTMP-F----QPGCSIWESILRASAIYGDVKLTENV  537 (640)
Q Consensus       464 ~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~-~----~~~~~~~~~l~~~~~~~~~~~~a~~~  537 (640)
                      +++++.++.+...  .+-|...|+.+...+.+.|+..+ +.++..++. .    ..++..+..++..+.+.|+.++|.++
T Consensus       203 ~eEl~~~~~aI~~--~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          203 DEELNYVKDKIVK--CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHh--CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence            8999999988874  34567788888888888887544 556777665 2    34788999999999999999999999


Q ss_pred             HHHHHh-cCCCChhHHHHHHHH
Q 006580          538 AERMMD-LQLPSPLPYSLLTQA  558 (640)
Q Consensus       538 ~~~~~~-~~p~~~~~~~~l~~~  558 (640)
                      ++.+.+ .+|.....|...+..
T Consensus       281 ~~~l~~~~Dpir~~yW~~~~~~  302 (306)
T 3dra_A          281 YDLLKSKYNPIRSNFWDYQISK  302 (306)
T ss_dssp             HHHHHHTTCGGGHHHHHHHHHT
T ss_pred             HHHHHhccChHHHHHHHHHHhh
Confidence            999997 699888888766543

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.63  E-value=7.9e-07  Score=75.86  Aligned_cols=96  Identities=13%  Similarity=0.009  Sum_probs=63.6

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 006580          483 EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       483 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      ...+..+...+.+.|++++|++.|++.. ..| +...|..+...+...|++++|+..++++++++|.++..|..++.+|.
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   90 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLARF   90 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            3345555566666666666666666654 333 56666667777777777777777777777777777777777777777


Q ss_pred             hcCChHHHHHHHHHHHhC
Q 006580          561 MRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       561 ~~g~~~~a~~~~~~m~~~  578 (640)
                      ..|++++|...+++..+.
T Consensus        91 ~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           91 DMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HccCHHHHHHHHHHHHHh
Confidence            777777777777766654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.62  E-value=2.9e-07  Score=72.46  Aligned_cols=98  Identities=11%  Similarity=0.004  Sum_probs=84.2

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC--ChhHHHHHHHH
Q 006580          483 EEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLP--SPLPYSLLTQA  558 (640)
Q Consensus       483 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~  558 (640)
                      ...+..+...+.+.|++++|...++++.  .+.+...+..+...+...|++++|...++++++..|.  +...+..++.+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            4456667777888888888888887765  3446778889999999999999999999999999999  99999999999


Q ss_pred             HHhc-CChHHHHHHHHHHHhCCC
Q 006580          559 YAMR-GRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       559 ~~~~-g~~~~a~~~~~~m~~~~~  580 (640)
                      +... |++++|.+.+++..+...
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhccc
Confidence            9999 999999999999887664

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.62  E-value=4.6e-05  Score=77.46  Aligned_cols=201  Identities=8%  Similarity=0.022  Sum_probs=105.0

Q ss_pred             HHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHH-HHHHhc
Q 006580          229 LALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSV-RLFEQL  307 (640)
Q Consensus       229 ~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~-~~~~~~  307 (640)
                      .+..+|+++... .+-+...|...+..+...|+.+.|..+++..+..  +.+...+..    |....+.++.. .+.+..
T Consensus       197 Rv~~~ye~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~~~~l~~~~  269 (493)
T 2uy1_A          197 RMHFIHNYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAVYGDLKRKY  269 (493)
T ss_dssp             HHHHHHHHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHHHHHHHHHT
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHHHHHHHHHH
Confidence            345566665542 2233445555555556666667777777666666  222222221    11111111111 111110


Q ss_pred             C------------CCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHH--HHhhCCCCChHHHHHHHHHHH
Q 006580          308 D------------RWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSC--VLSSIPIPPVEHGSQFHSMAI  373 (640)
Q Consensus       308 ~------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~--~l~~~~~~~~~~a~~~~~~~~  373 (640)
                      .            ......|-..+....+.+..+.|..+|... +. ...+...|..  .+.....++.+.|..+++...
T Consensus       270 ~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al  347 (493)
T 2uy1_A          270 SMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGL  347 (493)
T ss_dssp             C----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHH
T ss_pred             HhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHH
Confidence            0            001234555556555667778888888777 21 1122222221  111111146777777777777


Q ss_pred             HhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 006580          374 KSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLE  440 (640)
Q Consensus       374 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  440 (640)
                      +.- +.++..+...++...+.|+.+.|..+|+++.+ ....|...+.--...|+.+.+.++++++.+
T Consensus       348 ~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~k-~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          348 LKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLEK-TSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSCC-BHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            653 33344455566666777777778888777743 455666666655666777777776666654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.61  E-value=2.3e-07  Score=74.39  Aligned_cols=95  Identities=11%  Similarity=-0.083  Sum_probs=84.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhc
Q 006580          485 HYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMR  562 (640)
Q Consensus       485 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  562 (640)
                      .+..+...+.+.|++++|+..++++. ..| +...|..+..++...|++++|+..++++++++|.++..+..++.+|...
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            35556778889999999999998887 445 7889999999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHhCC
Q 006580          563 GRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       563 g~~~~a~~~~~~m~~~~  579 (640)
                      |++++|...+++..+..
T Consensus        99 g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHC--
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            99999999999988754

>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=98.59  E-value=7e-07  Score=73.43  Aligned_cols=99  Identities=9%  Similarity=-0.036  Sum_probs=86.6

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHH
Q 006580          481 PGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQA  558 (640)
Q Consensus       481 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  558 (640)
                      .+...+..+...+...|++++|...+++.. ..| +...|..+...+...|++++|...++++++.+|.++..+..++.+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   86 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   86 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            456677788888888888888888888776 334 678899999999999999999999999999999999999999999


Q ss_pred             HHhcCChHHHHHHHHHHHhCC
Q 006580          559 YAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       559 ~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      |...|++++|...+++..+..
T Consensus        87 ~~~~~~~~~A~~~~~~a~~~~  107 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYSLA  107 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHC
Confidence            999999999999999988754

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.57  E-value=9.6e-07  Score=73.61  Aligned_cols=105  Identities=8%  Similarity=-0.023  Sum_probs=88.3

Q ss_pred             CCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHH
Q 006580          443 LPPDR-ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWE  519 (640)
Q Consensus       443 ~~p~~-~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~  519 (640)
                      +.|+. ..+..+...+.+.|++++|+..|+...+.  -+.+...|..+..+|...|++++|++.|+++. ..| ++..|.
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~  108 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVF  108 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHH
Confidence            45554 36677778888999999999999998864  24457788889999999999999999999887 455 678999


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCCh
Q 006580          520 SILRASAIYGDVKLTENVAERMMDLQLPSP  549 (640)
Q Consensus       520 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  549 (640)
                      .+..++...|++++|...|++++++.|+++
T Consensus       109 ~lg~~~~~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A          109 HTGQCQLRLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            999999999999999999999999998764

>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=98.56  E-value=4.1e-07  Score=86.87  Aligned_cols=195  Identities=8%  Similarity=-0.050  Sum_probs=146.7

Q ss_pred             CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHH
Q 006580          360 PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELL  439 (640)
Q Consensus       360 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  439 (640)
                      |++++|..++++..+..-. .      +   +...++++.|...|..           ....|...|++++|...|.+..
T Consensus         5 ~~~~eA~~~~~~a~k~~~~-~------~---~~~~~~~~~A~~~~~~-----------a~~~~~~~g~~~~A~~~~~~al   63 (307)
T 2ifu_A            5 QKISEAHEHIAKAEKYLKT-S------F---MKWKPDYDSAASEYAK-----------AAVAFKNAKQLEQAKDAYLQEA   63 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHCC-C------S---SSCSCCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHccc-c------c---cCCCCCHHHHHHHHHH-----------HHHHHHHcCCHHHHHHHHHHHH
Confidence            5677888888777764211 1      0   1114778888777655           4667888999999999999887


Q ss_pred             HC----CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006580          440 EE----GLPPD-RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG----EEHYACIIDLLCQAGQLGKAIDITSTMP  510 (640)
Q Consensus       440 ~~----g~~p~-~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~  510 (640)
                      +.    |-.+. ..+|..+...|...|++++|+..+++..+.+.-..+    ..++..+..+|.. |++++|++.+++..
T Consensus        64 ~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al  142 (307)
T 2ifu_A           64 EAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAA  142 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHH
Confidence            62    21111 247888888999999999999999987654211111    3567788889988 99999999998876


Q ss_pred             -CCC---C----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC------hhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          511 -FQP---G----CSIWESILRASAIYGDVKLTENVAERMMDLQLPS------PLPYSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       511 -~~~---~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                       ..|   +    ..++..+...+...|++++|...++++++..|.+      ...+..++.++...|++++|...+++..
T Consensus       143 ~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          143 AVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence             111   1    4678889999999999999999999999985533      2367788888899999999999999887

>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=98.54  E-value=2.4e-07  Score=77.41  Aligned_cols=108  Identities=14%  Similarity=0.008  Sum_probs=86.1

Q ss_pred             CCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHH
Q 006580          443 LPPDR-ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWE  519 (640)
Q Consensus       443 ~~p~~-~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~  519 (640)
                      +.|+. ..+..+...+...|++++|+..|+.....  -+.+...|..+..+|...|++++|++.++++. ..| ++..+.
T Consensus        16 ~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~   93 (148)
T 2vgx_A           16 ISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPF   93 (148)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHH
T ss_pred             CCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHH
Confidence            34543 35666777788888888888888888764  23466778888888889999999999888876 444 678889


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCChhHH
Q 006580          520 SILRASAIYGDVKLTENVAERMMDLQLPSPLPY  552 (640)
Q Consensus       520 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  552 (640)
                      .+..++...|++++|...++++++..|.++...
T Consensus        94 ~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  126 (148)
T 2vgx_A           94 HAAECLLQXGELAEAESGLFLAQELIANXPEFX  126 (148)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTCGGGH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCcCCCcch
Confidence            999999999999999999999999998876553

>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=1.1e-06  Score=69.84  Aligned_cols=96  Identities=17%  Similarity=0.066  Sum_probs=65.0

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHh
Q 006580          484 EHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAM  561 (640)
Q Consensus       484 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  561 (640)
                      ..+..+...+...|++++|.+.+++..  .+.+...+..+...+...|++++|...++++++.+|.++..+..++.++..
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            345555666666666666666666654  233566666777777777777777777777777777777777777777777


Q ss_pred             cCChHHHHHHHHHHHhCC
Q 006580          562 RGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       562 ~g~~~~a~~~~~~m~~~~  579 (640)
                      .|++++|.+.+++..+.+
T Consensus        85 ~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           85 LNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             TTCHHHHHHHHHHHHTTC
T ss_pred             HhhHHHHHHHHHHHHHcC
Confidence            777777777777666543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.54  E-value=4.7e-06  Score=78.85  Aligned_cols=162  Identities=8%  Similarity=-0.044  Sum_probs=123.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCCC--C-Ch------hHHHHHHHHHHhCCChHHHHHHHHHHHHCCC---CCC--HH
Q 006580          383 VASSLMEMYAKTGSIDSSTEIFVKLDK--R-DL------VSWNTIMMGLTQNGRAAETLDVFEELLEEGL---PPD--RI  448 (640)
Q Consensus       383 ~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~------~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~---~p~--~~  448 (640)
                      .+...+..+...|++++|.+.+.+..+  + ..      ..+..+...+...|++++|+..+++..+...   .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            445567788899999999999876541  1 11      2344456667888999999999999886321   222  34


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC-----hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-------CH
Q 006580          449 TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG-----EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-------GC  515 (640)
Q Consensus       449 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-------~~  515 (640)
                      +++.+...|...|++++|+..+++..+.....|+     ..++..+...|.+.|++++|++.+++.. ..+       -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            7888889999999999999999998743222222     2578889999999999999999998875 111       16


Q ss_pred             HHHHHHHHHHHHcCChHHH-HHHHHHHHhc
Q 006580          516 SIWESILRASAIYGDVKLT-ENVAERMMDL  544 (640)
Q Consensus       516 ~~~~~l~~~~~~~~~~~~a-~~~~~~~~~~  544 (640)
                      .++..+...+...|++++| ...+++++.+
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            6889999999999999999 8889988765

>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=98.53  E-value=4.1e-07  Score=73.67  Aligned_cols=95  Identities=7%  Similarity=-0.037  Sum_probs=79.6

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCh-------hHHHH
Q 006580          484 EHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSP-------LPYSL  554 (640)
Q Consensus       484 ~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-------~~~~~  554 (640)
                      ..+..+...+.+.|++++|++.|+++. ..| +...|..+..+|...|++++|+..++++++++|.+.       .+|..
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            346677888888899999999888876 445 688899999999999999999999999999977543       36778


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhC
Q 006580          555 LTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       555 l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      ++.++...|++++|++.+++..+.
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~~  112 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLSE  112 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh
Confidence            888999999999999999987764

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.52  E-value=2.6e-06  Score=77.93  Aligned_cols=183  Identities=11%  Similarity=-0.028  Sum_probs=133.2

Q ss_pred             hcCChHHHHHHHHhCCC--C-ChhHHHHH-------HHHHHhCCChHHHHHHHHHHHHCCCCCCH---------------
Q 006580          393 KTGSIDSSTEIFVKLDK--R-DLVSWNTI-------MMGLTQNGRAAETLDVFEELLEEGLPPDR---------------  447 (640)
Q Consensus       393 ~~g~~~~A~~~~~~~~~--~-~~~~~~~l-------i~~~~~~g~~~~a~~~~~~m~~~g~~p~~---------------  447 (640)
                      ..++...|.+.|.++..  | ....|..+       ...+...++..+++..+.+-..  +.|+.               
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 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCcccccc
Confidence            57888888888888873  3 45577766       3455555555555555554443  23322               


Q ss_pred             -------HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCC----HH
Q 006580          448 -------ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPG----CS  516 (640)
Q Consensus       448 -------~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~  516 (640)
                             .....+...+...|++++|.+.|+.+...   .|+......+...+.+.|++++|+..|+.....|+    ..
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 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVA---GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCT---TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHH
Confidence                   12334566778899999999999887643   35444666667788999999999999987663333    24


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC--CC-ChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          517 IWESILRASAIYGDVKLTENVAERMMDLQ--LP-SPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       517 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      .+..+..++...|++++|+..|+++....  |. .+.....++.++.+.|+.++|...|+++.+...
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            67888899999999999999999998553  43 445788899999999999999999999998654

>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=98.52  E-value=1.1e-05  Score=76.22  Aligned_cols=158  Identities=9%  Similarity=-0.036  Sum_probs=121.3

Q ss_pred             HHHHHHhcCChHHHHHHHHhCCCC-----C----hhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCC-CC----HHHHHH
Q 006580          387 LMEMYAKTGSIDSSTEIFVKLDKR-----D----LVSWNTIMMGLTQNGRAAETLDVFEELLEEGLP-PD----RITLAA  452 (640)
Q Consensus       387 l~~~~~~~g~~~~A~~~~~~~~~~-----~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~----~~~~~~  452 (640)
                      .+..+...|++++|...++...+.     +    ...+..+...+...|++++|+..+++..+.... ++    ..+++.
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            467788899999999999887631     2    113344666777788999999999999984322 22    236888


Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhhC----CCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC-------CCCC-HHHHH
Q 006580          453 VLLACNYGGFVDKGMLVFSAMKEEYG----VMPG-EEHYACIIDLLCQAGQLGKAIDITSTMP-------FQPG-CSIWE  519 (640)
Q Consensus       453 ll~~~~~~~~~~~A~~~~~~~~~~~~----~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~-~~~~~  519 (640)
                      +...|...|++++|+..++++.+...    ..+. ..++..+...|.+.|++++|.+.+++..       ..+. ..++.
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            99999999999999999999875321    1111 3377889999999999999999998775       1122 67889


Q ss_pred             HHHHHHHHcCC-hHHHHHHHHHHHhc
Q 006580          520 SILRASAIYGD-VKLTENVAERMMDL  544 (640)
Q Consensus       520 ~l~~~~~~~~~-~~~a~~~~~~~~~~  544 (640)
                      .+...+...|+ +++|.+.+++++++
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            99999999995 69999999999876

>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=98.51  E-value=2.2e-06  Score=67.96  Aligned_cols=110  Identities=12%  Similarity=0.009  Sum_probs=80.7

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHH
Q 006580          448 ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRAS  525 (640)
Q Consensus       448 ~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~  525 (640)
                      ..+..+...+...|++++|...++.....  .+.+...+..+...+...|++++|...+++.. ..| +...+..+...+
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            34555566666677777777777776653  23345666667777777777777777777665 333 677888888899


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHH
Q 006580          526 AIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAY  559 (640)
Q Consensus       526 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  559 (640)
                      ...|++++|...++++++.+|.++..+..++.+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  116 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNME  116 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHhh
Confidence            9999999999999999999999888887776554

>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=98.51  E-value=1.2e-06  Score=77.58  Aligned_cols=166  Identities=10%  Similarity=-0.055  Sum_probs=101.1

Q ss_pred             hcCChHHHHHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 006580          393 KTGSIDSSTEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLV  469 (640)
Q Consensus       393 ~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~  469 (640)
                      ..|+++++.+.|+.-..   .....+..+...+...|++++|+..|++..+.  .|+...+...               .
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~---------------~   78 (198)
T 2fbn_A           16 NLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTEEWDDQ---------------I   78 (198)
T ss_dssp             ------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCTTCCCH---------------H
T ss_pred             hhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--Hhcccccchh---------------h
Confidence            34455555555443221   13345666666777777777777777777763  2221100000               0


Q ss_pred             HHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 006580          470 FSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLP  547 (640)
Q Consensus       470 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  547 (640)
                      +..-..    ......+..+..+|.+.|++++|+..++++.  .+.+...+..+..++...|++++|...++++++.+|.
T Consensus        79 ~~~~~~----~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~  154 (198)
T 2fbn_A           79 LLDKKK----NIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN  154 (198)
T ss_dssp             HHHHHH----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHH----HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC
Confidence            000000    0012456677778888888888888888776  3447788999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHHHhcCChHHHH-HHHHHHHhCC
Q 006580          548 SPLPYSLLTQAYAMRGRWEAIV-RVKKVMRKNG  579 (640)
Q Consensus       548 ~~~~~~~l~~~~~~~g~~~~a~-~~~~~m~~~~  579 (640)
                      ++..+..++.++...|+.+++. ..++.|...+
T Consensus       155 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          155 NLDIRNSYELCVNKLKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             CHHHHHHHHHHHHHHHHHHC-------------
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            9999999999999998888877 5566555443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.51  E-value=1.4e-06  Score=69.99  Aligned_cols=97  Identities=13%  Similarity=0.166  Sum_probs=88.9

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 006580          483 EEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       483 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      ...+..+...+...|++++|.+.++++.  .+.+..++..+...+...|++++|...++++++..|.++..+..++.+|.
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            4677888899999999999999999986  44478899999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhCC
Q 006580          561 MRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       561 ~~g~~~~a~~~~~~m~~~~  579 (640)
                      ..|++++|...++++.+..
T Consensus        89 ~~~~~~~A~~~~~~~~~~~  107 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALELD  107 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HhcCHHHHHHHHHHHHHhC
Confidence            9999999999999998754

>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=98.49  E-value=1.1e-06  Score=76.08  Aligned_cols=127  Identities=11%  Similarity=0.119  Sum_probs=100.5

Q ss_pred             HhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHH-HHhcCCh--
Q 006580          423 TQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDL-LCQAGQL--  499 (640)
Q Consensus       423 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g~~--  499 (640)
                      ...|++++|+..+++..+.. +.+...+..+...+...|++++|+..|++..+.  .+.+...+..+..+ +...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQL--RGENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCCcch
Confidence            45678888999998888752 345578888888899999999999999988864  23456677788888 7788998  


Q ss_pred             HHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHH
Q 006580          500 GKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPY  552 (640)
Q Consensus       500 ~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  552 (640)
                      ++|...++++. ..| +...+..+...+...|++++|...++++++.+|.++...
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  152 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRT  152 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHH
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHH
Confidence            99999998876 444 678899999999999999999999999999999876543

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.49  E-value=1.1e-06  Score=71.69  Aligned_cols=99  Identities=10%  Similarity=-0.002  Sum_probs=90.2

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHH
Q 006580          481 PGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQA  558 (640)
Q Consensus       481 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  558 (640)
                      .+...+..+...+.+.|++++|.+.+++.. ..| +...+..+...+...|++++|...++++++.+|.++..+..++.+
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   93 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAA   93 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            346678888999999999999999999876 444 788999999999999999999999999999999999999999999


Q ss_pred             HHhcCChHHHHHHHHHHHhCC
Q 006580          559 YAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       559 ~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +...|++++|.+.+++..+..
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~~  114 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDLD  114 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhHHHHHHHHHHHHHhC
Confidence            999999999999999988754

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.48  E-value=4.7e-06  Score=73.77  Aligned_cols=153  Identities=10%  Similarity=-0.018  Sum_probs=90.7

Q ss_pred             hCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhh---CCCC-ChhHHHHHHHHHHhcCCh
Q 006580          424 QNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEY---GVMP-GEEHYACIIDLLCQAGQL  499 (640)
Q Consensus       424 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~---~~~p-~~~~~~~l~~~~~~~g~~  499 (640)
                      ..|++++|.+.++.+... ......++..+...+...|++++|...+++..+..   +..| ....+..+...+...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            345555665533333221 11123355555555566666666666665554421   1111 123455566666666676


Q ss_pred             HHHHHHHHhCC----CCC-C----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCC----hhHHHHHHHHHHhcCC
Q 006580          500 GKAIDITSTMP----FQP-G----CSIWESILRASAIYGDVKLTENVAERMMDLQ--LPS----PLPYSLLTQAYAMRGR  564 (640)
Q Consensus       500 ~~A~~~~~~~~----~~~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~~----~~~~~~l~~~~~~~g~  564 (640)
                      ++|.+.+++..    ..+ +    ...+..+...+...|++++|...++++++..  ..+    ...+..++.++...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            66666666543    122 2    3356777788888888999988888888662  222    2346788899999999


Q ss_pred             hHHHHHHHHHHHh
Q 006580          565 WEAIVRVKKVMRK  577 (640)
Q Consensus       565 ~~~a~~~~~~m~~  577 (640)
                      +++|...+++..+
T Consensus       163 ~~~A~~~~~~al~  175 (203)
T 3gw4_A          163 LLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999998888765

>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=98.46  E-value=1.9e-06  Score=69.67  Aligned_cols=110  Identities=8%  Similarity=-0.082  Sum_probs=80.1

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHH
Q 006580          449 TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASA  526 (640)
Q Consensus       449 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~  526 (640)
                      .+..+...+.+.|++++|+..|++..+.  .+.+...|..+..++.+.|++++|++.+++.. ..| +...|..+..++.
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            4555556666777777777777776653  23345667777777777777777777777765 344 6778888888899


Q ss_pred             HcCChHHHHHHHHHHHhcC------CCChhHHHHHHHHHH
Q 006580          527 IYGDVKLTENVAERMMDLQ------LPSPLPYSLLTQAYA  560 (640)
Q Consensus       527 ~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~~  560 (640)
                      ..|++++|...++++++++      |.+......+..+..
T Consensus        84 ~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~~  123 (126)
T 3upv_A           84 AVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKASQ  123 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHHH
Confidence            9999999999999999998      777777776665543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.45  E-value=5.3e-06  Score=68.99  Aligned_cols=110  Identities=9%  Similarity=-0.110  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHH
Q 006580          448 ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG----EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESI  521 (640)
Q Consensus       448 ~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l  521 (640)
                      ..+..+...+...|++++|+..|++..+   ..|+    ...+..+...|...|++++|++.+++.. ..| +...+..+
T Consensus        29 ~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  105 (148)
T 2dba_A           29 EQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRR  105 (148)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHH
Confidence            3444444455555555555555555442   2333    3445555555556666666666655544 223 56667777


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 006580          522 LRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       522 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      ...+...|++++|...++++++.+|.+...+..+..+..
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  144 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISG  144 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHh
Confidence            777777778888888888888777777777666655543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.44  E-value=1.5e-06  Score=72.04  Aligned_cols=105  Identities=14%  Similarity=-0.015  Sum_probs=80.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHH
Q 006580          449 TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASA  526 (640)
Q Consensus       449 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~  526 (640)
                      .+..+...+...|++++|+..|+.....  -+.+...|..+..+|.+.|++++|+..++++. ..| ++..+..+..++.
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence            4555566677778888888888877753  23456677777888888888888888888776 344 6778888899999


Q ss_pred             HcCChHHHHHHHHHHHhcCCCChhHHHHH
Q 006580          527 IYGDVKLTENVAERMMDLQLPSPLPYSLL  555 (640)
Q Consensus       527 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  555 (640)
                      ..|++++|...++++++..|.++......
T Consensus        98 ~~g~~~~A~~~~~~al~~~p~~~~~~~~~  126 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARALAAAQPAHEALA  126 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCcchHHHH
Confidence            99999999999999999988877665543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.43  E-value=2.6e-06  Score=70.99  Aligned_cols=99  Identities=13%  Similarity=0.038  Sum_probs=90.3

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHH
Q 006580          481 PGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPG----CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLL  555 (640)
Q Consensus       481 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  555 (640)
                      .+...+..+...+...|++++|.+.+++.. ..|+    ...|..+...+...|++++|...++++++.+|.++..+..+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  105 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRR  105 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHH
Confidence            356678888999999999999999999976 6676    67888999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCC
Q 006580          556 TQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       556 ~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +.+|...|++++|...+++..+..
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcC
Confidence            999999999999999999998754

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.42  E-value=2.5e-06  Score=69.16  Aligned_cols=98  Identities=10%  Similarity=-0.008  Sum_probs=89.2

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHH
Q 006580          482 GEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAY  559 (640)
Q Consensus       482 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  559 (640)
                      +...+..+...+...|++++|.+.+++..  .+.+...+..+...+...|++++|...++++++..|.++..+..++.++
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            45567788889999999999999999876  3447889999999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHHhCC
Q 006580          560 AMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       560 ~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ...|++++|...+++..+..
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~  110 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELD  110 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS
T ss_pred             HHhCCHHHHHHHHHHHHhcC
Confidence            99999999999999998754

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.41  E-value=2.6e-06  Score=72.63  Aligned_cols=108  Identities=12%  Similarity=-0.027  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHH
Q 006580          447 RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRA  524 (640)
Q Consensus       447 ~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~  524 (640)
                      ...+..+...+...|++++|+..|++..+.  .+.+...|..+..+|.+.|++++|+..+++.. ..| +...|..+...
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            345666667777788888888888877764  23356677778888888888888888888776 444 68899999999


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCChhHHHHHH
Q 006580          525 SAIYGDVKLTENVAERMMDLQLPSPLPYSLLT  556 (640)
Q Consensus       525 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  556 (640)
                      +...|++++|...++++++++|.+...+...+
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  120 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAEGNGGSDAMKRG  120 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            99999999999999999999998887665544

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.41  E-value=2.1e-06  Score=72.98  Aligned_cols=66  Identities=9%  Similarity=0.097  Sum_probs=58.9

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          514 GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       514 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +...|..+..++...|++++|+..++++++++|.++..|..++.+|...|++++|...+++..+..
T Consensus        62 ~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           62 NIPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            346788888899999999999999999999999999999999999999999999999999888754

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.41  E-value=5.2e-06  Score=73.51  Aligned_cols=152  Identities=11%  Similarity=0.028  Sum_probs=102.0

Q ss_pred             hcCChHHHHH---HHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHH----CCCCCC-HHHHHHHHHHHhccCCHH
Q 006580          393 KTGSIDSSTE---IFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLE----EGLPPD-RITLAAVLLACNYGGFVD  464 (640)
Q Consensus       393 ~~g~~~~A~~---~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~-~~~~~~ll~~~~~~~~~~  464 (640)
                      ..|++++|.+   .+..-.......+..+...+...|++++|+..+++...    .+..|. ..++..+...+...|+++
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            4567777777   54443333456677777788888888888888877765    122222 245667777788888888


Q ss_pred             HHHHHHHHhHHhhCCCC-C----hhHHHHHHHHHHhcCChHHHHHHHHhCC----CCCC----HHHHHHHHHHHHHcCCh
Q 006580          465 KGMLVFSAMKEEYGVMP-G----EEHYACIIDLLCQAGQLGKAIDITSTMP----FQPG----CSIWESILRASAIYGDV  531 (640)
Q Consensus       465 ~A~~~~~~~~~~~~~~p-~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~~~~  531 (640)
                      +|...+++..+...-.+ +    ...+..+...+...|++++|...+++..    ..++    ..++..+...+...|++
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            88888887665422122 2    3356677788888888888888887764    1122    23457778888889999


Q ss_pred             HHHHHHHHHHHhc
Q 006580          532 KLTENVAERMMDL  544 (640)
Q Consensus       532 ~~a~~~~~~~~~~  544 (640)
                      ++|.+.+++++++
T Consensus       164 ~~A~~~~~~al~~  176 (203)
T 3gw4_A          164 LEAQQHWLRARDI  176 (203)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999888776

>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=98.40  E-value=6.6e-06  Score=70.00  Aligned_cols=129  Identities=10%  Similarity=-0.046  Sum_probs=94.1

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHH
Q 006580          413 VSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDL  492 (640)
Q Consensus       413 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~  492 (640)
                      ..|..+...+...|++++|...|++..+.. +.+..++..+...+...|++++|+..+++..+.  .+.+...+..+..+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~   90 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHH
Confidence            456667777888888888888888887742 335567777777888888888888888887764  23456677888888


Q ss_pred             HHhcCChHHHHHHHHhCC-CCC-CHHHHHHHH--HHHHHcCChHHHHHHHHHHHhc
Q 006580          493 LCQAGQLGKAIDITSTMP-FQP-GCSIWESIL--RASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       493 ~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                      +...|++++|.+.++++. ..| +...+..+.  ..+...|++++|...+++....
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  146 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSV  146 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHHH
Confidence            888888888888888876 333 555554333  3366778888888888876554

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.39  E-value=1.8e-06  Score=78.99  Aligned_cols=137  Identities=7%  Similarity=-0.109  Sum_probs=103.3

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC--hhHHHHHHHH
Q 006580          415 WNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG--EEHYACIIDL  492 (640)
Q Consensus       415 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~  492 (640)
                      +-.+...+...|++++|.++|+.+...  .|+......+...+.+.+++++|+..|+..... . .|.  ...+..+..+
T Consensus       105 ~LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~-d~~~~~~a~~~LG~a  180 (282)
T 4f3v_A          105 TMGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P-DKFLAGAAGVAHGVA  180 (282)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C-CcccHHHHHHHHHHH
Confidence            344566778889999999999888764  465545555556788899999999999855331 1 111  2367778889


Q ss_pred             HHhcCChHHHHHHHHhCC---CCCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHH
Q 006580          493 LCQAGQLGKAIDITSTMP---FQPG--CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLT  556 (640)
Q Consensus       493 ~~~~g~~~~A~~~~~~~~---~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  556 (640)
                      +.+.|++++|++.|++..   ..|.  ...+.....++.+.|+.++|..+|+++...+|. ...+..|.
T Consensus       181 l~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~  248 (282)
T 4f3v_A          181 AANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALK  248 (282)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHh
Confidence            999999999999999874   2143  346778888899999999999999999999998 77766664

>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=98.39  E-value=1.9e-06  Score=71.02  Aligned_cols=91  Identities=11%  Similarity=-0.069  Sum_probs=71.4

Q ss_pred             HHHHHHhcCChHHHHHHHHhCC-CCCC-------------HHHHHHHHHHHHHcCChHHHHHHHHHHHhc-------CCC
Q 006580          489 IIDLLCQAGQLGKAIDITSTMP-FQPG-------------CSIWESILRASAIYGDVKLTENVAERMMDL-------QLP  547 (640)
Q Consensus       489 l~~~~~~~g~~~~A~~~~~~~~-~~~~-------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~p~  547 (640)
                      ....+.+.|++++|++.|++.. ..|+             ...|..+..++...|++++|+..+++++++       +|+
T Consensus        17 ~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd   96 (159)
T 2hr2_A           17 DAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQD   96 (159)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTST
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCc
Confidence            3444445555555555555443 2222             338899999999999999999999999999       999


Q ss_pred             ChhHH----HHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          548 SPLPY----SLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       548 ~~~~~----~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +...|    ...+.++...|++++|+..|++..+..
T Consensus        97 ~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~  132 (159)
T 2hr2_A           97 EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMI  132 (159)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            99999    999999999999999999999998753

>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=98.36  E-value=3.8e-06  Score=68.89  Aligned_cols=113  Identities=10%  Similarity=-0.122  Sum_probs=81.9

Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHH
Q 006580          445 PDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESIL  522 (640)
Q Consensus       445 p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~  522 (640)
                      .+...+..+...+...|++++|...|+.....  .+.+...+..+..++...|++++|...+++.. ..| +...|..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            34556666777777777777777777777653  23345677777777788888888888777765 334 677888888


Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCCC-----ChhHHHHHHHHH
Q 006580          523 RASAIYGDVKLTENVAERMMDLQLP-----SPLPYSLLTQAY  559 (640)
Q Consensus       523 ~~~~~~~~~~~a~~~~~~~~~~~p~-----~~~~~~~l~~~~  559 (640)
                      ..+...|++++|...++++++..|.     +......+..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~  126 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAK  126 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999988776     455555554443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.33  E-value=4.8e-06  Score=67.44  Aligned_cols=91  Identities=9%  Similarity=-0.018  Sum_probs=64.9

Q ss_pred             HHHHHHhcCChHHHHHHHHhCC-CCC-CH---HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC---hhHHHHHHHHHH
Q 006580          489 IIDLLCQAGQLGKAIDITSTMP-FQP-GC---SIWESILRASAIYGDVKLTENVAERMMDLQLPS---PLPYSLLTQAYA  560 (640)
Q Consensus       489 l~~~~~~~g~~~~A~~~~~~~~-~~~-~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~  560 (640)
                      +...+...|++++|.+.++++. ..| +.   ..+..+...+...|++++|...++++++..|.+   +..+..++.++.
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            4455566667777776666654 223 22   466677777777888888888888888888877   666778888888


Q ss_pred             hcCChHHHHHHHHHHHhCC
Q 006580          561 MRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       561 ~~g~~~~a~~~~~~m~~~~  579 (640)
                      ..|++++|...++++.+..
T Consensus        88 ~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           88 GEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HTTCHHHHHHHHHHHHHHS
T ss_pred             HcCCHHHHHHHHHHHHHHC
Confidence            8888888888888777654

>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=98.32  E-value=2.7e-06  Score=68.93  Aligned_cols=95  Identities=6%  Similarity=0.042  Sum_probs=65.6

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-------hhHHHH
Q 006580          484 EHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPS-------PLPYSL  554 (640)
Q Consensus       484 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-------~~~~~~  554 (640)
                      ..+..+...+...|++++|...+++..  .+.+...+..+...+...|++++|...++++++..|.+       +.++..
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            345555666666666666666666654  33356667777777777777777777777777776644       667777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhC
Q 006580          555 LTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       555 l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      ++.+|...|++++|.+.+++..+.
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHh
Confidence            777777777777777777777664

>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=98.32  E-value=1.3e-06  Score=77.32  Aligned_cols=96  Identities=10%  Similarity=-0.087  Sum_probs=79.9

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-C----------------HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 006580          484 EHYACIIDLLCQAGQLGKAIDITSTMP-FQP-G----------------CSIWESILRASAIYGDVKLTENVAERMMDLQ  545 (640)
Q Consensus       484 ~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  545 (640)
                      ..+..+...+.+.|++++|++.|++.. ..| +                ...|..+...+...|++++|+..++++++.+
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~  118 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID  118 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            345556666777777777777777654 222 2                2688889999999999999999999999999


Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          546 LPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       546 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      |.++..+..++.+|...|++++|...+++..+..
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~  152 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  152 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC
Confidence            9999999999999999999999999999988754

>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=98.31  E-value=6.2e-06  Score=83.37  Aligned_cols=145  Identities=6%  Similarity=-0.045  Sum_probs=98.6

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHH
Q 006580          412 LVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIID  491 (640)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  491 (640)
                      ...|..+...+.+.|++++|+..|++..+.  .|+...+           .-+...+ ...        .....|..+..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~-----------~~~~~~~-~~~--------~~~~~~~nla~  325 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSW--LEMEYGL-----------SEKESKA-SES--------FLLAAFLNLAM  325 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTCCSC-----------CHHHHHH-HHH--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccC-----------ChHHHHH-HHH--------HHHHHHHHHHH
Confidence            345566666666677777777777666652  2221000           0000000 000        01356777888


Q ss_pred             HHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHH
Q 006580          492 LLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIV  569 (640)
Q Consensus       492 ~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  569 (640)
                      +|.+.|++++|+..++++. ..| +...|..+..+|...|++++|...|+++++++|.+..++..++.++.+.|+++++.
T Consensus       326 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          326 CYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            8889999999999888876 344 78899999999999999999999999999999999999999999999999999887


Q ss_pred             H-HHHHHHhC
Q 006580          570 R-VKKVMRKN  578 (640)
Q Consensus       570 ~-~~~~m~~~  578 (640)
                      + .++.|..+
T Consensus       406 ~~~~~~~f~k  415 (457)
T 1kt0_A          406 RRIYANMFKK  415 (457)
T ss_dssp             HHHHHHC---
T ss_pred             HHHHHHHHhh
Confidence            5 55655443

>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=98.30  E-value=8.3e-05  Score=70.51  Aligned_cols=183  Identities=12%  Similarity=0.124  Sum_probs=107.7

Q ss_pred             hcC-ChHHHHHHHHhCCC---CChhHHHHHHHHHHhC-C-ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHH--
Q 006580          393 KTG-SIDSSTEIFVKLDK---RDLVSWNTIMMGLTQN-G-RAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVD--  464 (640)
Q Consensus       393 ~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~-g-~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~--  464 (640)
                      ..| .+++++..++.+..   .+..+|+.-...+... + ++++++++++++.+.. +-|..+++.-...+.+.|.++  
T Consensus       100 ~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~  178 (349)
T 3q7a_A          100 SLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRI  178 (349)
T ss_dssp             HTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCC
T ss_pred             HhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccccc
Confidence            344 36666666666552   2444555544444444 4 6677777777776642 234445544443333333333  


Q ss_pred             ------HHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCC-------hHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcC
Q 006580          465 ------KGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQ-------LGKAIDITSTMP-FQP-GCSIWESILRASAIYG  529 (640)
Q Consensus       465 ------~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~-------~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~  529 (640)
                            ++++.++++.+. . +-|...|+....++.+.++       ++++++.++++. ..| |...|+.+-..+.+.|
T Consensus       179 ~~~~~~eELe~~~k~I~~-d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~  256 (349)
T 3q7a_A          179 SEAQWGSELDWCNEMLRV-D-GRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFS  256 (349)
T ss_dssp             CHHHHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             chhhHHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcC
Confidence                  677777777664 2 3355566666666666655       567777776665 344 6777777776666655


Q ss_pred             Ch--------------------HHHHHHHHHHHhcC------CCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          530 DV--------------------KLTENVAERMMDLQ------LPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       530 ~~--------------------~~a~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      +.                    ....+....+....      +.++.+...|+++|...|+.++|.++++.+.++
T Consensus       257 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          257 LPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             CCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             CCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            43                    23333333333322      577888899999999999999999999998643

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.29  E-value=7.1e-07  Score=71.09  Aligned_cols=84  Identities=11%  Similarity=-0.006  Sum_probs=61.6

Q ss_pred             cCChHHHHHHHHhCC-C---CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHH
Q 006580          496 AGQLGKAIDITSTMP-F---QP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVR  570 (640)
Q Consensus       496 ~g~~~~A~~~~~~~~-~---~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  570 (640)
                      .|++++|+..|++.. .   .| +...+..+...+...|++++|+..++++++.+|.++..+..++.++...|++++|..
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            466666777776655 3   24 355677788888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHhCC
Q 006580          571 VKKVMRKNG  579 (640)
Q Consensus       571 ~~~~m~~~~  579 (640)
                      .+++..+..
T Consensus        83 ~~~~al~~~   91 (117)
T 3k9i_A           83 LLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhC
Confidence            888777643

>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=98.29  E-value=1.7e-06  Score=87.81  Aligned_cols=117  Identities=7%  Similarity=-0.051  Sum_probs=91.3

Q ss_pred             HHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChH
Q 006580          455 LACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVK  532 (640)
Q Consensus       455 ~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~  532 (640)
                      ..+.+.|++++|++.+++..+.  .+.+...|..+..+|.+.|++++|++.++++. ..| +...|..+..++...|+++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence            3455677888888888877764  23346677788888888888888888888776 455 6778899999999999999


Q ss_pred             HHHHHHHHHHhcCCCChhHHHHHHHH--HHhcCChHHHHHHHH
Q 006580          533 LTENVAERMMDLQLPSPLPYSLLTQA--YAMRGRWEAIVRVKK  573 (640)
Q Consensus       533 ~a~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~a~~~~~  573 (640)
                      +|++.++++++.+|.+...+..++.+  +.+.|++++|++.++
T Consensus        92 eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999999999988888888887  888899999999887

>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=98.27  E-value=7.2e-06  Score=76.90  Aligned_cols=113  Identities=7%  Similarity=-0.134  Sum_probs=87.0

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHH
Q 006580          446 DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILR  523 (640)
Q Consensus       446 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~  523 (640)
                      +...+..+...+...|++++|+..|+...+.  .+.+...|..+..+|.+.|++++|++.++++. ..| +...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            4456777778888889999999999888764  23367778888888889999999999888876 455 6778888888


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 006580          524 ASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       524 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      ++...|++++|...++++++++|.++..+...++...
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  117 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSAL  117 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHH
Confidence            8889999999999999998888766544443433333

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.26  E-value=2.4e-05  Score=78.71  Aligned_cols=189  Identities=6%  Similarity=-0.096  Sum_probs=135.0

Q ss_pred             HHHHhcCChHHHHHHHHhCCC--C---C---------------hhHHHHHHHHHHhCCChHHHHHHHHHHHHC-CCCCCH
Q 006580          389 EMYAKTGSIDSSTEIFVKLDK--R---D---------------LVSWNTIMMGLTQNGRAAETLDVFEELLEE-GLPPDR  447 (640)
Q Consensus       389 ~~~~~~g~~~~A~~~~~~~~~--~---~---------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~  447 (640)
                      ..+.+.|++++|.+.|..+.+  +   +               ..++..+...|...|++++|.+.+.++... +..++.
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            445677888888888877651  1   0               124677888999999999999999887762 111222


Q ss_pred             H----HHHHHHHHHhccCCHHHHHHHHHHhHHhh---CCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-------CC
Q 006580          448 I----TLAAVLLACNYGGFVDKGMLVFSAMKEEY---GVMP-GEEHYACIIDLLCQAGQLGKAIDITSTMP-------FQ  512 (640)
Q Consensus       448 ~----~~~~ll~~~~~~~~~~~A~~~~~~~~~~~---~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~  512 (640)
                      .    ..+.+-..+...|+++.|..+++......   +..+ ...++..+...|...|++++|..+++++.       .+
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence            1    22333334556788999999888765421   2222 24577888999999999999999988764       12


Q ss_pred             C-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC---CCC----hhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          513 P-GCSIWESILRASAIYGDVKLTENVAERMMDLQ---LPS----PLPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       513 ~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---p~~----~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      + ...++..++..|...|++++|..++++++...   +.+    ...+..++..+...|++++|...+....+
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            2 25578888999999999999999999998762   222    24577788888999999999988877654

>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=98.25  E-value=9e-06  Score=78.45  Aligned_cols=95  Identities=13%  Similarity=0.036  Sum_probs=57.5

Q ss_pred             chHHHHHHHHHHHhcCChHHHHHHHHhCC--CCC----------------hhHHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 006580          380 NAVVASSLMEMYAKTGSIDSSTEIFVKLD--KRD----------------LVSWNTIMMGLTQNGRAAETLDVFEELLEE  441 (640)
Q Consensus       380 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~----------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  441 (640)
                      +...+..+...|.+.|++++|...|++..  .|+                ...|..+..+|.+.|++++|+..+++.++.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            45677888999999999999999999876  232                245555555555555555555555555553


Q ss_pred             CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 006580          442 GLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKE  475 (640)
Q Consensus       442 g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~  475 (640)
                      . +.+...+..+..++...|++++|+..|++..+
T Consensus       226 ~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  258 (336)
T 1p5q_A          226 D-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  258 (336)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            1 22333444444455555555555555554443

>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=98.22  E-value=7.6e-06  Score=66.22  Aligned_cols=108  Identities=9%  Similarity=-0.019  Sum_probs=60.7

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-C----CCC----HHHHHHH
Q 006580          451 AAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-F----QPG----CSIWESI  521 (640)
Q Consensus       451 ~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~----~~~----~~~~~~l  521 (640)
                      ..+...+...|++++|...++...+.  .+.+...+..+...+...|++++|...++++. .    .++    ..++..+
T Consensus         8 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            8 KELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            33344444444444444444444432  12233444444455555555555555554443 1    122    5567777


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHh
Q 006580          522 LRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAM  561 (640)
Q Consensus       522 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  561 (640)
                      ...+...|++++|...++++++..| ++.....+..+...
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~  124 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAEKI  124 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHHHH
Confidence            7788888888888888888888877 56666666555443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.22  E-value=1.4e-05  Score=67.40  Aligned_cols=93  Identities=10%  Similarity=0.043  Sum_probs=61.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC----CCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC------CChh
Q 006580          485 HYACIIDLLCQAGQLGKAIDITSTMP----FQPG----CSIWESILRASAIYGDVKLTENVAERMMDLQL------PSPL  550 (640)
Q Consensus       485 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p------~~~~  550 (640)
                      .+..+...+...|++++|.+.+++..    ..++    ..++..+...+...|++++|...++++++..+      ....
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            34444445555555555555554432    0111    34566777778888888888888888876622      2245


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          551 PYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       551 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      .+..++.++...|++++|.+.+++..+
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            678889999999999999999988765

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.21  E-value=7.2e-06  Score=64.22  Aligned_cols=99  Identities=10%  Similarity=-0.023  Sum_probs=64.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC---CHHHHHHHHHH
Q 006580          449 TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP---GCSIWESILRA  524 (640)
Q Consensus       449 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~---~~~~~~~l~~~  524 (640)
                      .+..+...+...|++++|...+++..+.  .+.+...+..+...+...|++++|.+.+++.. ..|   +...+..+...
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            3444555556666666666666665543  12344556666666666677777776666654 233   46677777778


Q ss_pred             HHHc-CChHHHHHHHHHHHhcCCCCh
Q 006580          525 SAIY-GDVKLTENVAERMMDLQLPSP  549 (640)
Q Consensus       525 ~~~~-~~~~~a~~~~~~~~~~~p~~~  549 (640)
                      +... |++++|.+.++++++..|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            8888 888888888888888877653

>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=98.21  E-value=0.00021  Score=67.43  Aligned_cols=180  Identities=8%  Similarity=0.014  Sum_probs=130.8

Q ss_pred             hHHHHHHHHhCC---CCChhHHHHHHHHHHhCC--ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC-HHHHHHHH
Q 006580          397 IDSSTEIFVKLD---KRDLVSWNTIMMGLTQNG--RAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGF-VDKGMLVF  470 (640)
Q Consensus       397 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~-~~~A~~~~  470 (640)
                      ++++...++.+.   ..+..+|+.-.-.+...|  .+++++++++++.+.. +-|..+++.-...+...|. ++++++.+
T Consensus        90 l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            456666676665   236667777666666777  4789999999999853 4456677766666667777 68899999


Q ss_pred             HHhHHhhCCCCChhHHHHHHHHHHhc--------------CChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHc------
Q 006580          471 SAMKEEYGVMPGEEHYACIIDLLCQA--------------GQLGKAIDITSTMP-FQP-GCSIWESILRASAIY------  528 (640)
Q Consensus       471 ~~~~~~~~~~p~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~------  528 (640)
                      +.+.+. . +-|...|+....++.+.              +.++++++.+.... ..| |...|+.+-..+.+.      
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-N-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCEL  246 (331)
T ss_dssp             HHHHHH-C-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGC
T ss_pred             HHHHHH-C-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCcccc
Confidence            888875 2 44566676666665554              45788888888876 445 888898777666655      


Q ss_pred             -----CChHHHHHHHHHHHhcCCCChhHHHHHHHHH---HhcCChHHHHHHHHHHHhCC
Q 006580          529 -----GDVKLTENVAERMMDLQLPSPLPYSLLTQAY---AMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       529 -----~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~---~~~g~~~~a~~~~~~m~~~~  579 (640)
                           +.++++++.++++++..|++.-++..++...   ...|..+++..++.++.+.+
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                 4588999999999999999977666555432   24678889999999998755

>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=98.20  E-value=0.00067  Score=64.32  Aligned_cols=193  Identities=9%  Similarity=-0.026  Sum_probs=126.8

Q ss_pred             hHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhc-C-ChHHHHHHHHhCCCC---ChhHHHHHHHHHHhCCChH-------
Q 006580          362 VEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKT-G-SIDSSTEIFVKLDKR---DLVSWNTIMMGLTQNGRAA-------  429 (640)
Q Consensus       362 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~-------  429 (640)
                      ++++..+++.+.... +-+..+++--..++.+. + ++++++++++.+.+.   |...|+--.-.+.+.|.++       
T Consensus       105 l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~  183 (349)
T 3q7a_A          105 LEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQW  183 (349)
T ss_dssp             HHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhH
Confidence            444444444444433 33344444444444444 5 788999999988854   5556665544555555555       


Q ss_pred             -HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC-------HHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCCh--
Q 006580          430 -ETLDVFEELLEEGLPPDRITLAAVLLACNYGGF-------VDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQL--  499 (640)
Q Consensus       430 -~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~-------~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~--  499 (640)
                       ++++.++++.+.. +-|...++.....+.+.+.       ++++++.+++....  .+-|...|+.+-..+.+.|+.  
T Consensus       184 ~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~--~P~n~SaW~Ylr~Ll~~~~~~~~  260 (349)
T 3q7a_A          184 GSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHL--IPHNVSAWNYLRGFLKHFSLPLV  260 (349)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCCcc
Confidence             8999999999863 4466678777777777775       68889988888763  344566777777777777654  


Q ss_pred             ------------------HHHHHHHHhCC-C-------CCCHHHHHHHHHHHHHcCChHHHHHHHHHHH-hcCCCChhHH
Q 006580          500 ------------------GKAIDITSTMP-F-------QPGCSIWESILRASAIYGDVKLTENVAERMM-DLQLPSPLPY  552 (640)
Q Consensus       500 ------------------~~A~~~~~~~~-~-------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~p~~~~~~  552 (640)
                                        .+..++..++. .       .+++..+..|+..|...|+.++|.++++.+. +.+|-....|
T Consensus       261 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw  340 (349)
T 3q7a_A          261 PILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYW  340 (349)
T ss_dssp             GGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHH
T ss_pred             cccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHH
Confidence                              34445555544 2       3578889999999999999999999999997 5588766666


Q ss_pred             HHHHHH
Q 006580          553 SLLTQA  558 (640)
Q Consensus       553 ~~l~~~  558 (640)
                      .-.+..
T Consensus       341 ~~~~~~  346 (349)
T 3q7a_A          341 EFRRRE  346 (349)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            655443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.20  E-value=8.1e-06  Score=65.22  Aligned_cols=96  Identities=11%  Similarity=0.005  Sum_probs=64.8

Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcC
Q 006580          452 AVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYG  529 (640)
Q Consensus       452 ~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~  529 (640)
                      .+...+.+.|++++|+..++...+.  -+.+...|..+..++.+.|++++|+..+++.. ..| +...+..+...+...|
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~g   99 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   99 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            3445566677777777777776653  23355666677777777777777777777765 444 6777888888888888


Q ss_pred             ChHHHHHHHHHHHhcCCCCh
Q 006580          530 DVKLTENVAERMMDLQLPSP  549 (640)
Q Consensus       530 ~~~~a~~~~~~~~~~~p~~~  549 (640)
                      ++++|...++++++.+|.+.
T Consensus       100 ~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A          100 NANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHC------
T ss_pred             CHHHHHHHHHHHHHhCcCCC
Confidence            88888888888888888653

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.19  E-value=4.6e-06  Score=80.59  Aligned_cols=149  Identities=11%  Similarity=-0.026  Sum_probs=84.9

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHH
Q 006580          412 LVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIID  491 (640)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  491 (640)
                      ...+..+...+.+.|++++|+..|++....  .|+...       +...++.+++...+.           ...|..+..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHH
Confidence            445677777888889999999999988873  455442       233344444433221           136778888


Q ss_pred             HHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHH-HhcCChHHH
Q 006580          492 LLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAY-AMRGRWEAI  568 (640)
Q Consensus       492 ~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~~a  568 (640)
                      +|.+.|++++|+..+++.. ..| +...|..+..+|...|++++|...++++++++|.++.++..|..+. ...+..+++
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999998876 444 7889999999999999999999999999999999998988888774 455777888


Q ss_pred             HHHHHHHHhCCC
Q 006580          569 VRVKKVMRKNGI  580 (640)
Q Consensus       569 ~~~~~~m~~~~~  580 (640)
                      ..++++|.....
T Consensus       319 ~~~~~~~l~~~p  330 (338)
T 2if4_A          319 KEMYKGIFKGKD  330 (338)
T ss_dssp             ------------
T ss_pred             HHHHHHhhCCCC
Confidence            888888876543

>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=98.19  E-value=1.1e-05  Score=78.91  Aligned_cols=137  Identities=6%  Similarity=-0.111  Sum_probs=99.8

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHH
Q 006580          413 VSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDL  492 (640)
Q Consensus       413 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~  492 (640)
                      ..|..+...+.+.|++++|++.|++.++.  .|...          .....+++..         ..+.+...|..+..+
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~--~~~~~----------~~~~~~~~~~---------~~~~~~~~~~nla~~  282 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRY--VEGSR----------AAAEDADGAK---------LQPVALSCVLNIGAC  282 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHHH----------HHSCHHHHGG---------GHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hhcCc----------cccChHHHHH---------HHHHHHHHHHHHHHH
Confidence            34556666667777777777777666651  11100          0000111000         001234578888889


Q ss_pred             HHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHH
Q 006580          493 LCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVR  570 (640)
Q Consensus       493 ~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  570 (640)
                      |.+.|++++|++.++++. ..| +...|..+..++...|++++|...++++++++|.+...+..+..++...++.+++.+
T Consensus       283 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          283 KLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998876 555 688999999999999999999999999999999999999999999999998888765

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.18  E-value=3.5e-05  Score=62.20  Aligned_cols=103  Identities=11%  Similarity=-0.023  Sum_probs=68.1

Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhhCCCCCh---hHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-C---HHHHHHHHHH
Q 006580          453 VLLACNYGGFVDKGMLVFSAMKEEYGVMPGE---EHYACIIDLLCQAGQLGKAIDITSTMP-FQP-G---CSIWESILRA  524 (640)
Q Consensus       453 ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~---~~~~~~l~~~  524 (640)
                      +...+...|++++|...|+.+.+..  +.+.   ..+..+..++.+.|++++|...++++. ..| +   ...+..+...
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            3344555666666666666665531  1112   355566666677777777777776654 233 3   5667778888


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCChhHHHHHHH
Q 006580          525 SAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQ  557 (640)
Q Consensus       525 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  557 (640)
                      +...|++++|...++++++..|+++........
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~  118 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQYPGSDAARVAQER  118 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTSHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCCChHHHHHHHH
Confidence            888899999999999999998887766554443

>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=98.16  E-value=1.8e-05  Score=80.28  Aligned_cols=114  Identities=11%  Similarity=-0.043  Sum_probs=51.8

Q ss_pred             HHhCCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChH
Q 006580          422 LTQNGRAAETLDVFEELLEEGLPP-DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLG  500 (640)
Q Consensus       422 ~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  500 (640)
                      +.+.|++++|++.+++..+.  .| +..++..+..++.+.|++++|++.+++..+.  -+.+...+..+..+|.+.|+++
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHH
Confidence            33445555555555555542  22 2344455555555555555555555555432  1223444555555555555555


Q ss_pred             HHHHHHHhCC-CCC-CHHHHHHHHHH--HHHcCChHHHHHHHH
Q 006580          501 KAIDITSTMP-FQP-GCSIWESILRA--SAIYGDVKLTENVAE  539 (640)
Q Consensus       501 ~A~~~~~~~~-~~~-~~~~~~~l~~~--~~~~~~~~~a~~~~~  539 (640)
                      +|.+.++++. ..| +...+..+..+  +...|++++|++.++
T Consensus        92 eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            5555555543 222 22333333333  445555555555555

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.13  E-value=1e-05  Score=68.68  Aligned_cols=78  Identities=10%  Similarity=-0.006  Sum_probs=64.2

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCh-hHHHHHHHHH
Q 006580          483 EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSP-LPYSLLTQAY  559 (640)
Q Consensus       483 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~  559 (640)
                      ...|..+..+|.+.|++++|+..++++. ..| +...|..+..++...|++++|...++++++++|.++ .....+..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~~  142 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIVT  142 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            4567788888999999999999988876 444 788999999999999999999999999999999887 5455554444


Q ss_pred             H
Q 006580          560 A  560 (640)
Q Consensus       560 ~  560 (640)
                      .
T Consensus       143 ~  143 (162)
T 3rkv_A          143 E  143 (162)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.13  E-value=2.9e-06  Score=67.45  Aligned_cols=92  Identities=10%  Similarity=-0.017  Sum_probs=63.8

Q ss_pred             cCCHHHHHHHHHHhHHhhC--CCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHH
Q 006580          460 GGFVDKGMLVFSAMKEEYG--VMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTE  535 (640)
Q Consensus       460 ~~~~~~A~~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~  535 (640)
                      .|++++|+..|++..+. +  -+.+...+..+..+|.+.|++++|++.++++. ..| +...+..+..++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            45666677777666542 1  12234556667777777777777777777765 344 6778888888889999999999


Q ss_pred             HHHHHHHhcCCCChhHH
Q 006580          536 NVAERMMDLQLPSPLPY  552 (640)
Q Consensus       536 ~~~~~~~~~~p~~~~~~  552 (640)
                      ..++++++..|.++...
T Consensus        82 ~~~~~al~~~p~~~~~~   98 (117)
T 3k9i_A           82 ELLLKIIAETSDDETIQ   98 (117)
T ss_dssp             HHHHHHHHHHCCCHHHH
T ss_pred             HHHHHHHHhCCCcHHHH
Confidence            99999999988876554

>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=98.11  E-value=0.00014  Score=75.06  Aligned_cols=171  Identities=9%  Similarity=-0.052  Sum_probs=137.9

Q ss_pred             cCChHHHHHHHHhCCC--C-ChhHHHHHHHHHHhCCC----------hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 006580          394 TGSIDSSTEIFVKLDK--R-DLVSWNTIMMGLTQNGR----------AAETLDVFEELLEEGLPPDRITLAAVLLACNYG  460 (640)
Q Consensus       394 ~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  460 (640)
                      ....++|.+.++.+..  | +...|+.--..+...|+          ++++++.++++.+.. +-+..+|..-...+.+.
T Consensus        42 ~~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           42 GELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             TCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             CCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            3345677888888873  3 45667766666666666          899999999999852 33556888878888888


Q ss_pred             C--CHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcC-ChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHc-------
Q 006580          461 G--FVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAG-QLGKAIDITSTMP-FQP-GCSIWESILRASAIY-------  528 (640)
Q Consensus       461 ~--~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~-------  528 (640)
                      +  +++++++.++++.+.  -+-+...|+.-..++.+.| .++++++.++++. ..| |...|+.....+...       
T Consensus       121 ~~~~~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          121 PEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccc
Confidence            8  779999999999985  2446778888888888889 8999999999987 555 888999888887763       


Q ss_pred             -------CChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHH
Q 006580          529 -------GDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEA  567 (640)
Q Consensus       529 -------~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  567 (640)
                             +.++++.+.+++++..+|.+..+|..+.+++.+.|+.++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                   557999999999999999999999999999999888554

>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=98.10  E-value=4.7e-05  Score=61.34  Aligned_cols=60  Identities=5%  Similarity=-0.095  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD-RITLAAVLLACNYGGFVDKGMLVFSAMKE  475 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~A~~~~~~~~~  475 (640)
                      .+..+...+.+.|++++|++.|++.++.  .|+ ...|..+..+|...|++++|++.+++..+
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~   70 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVE   70 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4455566666666666666666666663  333 34555666666666666666666665543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.07  E-value=3.5e-05  Score=77.58  Aligned_cols=123  Identities=8%  Similarity=0.011  Sum_probs=92.1

Q ss_pred             HhccCCHHHHHHHHHHhHHhhC--CCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC------CC---CC-HHHHHH
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYG--VMPG----EEHYACIIDLLCQAGQLGKAIDITSTMP------FQ---PG-CSIWES  520 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~--~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~------~~---~~-~~~~~~  520 (640)
                      +...|++++|+.++++..+...  +.|+    ..+++.|..+|...|++++|+.++++..      ..   |+ ..+++.
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            4467777777777766654321  1121    3467777788888888888887777654      23   32 447889


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhc-----CCCChhH---HHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          521 ILRASAIYGDVKLTENVAERMMDL-----QLPSPLP---YSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       521 l~~~~~~~~~~~~a~~~~~~~~~~-----~p~~~~~---~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      |...|..+|++++|+.++++++++     +|+++.+   ...+..++...|++++|+.+++++++..
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            999999999999999999999876     6766544   5578888999999999999999998754

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.05  E-value=1.3e-05  Score=77.30  Aligned_cols=150  Identities=8%  Similarity=-0.063  Sum_probs=81.1

Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHhCCC--CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 006580          381 AVVASSLMEMYAKTGSIDSSTEIFVKLDK--RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACN  458 (640)
Q Consensus       381 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  458 (640)
                      ...+..+...+.+.|++++|...|.+...  |+...       +...|+.+++...+.          ...|..+..++.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~~~  241 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAACLI  241 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHHHH
Confidence            34566778888899999999999998763  32221       223334444433221          136777888888


Q ss_pred             ccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHH-HHcCChHHHH
Q 006580          459 YGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRAS-AIYGDVKLTE  535 (640)
Q Consensus       459 ~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~-~~~~~~~~a~  535 (640)
                      +.|++++|+..+++..+.  .+.+...|..+..+|...|++++|.+.|+++. ..| +...+..+.... ...+..+.+.
T Consensus       242 ~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~  319 (338)
T 2if4_A          242 KLKRYDEAIGHCNIVLTE--EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQK  319 (338)
T ss_dssp             TTTCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999988864  23457788889999999999999999999987 556 455566665553 3456788889


Q ss_pred             HHHHHHHhcCCCCh
Q 006580          536 NVAERMMDLQLPSP  549 (640)
Q Consensus       536 ~~~~~~~~~~p~~~  549 (640)
                      ..+++++...|.++
T Consensus       320 ~~~~~~l~~~p~~~  333 (338)
T 2if4_A          320 EMYKGIFKGKDEGG  333 (338)
T ss_dssp             --------------
T ss_pred             HHHHHhhCCCCCCC
Confidence            99999999888654

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.04  E-value=1.2e-05  Score=63.04  Aligned_cols=92  Identities=13%  Similarity=-0.002  Sum_probs=74.7

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC------hhHHH
Q 006580          482 GEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPS------PLPYS  553 (640)
Q Consensus       482 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~  553 (640)
                      +...+..+...+.+.|++++|++.+++.. ..| +...|..+...+...|++++|+..++++++.+|.+      ...+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            44567777788888888888888888876 344 77888999999999999999999999999999988      77788


Q ss_pred             HHHHHHHhcCChHHHHHHHH
Q 006580          554 LLTQAYAMRGRWEAIVRVKK  573 (640)
Q Consensus       554 ~l~~~~~~~g~~~~a~~~~~  573 (640)
                      .++.++...|++++|...++
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHhHhhhHhHHH
Confidence            88888888887776655443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.03  E-value=2.9e-05  Score=59.41  Aligned_cols=65  Identities=8%  Similarity=-0.045  Sum_probs=61.6

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          514 GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       514 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      ++..|..+...+...|++++|+..++++++.+|.++..|..++.+|...|++++|.+.+++..+.
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            67889999999999999999999999999999999999999999999999999999999988764

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.01  E-value=2.4e-05  Score=65.95  Aligned_cols=131  Identities=12%  Similarity=0.021  Sum_probs=77.8

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCC-CCH----HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC----hh
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLP-PDR----ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG----EE  484 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~----~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~----~~  484 (640)
                      ++..+...+...|++++|+..+++..+.... ++.    .++..+...+...|++++|...+++..+...-.++    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            3445555566666666666666655542100 111    24555556666667777777666665543111111    33


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC----CCC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          485 HYACIIDLLCQAGQLGKAIDITSTMP----FQP----GCSIWESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       485 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                      .+..+...+...|++++|.+.+++..    ...    ....+..+...+...|++++|...++++++.
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            45566666777777777777766654    111    1345677778888889999999998888776

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.01  E-value=3.7e-05  Score=57.43  Aligned_cols=81  Identities=16%  Similarity=0.210  Sum_probs=61.6

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 006580          483 EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       483 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      ...+..+...+...|++++|++.+++.. ..| +...+..+...+...|++++|...++++++.+|.++..+..++.++.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~   88 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            3456666677777777777777777765 333 66778888888888888888888888888888888888888888776


Q ss_pred             hcC
Q 006580          561 MRG  563 (640)
Q Consensus       561 ~~g  563 (640)
                      +.|
T Consensus        89 ~~g   91 (91)
T 1na3_A           89 KQG   91 (91)
T ss_dssp             HHC
T ss_pred             hcC
Confidence            654

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.01  E-value=8.8e-05  Score=74.54  Aligned_cols=159  Identities=11%  Similarity=-0.052  Sum_probs=121.0

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCC----------------HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC
Q 006580          419 MMGLTQNGRAAETLDVFEELLEEGLPPD----------------RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG  482 (640)
Q Consensus       419 i~~~~~~g~~~~a~~~~~~m~~~g~~p~----------------~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~  482 (640)
                      ...+.+.|++++|++.|.++.+......                ...+..+...|...|++++|.+++..+....+..++
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            4557788999999999999998532211                124778889999999999999999988765333333


Q ss_pred             hh----HHHHHHHHHHhcCChHHHHHHHHhCC-------CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc------
Q 006580          483 EE----HYACIIDLLCQAGQLGKAIDITSTMP-------FQP-GCSIWESILRASAIYGDVKLTENVAERMMDL------  544 (640)
Q Consensus       483 ~~----~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------  544 (640)
                      ..    ..+.+...+...|++++|.++++...       ..+ -..++..+...+...|++++|..+++++...      
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            22    23334445566789999999887764       222 2567889999999999999999999998866      


Q ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          545 QLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       545 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      .+.....|..++.+|...|++++|..++++...
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            123346788999999999999999999988865

>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=98.00  E-value=4.8e-05  Score=74.24  Aligned_cols=113  Identities=9%  Similarity=-0.001  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCC-CHHHHHHHHHHHH
Q 006580          448 ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQP-GCSIWESILRASA  526 (640)
Q Consensus       448 ~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~l~~~~~  526 (640)
                      ..+..+...+.+.|++++|+..|++..+..   +..          ......+++.+      ..| +..+|..+...+.
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~---~~~----------~~~~~~~~~~~------~~~~~~~~~~nla~~~~  284 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYV---EGS----------RAAAEDADGAK------LQPVALSCVLNIGACKL  284 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---HHH----------HHHSCHHHHGG------GHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHh---hcC----------ccccChHHHHH------HHHHHHHHHHHHHHHHH
Confidence            346666677777888888888887766521   000          00011111111      123 4678899999999


Q ss_pred             HcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          527 IYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       527 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +.|++++|+..++++++.+|.++.+|..++.+|...|++++|...+++..+..
T Consensus       285 ~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~  337 (370)
T 1ihg_A          285 KMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  337 (370)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999999998754

>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=97.99  E-value=0.00055  Score=64.58  Aligned_cols=186  Identities=10%  Similarity=-0.018  Sum_probs=139.3

Q ss_pred             HhcCChH-HHHHHHHhCCCC---ChhHHHHHHHHHHhCCC----------hHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 006580          392 AKTGSID-SSTEIFVKLDKR---DLVSWNTIMMGLTQNGR----------AAETLDVFEELLEEGLPPDRITLAAVLLAC  457 (640)
Q Consensus       392 ~~~g~~~-~A~~~~~~~~~~---~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  457 (640)
                      .+.|.++ +|+..++.+..-   +...|+.--..+...++          +++++.+++.+.... +-+..+++.-...+
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL  118 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLL  118 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            3455544 788888888743   33445543333332222          678999999998852 34556777766666


Q ss_pred             hccC--CHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCC-hHHHHHHHHhCC--CCCCHHHHHHHHHHHHHc----
Q 006580          458 NYGG--FVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQ-LGKAIDITSTMP--FQPGCSIWESILRASAIY----  528 (640)
Q Consensus       458 ~~~~--~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~----  528 (640)
                      .+.+  .+++++.+++.+.+.  -+-|...|+.-..++...|. ++++++.++++.  .+-|...|+.....+...    
T Consensus       119 ~~l~~~~~~~EL~~~~k~l~~--dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l~~~~  196 (331)
T 3dss_A          119 SRLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQP  196 (331)
T ss_dssp             HHCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHHSCCC
T ss_pred             hccCcccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhhcc
Confidence            6666  589999999999975  34567778877778888888 589999998887  444889999888777665    


Q ss_pred             ----------CChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhc-----------CChHHHHHHHHHHHhCCC
Q 006580          529 ----------GDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMR-----------GRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       529 ----------~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~m~~~~~  580 (640)
                                +.++++++.+.+++..+|.|..+|+-+...+.+.           +.++++++.++++.+..+
T Consensus       197 ~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~p  269 (331)
T 3dss_A          197 DSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEP  269 (331)
T ss_dssp             ------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             ccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCc
Confidence                      4588999999999999999999999888787776           568899999999987653

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.98  E-value=2e-05  Score=62.18  Aligned_cols=79  Identities=6%  Similarity=-0.030  Sum_probs=67.2

Q ss_pred             HHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          501 KAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       501 ~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      +|++.+++.. ..| +...+..+...+...|++++|+..++++++.+|.++..|..++.+|...|++++|...+++..+.
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3455555543 344 67889999999999999999999999999999999999999999999999999999999988764


Q ss_pred             C
Q 006580          579 G  579 (640)
Q Consensus       579 ~  579 (640)
                      .
T Consensus        83 ~   83 (115)
T 2kat_A           83 A   83 (115)
T ss_dssp             H
T ss_pred             c
Confidence            3

>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=97.97  E-value=7.5e-05  Score=75.41  Aligned_cols=65  Identities=5%  Similarity=-0.026  Sum_probs=61.8

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          515 CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       515 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ...|..+..++.+.|++++|+..++++++++|.++.+|..++.+|...|++++|+..+++..+..
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~  381 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  381 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            57888999999999999999999999999999999999999999999999999999999998865

>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=97.94  E-value=2e-05  Score=64.86  Aligned_cols=71  Identities=10%  Similarity=0.022  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC-C-------CCC-HHHH----HHHHHHHHHcCChHHHHHHHHHHHhcCCCChhH
Q 006580          485 HYACIIDLLCQAGQLGKAIDITSTMP-F-------QPG-CSIW----ESILRASAIYGDVKLTENVAERMMDLQLPSPLP  551 (640)
Q Consensus       485 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~-------~~~-~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  551 (640)
                      .|..+..++.+.|++++|+..+++.. .       .|+ ...|    .....++...|++++|+..|+++++++|.+...
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~  138 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE  138 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHH
Confidence            55556666666666666666665554 4       774 5578    899999999999999999999999999977665


Q ss_pred             HHHH
Q 006580          552 YSLL  555 (640)
Q Consensus       552 ~~~l  555 (640)
                      +..+
T Consensus       139 ~~~~  142 (159)
T 2hr2_A          139 TPGK  142 (159)
T ss_dssp             CTTH
T ss_pred             HHHH
Confidence            4433

>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=97.92  E-value=1e-05  Score=66.43  Aligned_cols=87  Identities=5%  Similarity=-0.097  Sum_probs=68.8

Q ss_pred             HhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCC----------hHHHHHHHHHHHhcCCCChhHHHHHHHHHHh
Q 006580          494 CQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGD----------VKLTENVAERMMDLQLPSPLPYSLLTQAYAM  561 (640)
Q Consensus       494 ~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  561 (640)
                      .+.+++++|.+.++... ..| +...|..+..++...++          +++|+..|+++++++|.+..+|..++.+|..
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            34455667777666665 344 66677777777766654          5699999999999999999999999999998


Q ss_pred             cC-----------ChHHHHHHHHHHHhCCC
Q 006580          562 RG-----------RWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       562 ~g-----------~~~~a~~~~~~m~~~~~  580 (640)
                      .|           ++++|++.|++..+...
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            75           89999999999988653

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.90  E-value=9.9e-05  Score=55.14  Aligned_cols=70  Identities=7%  Similarity=0.007  Sum_probs=62.5

Q ss_pred             CCCHHHHHHHHHHHHHcCC---hHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 006580          512 QPGCSIWESILRASAIYGD---VKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGIN  581 (640)
Q Consensus       512 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  581 (640)
                      ++++..+..+..++...++   .++|..+++++++.+|.++.....++..+.+.|++++|+..|+++.+....
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            3478888888888865554   799999999999999999999999999999999999999999999987654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.81  E-value=4.5e-05  Score=76.79  Aligned_cols=115  Identities=10%  Similarity=-0.030  Sum_probs=88.1

Q ss_pred             HHHHhcCChHHHHHHHHhCC------CCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhc-----CCCCh---hHH
Q 006580          491 DLLCQAGQLGKAIDITSTMP------FQPG----CSIWESILRASAIYGDVKLTENVAERMMDL-----QLPSP---LPY  552 (640)
Q Consensus       491 ~~~~~~g~~~~A~~~~~~~~------~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~p~~~---~~~  552 (640)
                      ..+...|++++|+.++++..      ..|+    ..+++.|..+|..+|++++|+.+++++++.     +|+++   ..+
T Consensus       317 ~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l  396 (490)
T 3n71_A          317 DKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAV  396 (490)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            34567899999998887764      2332    457899999999999999999999999877     55554   568


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCccCCceeeEEecCEEEEEecCCCCCCChHHHHHHHHHHHHHHH
Q 006580          553 SLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEME  623 (640)
Q Consensus       553 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  623 (640)
                      +.|+.+|..+|++++|+.++++..+--.                  ..-...||...++..++.+...+++
T Consensus       397 ~nLa~~~~~~G~~~eA~~~~~~Al~i~~------------------~~lG~~Hp~~~~~~~~l~~~~~e~~  449 (490)
T 3n71_A          397 MRAGLTNWHAGHIEVGHGMICKAYAILL------------------VTHGPSHPITKDLEAMRMQTEMELR  449 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHH------------------HHTCTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHH------------------HHhCCCChHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999999876321                  1123478888777777666655444

>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=97.81  E-value=0.00023  Score=58.17  Aligned_cols=111  Identities=8%  Similarity=-0.152  Sum_probs=68.7

Q ss_pred             CHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHH
Q 006580          462 FVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAI----YGDVKLTENV  537 (640)
Q Consensus       462 ~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~  537 (640)
                      ++++|+..|++..+. + .|...    |...|...+.+++|.+.|++.....++..+..|...|..    .+|+++|..+
T Consensus        10 d~~~A~~~~~~aa~~-g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~   83 (138)
T 1klx_A           10 DLKKAIQYYVKACEL-N-EMFGC----LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQY   83 (138)
T ss_dssp             HHHHHHHHHHHHHHT-T-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHcC-C-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHH
Confidence            345555555555443 3 11111    444444445555555555554423455566666666665    6677788888


Q ss_pred             HHHHHhcCCCChhHHHHHHHHHHh----cCChHHHHHHHHHHHhCCC
Q 006580          538 AERMMDLQLPSPLPYSLLTQAYAM----RGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       538 ~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~  580 (640)
                      ++++.+.  .++..+..|+.+|..    .+++++|.+++++..+.|.
T Consensus        84 ~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           84 YSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            8887766  456777778888877    7788888888888877764

>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=97.75  E-value=6.2e-05  Score=74.67  Aligned_cols=116  Identities=9%  Similarity=0.031  Sum_probs=87.3

Q ss_pred             HHHHhcCChHHHHHHHHhCC------CCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhc-----CCCCh---hHH
Q 006580          491 DLLCQAGQLGKAIDITSTMP------FQPG----CSIWESILRASAIYGDVKLTENVAERMMDL-----QLPSP---LPY  552 (640)
Q Consensus       491 ~~~~~~g~~~~A~~~~~~~~------~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~p~~~---~~~  552 (640)
                      ..+.+.|++++|++++++..      ..|+    ..+++.|+.+|...|++++|+.+++++++.     +|.++   ..+
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            34556677777777776542      2332    457888999999999999999999999876     44444   568


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCccCCceeeEEecCEEEEEecCCCCCCChHHHHHHHHHHHHHHHH
Q 006580          553 SLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCSWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMED  624 (640)
Q Consensus       553 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  624 (640)
                      +.|+.+|..+|++++|+.++++..+--.                  ..-...||...++...+.+...+|+.
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~i~~------------------~~lG~~Hp~~~~~~~~l~~~~~e~~~  428 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFDIMR------------------VTHGREHSLIEDLILLLEECDANIRA  428 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHH------------------HHTCTTSHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHH------------------HhcCCCChHHHHHHHHHHHHHHHHhc
Confidence            8999999999999999999998876321                  11245789888888888888777763

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.75  E-value=0.00012  Score=56.95  Aligned_cols=66  Identities=11%  Similarity=0.046  Sum_probs=61.9

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          514 GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       514 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +...|..+...+...|++++|...++++++.+|.++..+..++.+|...|++++|++.+++..+..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   68 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT   68 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            456788899999999999999999999999999999999999999999999999999999998765

>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=97.68  E-value=0.0012  Score=68.25  Aligned_cols=151  Identities=6%  Similarity=-0.034  Sum_probs=123.3

Q ss_pred             CCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccCC----------HHHHHHHHHHhHHhhCCCCChhHHHHHHHHH
Q 006580          425 NGRAAETLDVFEELLEEGLPPDRI-TLAAVLLACNYGGF----------VDKGMLVFSAMKEEYGVMPGEEHYACIIDLL  493 (640)
Q Consensus       425 ~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~----------~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~  493 (640)
                      ....++|++.++++..  +.|+.. .|+.--.++...|+          ++++++.++.+.+.  -+-+...|..-..++
T Consensus        42 ~~~~eeal~~~~~~l~--~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l  117 (567)
T 1dce_A           42 GELDESVLELTSQILG--ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLL  117 (567)
T ss_dssp             TCCSHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHH--HCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            3446788999999998  466654 55555555555566          89999999999874  344667788888888


Q ss_pred             HhcC--ChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcC-ChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhc------
Q 006580          494 CQAG--QLGKAIDITSTMP--FQPGCSIWESILRASAIYG-DVKLTENVAERMMDLQLPSPLPYSLLTQAYAMR------  562 (640)
Q Consensus       494 ~~~g--~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~------  562 (640)
                      .+.|  +++++++.++++.  .+.+..+|+.-.......| .++++.+.++++++.+|.|..+|...+.++.+.      
T Consensus       118 ~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          118 SRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             HHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccc
Confidence            9999  7799999999987  4448999999999999999 899999999999999999999999999888774      


Q ss_pred             --------CChHHHHHHHHHHHhCC
Q 006580          563 --------GRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       563 --------g~~~~a~~~~~~m~~~~  579 (640)
                              +.++++.+.+++.....
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~~~  222 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFFTD  222 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHC
T ss_pred             cccccccHHHHHHHHHHHHHHHhhC
Confidence                    56788998888887644

>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=97.62  E-value=6e-05  Score=61.91  Aligned_cols=88  Identities=11%  Similarity=0.001  Sum_probs=57.5

Q ss_pred             CHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCC----------hHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHc-
Q 006580          462 FVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQ----------LGKAIDITSTMP-FQP-GCSIWESILRASAIY-  528 (640)
Q Consensus       462 ~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~-  528 (640)
                      .+++|++.++...+.  -+.+...|..+..++...++          +++|+..|++.. +.| +...|..+..+|... 
T Consensus        17 ~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg   94 (158)
T 1zu2_A           17 LFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFA   94 (158)
T ss_dssp             HHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhc
Confidence            445555555555442  12234445555555554443          357777777766 455 566777888887766 


Q ss_pred             ----------CChHHHHHHHHHHHhcCCCChhH
Q 006580          529 ----------GDVKLTENVAERMMDLQLPSPLP  551 (640)
Q Consensus       529 ----------~~~~~a~~~~~~~~~~~p~~~~~  551 (640)
                                |++++|+..|+++++++|.+...
T Consensus        95 ~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y  127 (158)
T 1zu2_A           95 FLTPDETEAKHNFDLATQFFQQAVDEQPDNTHY  127 (158)
T ss_dssp             HHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHH
T ss_pred             ccCcchhhhhccHHHHHHHHHHHHHhCCCCHHH
Confidence                      48999999999999999988544

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.61  E-value=0.00035  Score=54.84  Aligned_cols=79  Identities=13%  Similarity=0.008  Sum_probs=54.5

Q ss_pred             HHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 006580          466 GMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMD  543 (640)
Q Consensus       466 A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  543 (640)
                      |+..|++..+.  .+.+...+..+...|...|++++|++.+++.. ..| +...|..+...+...|++++|...++++++
T Consensus         4 a~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQ--GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTT--TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44555555432  23345566667777777777777777777665 333 567788888888888888888888888888


Q ss_pred             cCC
Q 006580          544 LQL  546 (640)
Q Consensus       544 ~~p  546 (640)
                      ..|
T Consensus        82 ~~~   84 (115)
T 2kat_A           82 AAQ   84 (115)
T ss_dssp             HHH
T ss_pred             hcc
Confidence            766

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.59  E-value=0.00029  Score=52.33  Aligned_cols=66  Identities=14%  Similarity=0.192  Sum_probs=61.2

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          514 GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       514 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +...+..+...+...|++++|...++++++.+|.++..+..++.++...|++++|...+++..+..
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            356788889999999999999999999999999999999999999999999999999999998754

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.55  E-value=0.00058  Score=55.37  Aligned_cols=91  Identities=11%  Similarity=-0.001  Sum_probs=64.9

Q ss_pred             CCCHHHHHHHHHHHHHcC---ChHHHHHHHHHHHhcC-C-CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCce
Q 006580          512 QPGCSIWESILRASAIYG---DVKLTENVAERMMDLQ-L-PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGC  586 (640)
Q Consensus       512 ~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  586 (640)
                      .++..+...+..++.+.+   +.++++.+++.+++.+ | .+..++..|+-+|.+.|++++|+++++.+.+..       
T Consensus        29 ~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~ie-------  101 (152)
T 1pc2_A           29 SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTE-------  101 (152)
T ss_dssp             CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-------
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-------
Confidence            456777777777777776   5668888888888877 5 456777788888888888888888888887743       


Q ss_pred             eeEEecCEEEEEecCCCCCCChHHHHHHHHHHHHHHHHcCcc
Q 006580          587 SWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCV  628 (640)
Q Consensus       587 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  628 (640)
                                         |+..++....+.+.+.++++|.+
T Consensus       102 -------------------P~n~QA~~Lk~~ie~~~~kdgl~  124 (152)
T 1pc2_A          102 -------------------PQNNQAKELERLIDKAMKKDGLV  124 (152)
T ss_dssp             -------------------TTCHHHHHHHHHHHHHHHHTTCC
T ss_pred             -------------------CCCHHHHHHHHHHHHHHHHhhHH
Confidence                               33445555555667777777643

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.45  E-value=0.00043  Score=52.73  Aligned_cols=65  Identities=3%  Similarity=-0.027  Sum_probs=48.2

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 006580          482 GEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQL  546 (640)
Q Consensus       482 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  546 (640)
                      +...+..+..+|.+.|++++|++.|+++. ..| +...|..+..++...|++++|...+++++++.|
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~   72 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAR   72 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhh
Confidence            45566677777777777777777777765 334 566788888888888888888888888877754

>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=97.44  E-value=0.00026  Score=69.99  Aligned_cols=83  Identities=10%  Similarity=-0.031  Sum_probs=63.8

Q ss_pred             cCChHHHHHHHHhCC------CCC---C-HHHHHHHHHHHHHcCChHHHHHHHHHHHhc-----CCCCh---hHHHHHHH
Q 006580          496 AGQLGKAIDITSTMP------FQP---G-CSIWESILRASAIYGDVKLTENVAERMMDL-----QLPSP---LPYSLLTQ  557 (640)
Q Consensus       496 ~g~~~~A~~~~~~~~------~~~---~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~p~~~---~~~~~l~~  557 (640)
                      .|++++|+.++++..      ..|   + ..+++.|..+|...|++++|+.+++++++.     +|+++   ..|+.|+.
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            356666666665542      223   2 357888999999999999999999999876     45444   56889999


Q ss_pred             HHHhcCChHHHHHHHHHHHhC
Q 006580          558 AYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       558 ~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      +|..+|++++|+.++++..+-
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~i  411 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIAI  411 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHHH
Confidence            999999999999999988763

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=97.42  E-value=0.022  Score=44.16  Aligned_cols=141  Identities=10%  Similarity=0.027  Sum_probs=106.9

Q ss_pred             HHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHH
Q 006580          422 LTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGK  501 (640)
Q Consensus       422 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  501 (640)
                      +.-.|..++..++..+..+.   .+..-|+.++-.....-+-+-..++++.+-+-+.+.              .+|++..
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis--------------~C~NlKr   79 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLD--------------KCQNLKS   79 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGG--------------GCSCTHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhhcCcH--------------hhhcHHH
Confidence            44578889999999888773   355667777766667777788888888776544433              3445554


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 006580          502 AIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGIN  581 (640)
Q Consensus       502 A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  581 (640)
                      ...-+-.+  ..+....+..+.....+|+-+.-..++..++..+++++.....++.+|.+.|+..+|.+++.+.-++|++
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 VVECGVIN--NTLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHT--TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHh--cchHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            44444443  2344556777788889999999999999988888999999999999999999999999999999999974

>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=97.41  E-value=0.0027  Score=51.69  Aligned_cols=112  Identities=13%  Similarity=-0.089  Sum_probs=93.1

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHh----cCChHH
Q 006580          426 GRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQ----AGQLGK  501 (640)
Q Consensus       426 g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~  501 (640)
                      +++++|++.|++..+.| .|+..    +...|...+.+++|++.|++..+.    -+...+..|...|..    .+++++
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            46889999999999987 44444    666777778899999999988775    466778888888888    789999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhcCC
Q 006580          502 AIDITSTMPFQPGCSIWESILRASAI----YGDVKLTENVAERMMDLQL  546 (640)
Q Consensus       502 A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p  546 (640)
                      |.+.|++.....++..+..|...|..    .+|.++|...++++.+.+.
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            99999988745678888899999988    8899999999999998854

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.35  E-value=0.00014  Score=69.93  Aligned_cols=253  Identities=11%  Similarity=0.051  Sum_probs=135.0

Q ss_pred             hhhHHHHHHHHHccCCchHHHHHHhcCCCCChhhHHHHHHHHhcCCChhHHHHHhccCCC--CCcchHHHHHHHHHhCCC
Q 006580           50 TYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPE--PDVVSWNSMISGYASCGY  127 (640)
Q Consensus        50 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~--~~~~~y~~li~~~~~~~~  127 (640)
                      +.+|..|..+....+++.+|++-|=+  ..|+..|..++.+..+.|.+++-++.+...++  .++..=+.|+-+|++.++
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsyIk--A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~IDteLi~ayAk~~r  131 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNR  131 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSSCC--CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTTHHHHHHHHTSCS
T ss_pred             ccHHHHHHHHHHccCchHHHHHHHHh--CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccHHHHHHHHHhhCc
Confidence            34455565555555555555443322  24455555666666666666666666555543  344444556666666665


Q ss_pred             hHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCC------CCchhHHHHHHHhhhcCCChHHHHH
Q 006580          128 SDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLS------LSNVVLGNSLIDMYGKLGVLYYAFG  201 (640)
Q Consensus       128 ~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~~~li~~~~~~g~~~~A~~  201 (640)
                      ..+..+++.       .||..-...+             =+...+.|.+      -.+..-|..|...+.+.|++..|.+
T Consensus       132 L~elEefl~-------~~N~A~iq~V-------------GDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVd  191 (624)
T 3lvg_A          132 LAELEEFIN-------GPNNAHIQQV-------------GDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVD  191 (624)
T ss_dssp             SSTTTSTTS-------CCSSSCTHHH-------------HHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTT
T ss_pred             HHHHHHHHc-------CCCcccHHHH-------------HHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHH
Confidence            443222211       1211111000             0011111100      0111222233334444444444333


Q ss_pred             HHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCch
Q 006580          202 VFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNS  281 (640)
Q Consensus       202 ~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  281 (640)
                      .-+.  ..++.+|-.+-.+|...+.+..|.-.--.+.-     .......++..|...|.+++-..+++.-+... ....
T Consensus       192 aArK--Ans~ktWKeV~~ACvd~~EfrLAqicGLniIv-----hadeL~elv~~YE~~G~f~ELIsLlEaglglE-rAHm  263 (624)
T 3lvg_A          192 GARK--ANSTRTWKEVCFACVDGKEFRLAQMCGLHIVV-----HADELEELINYYQDRGYFEELITMLEAALGLE-RAHM  263 (624)
T ss_dssp             TTTT--CCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC-----CSSCCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCH
T ss_pred             HHHh--cCChhHHHHHHHHHhCchHHHHHHHhcchhcc-----cHHHHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhH
Confidence            2111  24678899999999999998877555443332     12223345667788888888888887665321 3466


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCC----C-------ChhhHHHHHHHHHhCCChHHHHH
Q 006580          282 IVLSATIDLFSKCNRLEDSVRLFEQLDR----W-------DYAVINVMISTYGRYGFGEVALE  333 (640)
Q Consensus       282 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~-------~~~~~~~li~~~~~~~~~~~a~~  333 (640)
                      .+|+.|.-.|+|- +.++..+.++..-.    |       ....|..++-.|++..+++.|..
T Consensus       264 GmFTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          264 GMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             HHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            7888888888775 56666666654432    1       34468888888888888886653

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.27  E-value=0.0009  Score=50.68  Aligned_cols=55  Identities=16%  Similarity=0.226  Sum_probs=29.5

Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCChh-HHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          524 ASAIYGDVKLTENVAERMMDLQLPSPL-PYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       524 ~~~~~~~~~~a~~~~~~~~~~~p~~~~-~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      .+...|++++|...++++++.+|.++. .+..++.+|...|++++|.+.+++..+.
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            344455555555555555555555555 5555555555555555555555555443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.15  E-value=0.0025  Score=48.12  Aligned_cols=79  Identities=18%  Similarity=0.143  Sum_probs=60.9

Q ss_pred             HHHHHHhcCChHHHHHHHHhCC-CCC-CHH-HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCh
Q 006580          489 IIDLLCQAGQLGKAIDITSTMP-FQP-GCS-IWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRW  565 (640)
Q Consensus       489 l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  565 (640)
                      ....+.+.|++++|.+.++++. ..| +.. .|..+...+...|++++|...++++++.+|.++..+..        +.+
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            3556778888888888888876 344 667 88889999999999999999999999999988877632        455


Q ss_pred             HHHHHHHHHH
Q 006580          566 EAIVRVKKVM  575 (640)
Q Consensus       566 ~~a~~~~~~m  575 (640)
                      .++...+++.
T Consensus        78 ~~a~~~~~~~   87 (99)
T 2kc7_A           78 MDILNFYNKD   87 (99)
T ss_dssp             HHHHHHHCCT
T ss_pred             HHHHHHHHHH
Confidence            5565555433

>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=97.15  E-value=0.014  Score=55.32  Aligned_cols=142  Identities=17%  Similarity=0.170  Sum_probs=71.9

Q ss_pred             CChhHHHHHHHHHH--hCCC---hHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCCh
Q 006580          410 RDLVSWNTIMMGLT--QNGR---AAETLDVFEELLEEGLPPDR-ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGE  483 (640)
Q Consensus       410 ~~~~~~~~li~~~~--~~g~---~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~  483 (640)
                      .+...|...+.+..  ..++   ..+|..+|++..+  ..|+. ..+..+..++.-          .   ... + ..+.
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~--lDP~~a~A~A~la~a~~~----------~---~~~-~-~~~~  254 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQ--SSPEFTYARAEKALVDIV----------R---HSQ-H-PLDE  254 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHH----------H---HHH-S-CCCH
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHH----------H---hcc-C-CCch
Confidence            46667777766543  3333   5788999999998  46764 345444444430          0   000 1 0000


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhc
Q 006580          484 EHYACIIDLLCQAGQLGKAIDITSTMP-FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMR  562 (640)
Q Consensus       484 ~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  562 (640)
                      .....          ...+.+....+. .+.++.++..+...+...|++++|...++++++++| +...|..+++++.-.
T Consensus       255 ~~~~~----------l~~a~~a~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~-s~~a~~llG~~~~~~  323 (372)
T 3ly7_A          255 KQLAA----------LNTEIDNIVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEM-SWLNYVLLGKVYEMK  323 (372)
T ss_dssp             HHHHH----------HHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHT
T ss_pred             hhHHH----------HHHHHHHHHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHC
Confidence            00000          012222112222 233555555555555555666666666666666663 345555666666666


Q ss_pred             CChHHHHHHHHHHHhCC
Q 006580          563 GRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       563 g~~~~a~~~~~~m~~~~  579 (640)
                      |++++|.+.+++....+
T Consensus       324 G~~~eA~e~~~~AlrL~  340 (372)
T 3ly7_A          324 GMNREAADAYLTAFNLR  340 (372)
T ss_dssp             TCHHHHHHHHHHHHHHS
T ss_pred             CCHHHHHHHHHHHHhcC
Confidence            66666666666555543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.10  E-value=0.00013  Score=70.18  Aligned_cols=236  Identities=11%  Similarity=0.017  Sum_probs=161.9

Q ss_pred             chhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhc
Q 006580          179 NVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTK  258 (640)
Q Consensus       179 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  258 (640)
                      .+.+|..|..++.+.|.+.+|.+.|-.  ..|...|..+|.+..+.|.+++-+..+...++..-.|.  .=+.|+-+|++
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIk--A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~--IDteLi~ayAk  128 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESY--VETELIFALAK  128 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCC--CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTT--TTHHHHHHHHT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHh--CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccc--cHHHHHHHHHh
Confidence            566788888999999988888776533  45777899999999999999999999888776543343  34578889999


Q ss_pred             cCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC------------------------CChhh
Q 006580          259 LRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR------------------------WDYAV  314 (640)
Q Consensus       259 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------------------------~~~~~  314 (640)
                      .+++.+-++++.       .||..-...+.+-|...|.++.|.-+|..+..                        .++.+
T Consensus       129 ~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~kt  201 (624)
T 3lvg_A          129 TNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRT  201 (624)
T ss_dssp             SCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCS
T ss_pred             hCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhH
Confidence            998877655542       46776677788888888888888888777642                        36778


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh
Q 006580          315 INVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAK  393 (640)
Q Consensus       315 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  393 (640)
                      |-.+-.+|...+.+.-|--.--.+.   +.||.  +..++..+-. |-+++-..+++.-... -......|+-|.-.|++
T Consensus       202 WKeV~~ACvd~~EfrLAqicGLniI---vhade--L~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYsK  275 (624)
T 3lvg_A          202 WKEVCFACVDGKEFRLAQMCGLHIV---VHADE--LEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSK  275 (624)
T ss_dssp             HHHHTHHHHHSCTTTTTTHHHHHHH---CCSSC--CSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHhCchHHHHHHHhcchhc---ccHHH--HHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHh
Confidence            9999999998888776554333332   12221  1233444555 7777766666655521 13456667777777776


Q ss_pred             cCChHHHHHHHHhCCC----C-------ChhHHHHHHHHHHhCCChHHHH
Q 006580          394 TGSIDSSTEIFVKLDK----R-------DLVSWNTIMMGLTQNGRAAETL  432 (640)
Q Consensus       394 ~g~~~~A~~~~~~~~~----~-------~~~~~~~li~~~~~~g~~~~a~  432 (640)
                      - ++++..+.++....    |       ....|.-++-.|++..+++.|.
T Consensus       276 Y-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          276 F-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             S-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             c-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            4 45666666554432    1       3456777777787777777665

>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=97.05  E-value=0.0055  Score=60.54  Aligned_cols=94  Identities=7%  Similarity=0.001  Sum_probs=64.8

Q ss_pred             ccCCHHHHHHHHHHhHHhh--CCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC---------CCCC-HHHHHHHH
Q 006580          459 YGGFVDKGMLVFSAMKEEY--GVMPG----EEHYACIIDLLCQAGQLGKAIDITSTMP---------FQPG-CSIWESIL  522 (640)
Q Consensus       459 ~~~~~~~A~~~~~~~~~~~--~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~-~~~~~~l~  522 (640)
                      ..|++++|..++++..+..  -+.|+    ..+++.|..+|...|++++|+.++++..         ..|+ ..+++.|.
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            3466777777776655421  12222    3466777777777777777777776654         2333 34788999


Q ss_pred             HHHHHcCChHHHHHHHHHHHhc-----CCCChhHH
Q 006580          523 RASAIYGDVKLTENVAERMMDL-----QLPSPLPY  552 (640)
Q Consensus       523 ~~~~~~~~~~~a~~~~~~~~~~-----~p~~~~~~  552 (640)
                      ..|..+|++++|+.++++++++     +|+++.+-
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~  424 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYIS  424 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHH
Confidence            9999999999999999999877     67776543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.94  E-value=0.0078  Score=46.82  Aligned_cols=90  Identities=9%  Similarity=-0.075  Sum_probs=58.0

Q ss_pred             CCCHHHHHHHHHHHHHcCChHH---HHHHHHHHHhcC-C-CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCce
Q 006580          512 QPGCSIWESILRASAIYGDVKL---TENVAERMMDLQ-L-PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGC  586 (640)
Q Consensus       512 ~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  586 (640)
                      .++..+-..+.+++.+.++...   ++.+++.+...+ | ........|+-++.+.|+|++|.+.++.+.+..       
T Consensus        32 ~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~e-------  104 (126)
T 1nzn_A           32 SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTE-------  104 (126)
T ss_dssp             CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-------
Confidence            4566666666666666654444   777777777665 4 355566677778888888888888888777633       


Q ss_pred             eeEEecCEEEEEecCCCCCCChHHHHHHHHHHHHHHHHcCc
Q 006580          587 SWIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGC  627 (640)
Q Consensus       587 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  627 (640)
                                         |...++.+.-..+.++|.++|+
T Consensus       105 -------------------P~n~QA~~Lk~~i~~~i~kdGl  126 (126)
T 1nzn_A          105 -------------------PQNNQAKELERLIDKAMKKDGL  126 (126)
T ss_dssp             -------------------TTCHHHHHHHHHHHHHHHHC--
T ss_pred             -------------------CCCHHHHHHHHHHHHHHHhccC
Confidence                               4444555555556777777663

>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=96.93  E-value=0.0096  Score=58.92  Aligned_cols=97  Identities=10%  Similarity=-0.035  Sum_probs=62.2

Q ss_pred             HhccCCHHHHHHHHHHhHHhh--CCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC---------CCCC-HHHHHH
Q 006580          457 CNYGGFVDKGMLVFSAMKEEY--GVMPG----EEHYACIIDLLCQAGQLGKAIDITSTMP---------FQPG-CSIWES  520 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~--~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~-~~~~~~  520 (640)
                      +.+.|++++|+..+++..+..  -+.|+    ..+++.|..+|...|++++|+.+++++.         ..|+ ..+++.
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            344556666666666554321  11121    3356666666666777777666666553         2332 346888


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhc-----CCCChhHHH
Q 006580          521 ILRASAIYGDVKLTENVAERMMDL-----QLPSPLPYS  553 (640)
Q Consensus       521 l~~~~~~~~~~~~a~~~~~~~~~~-----~p~~~~~~~  553 (640)
                      |...|..+|++++|+.++++++++     +|+++.+-.
T Consensus       377 La~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~  414 (429)
T 3qwp_A          377 VGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIED  414 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHH
Confidence            899999999999999999999876     777765543

>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=96.83  E-value=0.014  Score=55.33  Aligned_cols=39  Identities=5%  Similarity=-0.013  Sum_probs=34.7

Q ss_pred             HHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          541 MMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       541 ~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      .+..+|.++.+|..++..+...|++++|...++++...+
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln  307 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE  307 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            335689999999999998888999999999999999876

>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=96.82  E-value=0.0054  Score=55.52  Aligned_cols=87  Identities=10%  Similarity=0.088  Sum_probs=72.1

Q ss_pred             hHHHHHHHHhCC-CCCC---HHHHHHHHHHHHH-----cCChHHHHHHHHHHHhcCCC-ChhHHHHHHHHHHhc-CChHH
Q 006580          499 LGKAIDITSTMP-FQPG---CSIWESILRASAI-----YGDVKLTENVAERMMDLQLP-SPLPYSLLTQAYAMR-GRWEA  567 (640)
Q Consensus       499 ~~~A~~~~~~~~-~~~~---~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~-g~~~~  567 (640)
                      ..+|...+++.. ..|+   ...|..|...|..     -|+.++|.++|+++++++|. +...+..+++.++.. |+.++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            356666666655 5665   5678888888888     49999999999999999996 499999999999985 99999


Q ss_pred             HHHHHHHHHhCCCccCCc
Q 006580          568 IVRVKKVMRKNGINKVTG  585 (640)
Q Consensus       568 a~~~~~~m~~~~~~~~~~  585 (640)
                      |.+.+++........+|+
T Consensus       259 a~~~L~kAL~a~p~~~P~  276 (301)
T 3u64_A          259 FDEALDRALAIDPESVPH  276 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSS
T ss_pred             HHHHHHHHHcCCCCCCCC
Confidence            999999999987765554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.69  E-value=0.12  Score=56.30  Aligned_cols=103  Identities=13%  Similarity=0.174  Sum_probs=66.6

Q ss_pred             HHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 006580          389 EMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGML  468 (640)
Q Consensus       389 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~  468 (640)
                      ......|+++.|.++.+.+.  +...|..+...+.+.|+++.|.+.|.++..         |..+...+...|+.+...+
T Consensus       660 ~~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~  728 (814)
T 3mkq_A          660 ELALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVT  728 (814)
T ss_dssp             HHHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHH
T ss_pred             ehhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHH
Confidence            34566788888888877664  457888899999999999999998887754         2334444445666666555


Q ss_pred             HHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC
Q 006580          469 VFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTM  509 (640)
Q Consensus       469 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  509 (640)
                      +-+..... |      .++.-..+|.+.|++++|++++.++
T Consensus       729 ~~~~a~~~-~------~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          729 LAKDAETT-G------KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHc-C------chHHHHHHHHHcCCHHHHHHHHHHc
Confidence            54444332 2      1233344566677777776666544

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.55  E-value=0.016  Score=44.19  Aligned_cols=71  Identities=8%  Similarity=-0.023  Sum_probs=49.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC---------CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHH
Q 006580          486 YACIIDLLCQAGQLGKAIDITSTMP---------FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLT  556 (640)
Q Consensus       486 ~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  556 (640)
                      ...|...+.+.|++..|...++.+.         ..+...++..|..++.+.|+++.|...+++++++.|.++.+...+.
T Consensus         8 c~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~n~~   87 (104)
T 2v5f_A            8 CFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLK   87 (104)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHhhHH
Confidence            3344455555555555555554432         0234667888999999999999999999999999999887766653

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=96.51  E-value=0.11  Score=41.20  Aligned_cols=91  Identities=8%  Similarity=-0.020  Sum_probs=68.1

Q ss_pred             CCCHHHHHHHHHHHHHcC---ChHHHHHHHHHHHhcCC-CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCcee
Q 006580          512 QPGCSIWESILRASAIYG---DVKLTENVAERMMDLQL-PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCS  587 (640)
Q Consensus       512 ~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  587 (640)
                      .|+..+--.+.+++.+..   +..+++.+++.+....| ........|+-++.+.|+|++|+++.+.+.+..        
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~e--------  107 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE--------  107 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTC--------
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC--------
Confidence            466777777777777765   45678888888888877 445666778889999999999999999888743        


Q ss_pred             eEEecCEEEEEecCCCCCCChHHHHHHHHHHHHHHHHcCcc
Q 006580          588 WIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEGCV  628 (640)
Q Consensus       588 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  628 (640)
                                        |...++.+.-..+.++|+++|.+
T Consensus       108 ------------------P~n~QA~~Lk~~Ie~~i~kdGli  130 (144)
T 1y8m_A          108 ------------------RNNKQVGALKSMVEDKIQKETLK  130 (144)
T ss_dssp             ------------------CCCHHHHHHHHHHHHHHHHTTTT
T ss_pred             ------------------CCcHHHHHHHHHHHHHHHHhchh
Confidence                              44556666666678888888754

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.48  E-value=0.022  Score=42.19  Aligned_cols=69  Identities=10%  Similarity=-0.008  Sum_probs=56.4

Q ss_pred             CCChhHHHHHHHHHHhcCC---hHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 006580          480 MPGEEHYACIIDLLCQAGQ---LGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPS  548 (640)
Q Consensus       480 ~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  548 (640)
                      +.++..+..+..++...++   .++|..++++.. ..| ++..+..+...+...|++++|...++++++.+|++
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            4566777777777765544   689999998887 555 77888889999999999999999999999999873

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.35  E-value=0.019  Score=46.45  Aligned_cols=73  Identities=4%  Similarity=-0.102  Sum_probs=50.8

Q ss_pred             CChhHHHHHHHHHHhcC---ChHHHHHHHHhCC-CC-C--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHH
Q 006580          481 PGEEHYACIIDLLCQAG---QLGKAIDITSTMP-FQ-P--GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYS  553 (640)
Q Consensus       481 p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~-~~-~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  553 (640)
                      ++..+...+..++.+++   +.++++.++++.. .. |  +...+-.|.-+|.+.|++++|.+.++++++.+|.|..+..
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~ieP~n~QA~~  109 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKE  109 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHH
Confidence            45555555566666655   4446666665554 22 3  2455667777889999999999999999999998865544

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.06  E-value=0.15  Score=55.53  Aligned_cols=102  Identities=12%  Similarity=0.131  Sum_probs=70.9

Q ss_pred             hhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHH
Q 006580          190 YGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVF  269 (640)
Q Consensus       190 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~  269 (640)
                      ....|++++|.++.+.+.  +...|..+...+.+.++++.|.+.|.++.+         |..+...+...|+.+...++.
T Consensus       662 ~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~  730 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLA  730 (814)
T ss_dssp             HHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHH
T ss_pred             hhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHH
Confidence            445688888888877764  456788889999999999999999988754         444555555677777766666


Q ss_pred             HHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 006580          270 ALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLD  308 (640)
Q Consensus       270 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  308 (640)
                      +.....|.      ++.-..+|.+.|++++|++++.++.
T Consensus       731 ~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          731 KDAETTGK------FNLAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             HHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHcCc------hHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            65555542      3344455667778888777765543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.03  E-value=0.036  Score=42.11  Aligned_cols=66  Identities=12%  Similarity=0.007  Sum_probs=57.0

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-------CCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          514 GCSIWESILRASAIYGDVKLTENVAERMMDLQ-------LPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       514 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +..-+..++..+...++++.|...++++++..       +..+.++..|+.+|.+.|++++|..+++++.+..
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            45556788899999999999999999999862       3456789999999999999999999999998754

>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=95.95  E-value=0.059  Score=42.02  Aligned_cols=89  Identities=8%  Similarity=-0.008  Sum_probs=64.9

Q ss_pred             CCCHHHHHHHHHHHHHcC---ChHHHHHHHHHHHhcCC-CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCcee
Q 006580          512 QPGCSIWESILRASAIYG---DVKLTENVAERMMDLQL-PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKVTGCS  587 (640)
Q Consensus       512 ~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  587 (640)
                      .|++.+--.+.+++.+..   +..+++.+++.+...+| .....+..|+-++.+.|++++|+++.+.+.+..        
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~e--------  108 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE--------  108 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC--------
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhC--------
Confidence            456666666777777665   45578888888888777 346677788889999999999999998888743        


Q ss_pred             eEEecCEEEEEecCCCCCCChHHHHHHHHHHHHHHHHcC
Q 006580          588 WIGIKNRIYTFNAGELQHHGGQKIYLVLRLLTWEMEDEG  626 (640)
Q Consensus       588 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  626 (640)
                                        |+..++.+.-..+.++|+++|
T Consensus       109 ------------------P~N~QA~~Lk~~Ie~ki~kd~  129 (134)
T 3o48_A          109 ------------------RNNKQVGALKSMVEDKIQKEE  129 (134)
T ss_dssp             ------------------TTCHHHHHHHHHHHHHHHHHH
T ss_pred             ------------------CCCHHHHHHHHHHHHHHHhhc
Confidence                              445566666566777777665

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.78  E-value=0.65  Score=38.62  Aligned_cols=48  Identities=17%  Similarity=0.351  Sum_probs=28.9

Q ss_pred             HHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHH
Q 006580          390 MYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELL  439 (640)
Q Consensus       390 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  439 (640)
                      .....|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+..
T Consensus        14 LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~   61 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQH   61 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhC
Confidence            344566666666665554  345566666666666666666666665554

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.59  E-value=0.58  Score=38.93  Aligned_cols=128  Identities=13%  Similarity=0.087  Sum_probs=90.9

Q ss_pred             hhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHH
Q 006580          189 MYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQV  268 (640)
Q Consensus       189 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~  268 (640)
                      .....|+++.|.++.+.+  .+...|..|.......|+++-|...|.+..+         +..+.-.|...|+.++..++
T Consensus        14 LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kl   82 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKM   82 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHH
Confidence            345678999999998877  3567899999999999999999999998865         45555566677888877777


Q ss_pred             HHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHH
Q 006580          269 FALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLM  338 (640)
Q Consensus       269 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  338 (640)
                      -+.....|-      ++.....+.-.|+++++.++|.+..+....     .......|..+.|.++...+
T Consensus        83 a~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~~~r~~eA-----~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           83 QNIAQTRED------FGSMLLNTFYNNSTKERSSIFAEGGSLPLA-----YAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHTTCHHHH-----HHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHCcc------HHHHHHHHHHcCCHHHHHHHHHHCCChHHH-----HHHHHHcCcHHHHHHHHHHh
Confidence            666655552      445555677789999999988776552211     11122255667777776655

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.51  E-value=0.06  Score=56.55  Aligned_cols=56  Identities=18%  Similarity=0.113  Sum_probs=51.3

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHH
Q 006580          520 SILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVM  575 (640)
Q Consensus       520 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  575 (640)
                      .-...|...|+++.|+.+.++++..-|.+..+|..|+.+|...|+|+.|+-.+..+
T Consensus       342 ~Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          342 IQTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            33456778899999999999999999999999999999999999999999999877

>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=95.44  E-value=0.12  Score=41.30  Aligned_cols=52  Identities=6%  Similarity=-0.103  Sum_probs=34.0

Q ss_pred             CChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          529 GDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       529 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      +|.++|.++|+.++.....-+..|...+..-.++|+.+.|.+++.+....+.
T Consensus        74 ~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~  125 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGA  125 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             cCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCC
Confidence            5667777777777666444455666666666667777777777777666554

>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=95.01  E-value=3.8  Score=42.24  Aligned_cols=114  Identities=10%  Similarity=-0.019  Sum_probs=51.9

Q ss_pred             ChHHHHHHHHHHHHCC-CCCCHH--HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHH
Q 006580          427 RAAETLDVFEELLEEG-LPPDRI--TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAI  503 (640)
Q Consensus       427 ~~~~a~~~~~~m~~~g-~~p~~~--~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  503 (640)
                      +.+.|...|......+ +.+...  ....+.......+...++...+......   .++.....-.+....+.|+++.|.
T Consensus       229 d~~~A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~Alr~~d~~~a~  305 (618)
T 1qsa_A          229 DAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRGLN  305 (618)
T ss_dssp             CHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CHHHHHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHHHHCCCHHHHH
Confidence            5666776666665432 222211  1222222333334234444444443321   223222333333334557777777


Q ss_pred             HHHHhCCCCC-C-HHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 006580          504 DITSTMPFQP-G-CSIWESILRASAIYGDVKLTENVAERMMD  543 (640)
Q Consensus       504 ~~~~~~~~~~-~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  543 (640)
                      ..|+.+...+ + ....-=+..++...|+.++|..+|+++.+
T Consensus       306 ~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          306 TWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            7777665221 1 21111123344556777777777766654

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.99  E-value=0.24  Score=38.46  Aligned_cols=87  Identities=7%  Similarity=-0.097  Sum_probs=55.9

Q ss_pred             HHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHH---HHHHHHhCC-CC-C--CHHHHHHHHHHHHHcCChHHHHHH
Q 006580          465 KGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGK---AIDITSTMP-FQ-P--GCSIWESILRASAIYGDVKLTENV  537 (640)
Q Consensus       465 ~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~-~~-~--~~~~~~~l~~~~~~~~~~~~a~~~  537 (640)
                      .+.+-|...... +. |+..+-..+..++.++.+...   ++.++++.. .. |  .....-.|.-++.+.|++++|.+.
T Consensus        19 ~~~~~y~~e~~~-~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~   96 (126)
T 1nzn_A           19 KFEKKFQSEKAA-GS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKY   96 (126)
T ss_dssp             HHHHHHHHHHHH-SC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhcc-CC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            344444444332 22 555665566666666665544   666666655 22 3  233455677788899999999999


Q ss_pred             HHHHHhcCCCChhHHH
Q 006580          538 AERMMDLQLPSPLPYS  553 (640)
Q Consensus       538 ~~~~~~~~p~~~~~~~  553 (640)
                      ++.+++.+|.|..+..
T Consensus        97 ~~~lL~~eP~n~QA~~  112 (126)
T 1nzn_A           97 VRGLLQTEPQNNQAKE  112 (126)
T ss_dssp             HHHHHHHCTTCHHHHH
T ss_pred             HHHHHHhCCCCHHHHH
Confidence            9999999998876544

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=94.92  E-value=2.3  Score=39.32  Aligned_cols=150  Identities=9%  Similarity=-0.001  Sum_probs=96.6

Q ss_pred             hhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHH----HH
Q 006580          160 ACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQ----FY  235 (640)
Q Consensus       160 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~----~~  235 (640)
                      +++..+-++.-++.|.+-.-..+|.++..-|.+.+++++|.+++..           -...+.+.|+...|-++    ++
T Consensus        13 ~~r~l~rl~~~I~~G~yYEAhQ~~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llve   81 (312)
T 2wpv_A           13 LAKTLQRFENKIKAGDYYEAHQTLRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLE   81 (312)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHH
Confidence            3334444444455553333445677888889999999999998643           34556777887666654    55


Q ss_pred             HhHHCCCCCCcchHHHHHHHHhccCCch-HHHHHHHHHHHh----C--CCCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 006580          236 SMRYSGYSPDEYTISIVINACTKLRNLD-KGKQVFALSVKV----G--FLSNSIVLSATIDLFSKCNRLEDSVRLFEQLD  308 (640)
Q Consensus       236 ~m~~~g~~p~~~t~~~ll~~~~~~~~~~-~a~~~~~~~~~~----~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  308 (640)
                      ...+.+++++......++..+.....-+ .-.++++.+++.    |  ..-++.....+...|.+.|++.+|...|-.-.
T Consensus        82 v~~~~~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~  161 (312)
T 2wpv_A           82 VYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGT  161 (312)
T ss_dssp             HHHHTTCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSC
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCC
Confidence            5566788999888888887776643222 234455555443    2  22367788889999999999999998876333


Q ss_pred             CCChhhHHHHHH
Q 006580          309 RWDYAVINVMIS  320 (640)
Q Consensus       309 ~~~~~~~~~li~  320 (640)
                      ..+...+..++.
T Consensus       162 ~~s~~~~a~~l~  173 (312)
T 2wpv_A          162 HDSMIKYVDLLW  173 (312)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CccHHHHHHHHH
Confidence            224444444443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.42  E-value=6.6  Score=42.31  Aligned_cols=264  Identities=11%  Similarity=0.009  Sum_probs=129.9

Q ss_pred             HHhccCCchHHHHHHHHHHHhCCCCc--hhHHHHHHHHHHhcCCHHHHHHHHHhcCC-CC----------hhhHHHHHHH
Q 006580          255 ACTKLRNLDKGKQVFALSVKVGFLSN--SIVLSATIDLFSKCNRLEDSVRLFEQLDR-WD----------YAVINVMIST  321 (640)
Q Consensus       255 ~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~----------~~~~~~li~~  321 (640)
                      +....|+.+++..++...+..+-..+  ...-..+.-+...+|..+++..++..... .+          +..-.++.-+
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            34567777777777655443210112  23334444556666766667766655432 22          1112223333


Q ss_pred             HHhCCC-hHHHHHHHHHHhhCCCCCChhh-HHHHHhh--CCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHH--HHHhc
Q 006580          322 YGRYGF-GEVALELFQLMLREDIRPTEFT-LSCVLSS--IPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLME--MYAKT  394 (640)
Q Consensus       322 ~~~~~~-~~~a~~~~~~m~~~~~~p~~~t-~~~~l~~--~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~  394 (640)
                      ++-.|. -+++.+.+..+....- + ... ...+--+  +.. |+.+....++..+.+..   +..+...+.-  ++.-.
T Consensus       463 la~~GS~~eev~e~L~~~L~dd~-~-~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~  537 (963)
T 4ady_A          463 LAAMGSANIEVYEALKEVLYNDS-A-TSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINY  537 (963)
T ss_dssp             HHSTTCCCHHHHHHHHHHHHTCC-H-HHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTT
T ss_pred             HHhcCCCCHHHHHHHHHHHhcCC-H-HHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhC
Confidence            333333 2456666666554321 1 111 1111111  223 67777777777666532   2223333333  33356


Q ss_pred             CChHHHHHHHHhCC-CCChh-HHH---HHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 006580          395 GSIDSSTEIFVKLD-KRDLV-SWN---TIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLV  469 (640)
Q Consensus       395 g~~~~A~~~~~~~~-~~~~~-~~~---~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~  469 (640)
                      |+.+.+..+.+.+. ..+.. -|.   ++.-+|+..|+.....++++.+.+. ...+......+.-++...|+.+.+.++
T Consensus       538 g~~e~~~~li~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d-~~d~VRraAViaLGlI~~g~~e~v~rl  616 (963)
T 4ady_A          538 GRQELADDLITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD-SNDDVRRAAVIALGFVLLRDYTTVPRI  616 (963)
T ss_dssp             TCGGGGHHHHHHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTSSSCSSHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC-CcHHHHHHHHHHHHhhccCCHHHHHHH
Confidence            77777766666655 22322 222   2344566778877666688888764 122333333333344445565556666


Q ss_pred             HHHhHHhhCCCCChhHHHHHHHHHHhcCCh-HHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 006580          470 FSAMKEEYGVMPGEEHYACIIDLLCQAGQL-GKAIDITSTMPFQPGCSIWESILRASA  526 (640)
Q Consensus       470 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~l~~~~~  526 (640)
                      ++.+.+  ...|....-..+.-+....|.. .++++.+..+...+|..+-...+.++.
T Consensus       617 v~~L~~--~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d~~Vrq~Ai~ALG  672 (963)
T 4ady_A          617 VQLLSK--SHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQAAMIALS  672 (963)
T ss_dssp             TTTGGG--CSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSSHHHHHHHHHHHH
T ss_pred             HHHHHh--cCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCCHHHHHHHHHHHH
Confidence            665544  2234443333444444444443 577777777765666555444444443

>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=94.20  E-value=0.46  Score=37.94  Aligned_cols=60  Identities=10%  Similarity=0.004  Sum_probs=43.6

Q ss_pred             CChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHH
Q 006580          497 GQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLT  556 (640)
Q Consensus       497 g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  556 (640)
                      +++++|.++|+.+.  .+.=..+|-.....-.++|+++.|..++.+++...|.+...+...+
T Consensus        74 ~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~le~a~  135 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEMLEIAL  135 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHHHHHH
Confidence            56666666666553  1222667777888888999999999999999999987766655544

>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=93.86  E-value=0.16  Score=45.97  Aligned_cols=64  Identities=9%  Similarity=0.107  Sum_probs=40.7

Q ss_pred             hHHHHHHHHHHh-----cCChHHHHHHHHhCC-CCC--CHHHHHHHHHHHHHc-CChHHHHHHHHHHHhcCCC
Q 006580          484 EHYACIIDLLCQ-----AGQLGKAIDITSTMP-FQP--GCSIWESILRASAIY-GDVKLTENVAERMMDLQLP  547 (640)
Q Consensus       484 ~~~~~l~~~~~~-----~g~~~~A~~~~~~~~-~~~--~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~p~  547 (640)
                      ..|..|...|.+     -|+.++|.+.|++.. +.|  +..++......++.. |+.+++.+.+++++...|.
T Consensus       200 sA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          200 AVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCC
Confidence            355566666665     366666666666665 455  255666666666663 7777777777777777553

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=93.82  E-value=4.1  Score=37.64  Aligned_cols=177  Identities=10%  Similarity=0.091  Sum_probs=102.4

Q ss_pred             HccCCchHHHHHHhcCCCCChhhHHHHHHHHhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHH----HH
Q 006580           61 SRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEM----FS  136 (640)
Q Consensus        61 ~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~y~~li~~~~~~~~~~~a~~~----~~  136 (640)
                      ...|++-+|.+.++           ++..-|.+++++++|++++.           .-...+.+.|+...|.++    ++
T Consensus        24 I~~G~yYEAhQ~~R-----------tl~~Ry~~~~~~~eAidlL~-----------~ga~~ll~~~Q~~sa~DLa~llve   81 (312)
T 2wpv_A           24 IKAGDYYEAHQTLR-----------TIANRYVRSKSYEHAIELIS-----------QGALSFLKAKQGGSGTDLIFYLLE   81 (312)
T ss_dssp             HHHTCHHHHHHHHH-----------HHHHHHHHTTCHHHHHHHHH-----------HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhccChHHHHHHHH-----------HHHHHHHHhcCHHHHHHHHH-----------HHHHHHHHCCCcchHHHHHHHHHH
Confidence            34456656555544           34556667777777777642           233445566776665554    55


Q ss_pred             HHHHCCCCCChhhHHHHHHHHh--------chhHHHHHHHHHHHhCC-CCCchhHHHHHHHhhhcCCChHHHHHHHhccC
Q 006580          137 KMQLQGVRPSGFTFSILLSTVS--------SACHGKQIHGSMIRSGL-SLSNVVLGNSLIDMYGKLGVLYYAFGVFLNME  207 (640)
Q Consensus       137 ~m~~~g~~p~~~t~~~ll~~~~--------~~~~a~~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  207 (640)
                      ...+.+++++......++..+.        +..-......+-.+.|. ...++.....+...|.+.|++.+|...|-.-.
T Consensus        82 v~~~~~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~  161 (312)
T 2wpv_A           82 VYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGT  161 (312)
T ss_dssp             HHHHTTCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSC
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCC
Confidence            5566788888877777776665        22333444444444432 23478888999999999999999988775322


Q ss_pred             CCCeeeHHHHHHHHHhc---CChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHH
Q 006580          208 ELDIISWNSLISGCFNS---GYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVK  274 (640)
Q Consensus       208 ~~~~~~~~~li~~~~~~---~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  274 (640)
                      ..|...+..++--+...   |...++--++              -..++ .+...+++..|..+++...+
T Consensus       162 ~~s~~~~a~~l~~w~~~~~~~~~~e~dlf~--------------~RaVL-~yL~l~n~~~A~~~~~~f~~  216 (312)
T 2wpv_A          162 HDSMIKYVDLLWDWLCQVDDIEDSTVAEFF--------------SRLVF-NYLFISNISFAHESKDIFLE  216 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCCHHHHHHHH--------------HHHHH-HHHHTTBHHHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhcCCCCcchHHHHH--------------HHHHH-HHHHhcCHHHHHHHHHHHHH
Confidence            22344444444333333   3332221111              11122 34456788888888776653

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.07  E-value=3.4  Score=40.81  Aligned_cols=182  Identities=11%  Similarity=0.143  Sum_probs=117.7

Q ss_pred             cCChHHHHHHHHhCCC---------CChhHHHHHHHHHHhCCChHHHHHHHHHHHH-CCCCCCHHHHHHHHHHH----hc
Q 006580          394 TGSIDSSTEIFVKLDK---------RDLVSWNTIMMGLTQNGRAAETLDVFEELLE-EGLPPDRITLAAVLLAC----NY  459 (640)
Q Consensus       394 ~g~~~~A~~~~~~~~~---------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~~~~~ll~~~----~~  459 (640)
                      .|+++.|.+.+..+.+         ........++..|...|+++...+.+.-+.. +|..+...  ..+++.+    ..
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai--~~~V~~~~~~l~~  106 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSI--QYMIQKVMEYLKS  106 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHH--HHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHH--HHHHHHHHHHHhc
Confidence            3678888887755541         2344677788999999999999888876665 34333332  2333322    22


Q ss_pred             cCCHH--HHHHHHHHhHHhh--CCCC---ChhHHHHHHHHHHhcCChHHHHHHHHhCC---CCC-C----HHHHHHHHHH
Q 006580          460 GGFVD--KGMLVFSAMKEEY--GVMP---GEEHYACIIDLLCQAGQLGKAIDITSTMP---FQP-G----CSIWESILRA  524 (640)
Q Consensus       460 ~~~~~--~A~~~~~~~~~~~--~~~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~-~----~~~~~~l~~~  524 (640)
                      ....+  .-..+.+.+....  .+-.   .......|...+...|++.+|.+++..+.   ... +    ...+..-+..
T Consensus       107 ~~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl  186 (445)
T 4b4t_P          107 SKSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMEL  186 (445)
T ss_dssp             HCTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHH
T ss_pred             CCchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            23222  2222222211100  1111   12334668899999999999999999876   222 2    3466777888


Q ss_pred             HHHcCChHHHHHHHHHHHhc---CCCCh----hHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006580          525 SAIYGDVKLTENVAERMMDL---QLPSP----LPYSLLTQAYAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       525 ~~~~~~~~~a~~~~~~~~~~---~p~~~----~~~~~l~~~~~~~g~~~~a~~~~~~m~~  577 (640)
                      |...+|+.+|..++.++...   .++++    ..|...+..+...++|.+|-+.|.++.+
T Consensus       187 ~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          187 SILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            99999999999999998532   33333    4677888899999999999988777743

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=93.00  E-value=5.8  Score=36.92  Aligned_cols=179  Identities=12%  Similarity=0.054  Sum_probs=106.2

Q ss_pred             HHHccCCc---hHHHHHHhcCCCCChhhHHHHHHHHhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHH
Q 006580           59 LYSRFGTS---DDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMF  135 (640)
Q Consensus        59 ~~~~~~~~---~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~y~~li~~~~~~~~~~~a~~~~  135 (640)
                      .....|++   -+|.+.++.           +..-|.+++++++|++++           ..-...+.+.|+...+.++-
T Consensus        21 ~~I~~G~y~~~YEAHQ~~RT-----------i~~Ry~~~k~y~eAidLL-----------~~GA~~ll~~~Q~~sg~DL~   78 (336)
T 3lpz_A           21 RRIAEGQPEEQYEAAQETRL-----------VAARYSKQGNWAAAVDIL-----------ASVSQTLLRSGQGGSGGDLA   78 (336)
T ss_dssp             HHHHHCCHHHHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHH-----------HHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHhCCCCccccHHHHHHHH-----------HHHHHHhhcCHHHHHHHH-----------HHHHHHHHHCCCcchHHHHH
Confidence            34456777   666655544           456678889999999875           22344566677777665554


Q ss_pred             ----HHHHHCCCCCChhhHHHHHHHHh--------chhHHHHHHHHHHHhCC-CCCchhHHHHHHHhhhcCCChHHHHHH
Q 006580          136 ----SKMQLQGVRPSGFTFSILLSTVS--------SACHGKQIHGSMIRSGL-SLSNVVLGNSLIDMYGKLGVLYYAFGV  202 (640)
Q Consensus       136 ----~~m~~~g~~p~~~t~~~ll~~~~--------~~~~a~~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~  202 (640)
                          +-..+.++++|..+...++..+.        +..-..+...+-.+.|. ...|+.....+...|.+.+++.+|...
T Consensus        79 ~llvevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H  158 (336)
T 3lpz_A           79 VLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKH  158 (336)
T ss_dssp             HHHHHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence                55566788899888877777776        12223334444444331 234778888889999999999999888


Q ss_pred             HhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHH
Q 006580          203 FLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVK  274 (640)
Q Consensus       203 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  274 (640)
                      |-.-..++...+..++-.+...+...++              |...-..++ -|...+++..|..+++...+
T Consensus       159 ~ilg~~~s~~~~a~mL~ew~~~~~~~e~--------------dlfiaRaVL-~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          159 LVLGTKESPEVLARMEYEWYKQDESHTA--------------PLYCARAVL-PYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             HTTSCTTHHHHHHHHHHHHHHTSCGGGH--------------HHHHHHHHH-HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhcCCchHHHHHHHHHHHHHhcCCccH--------------HHHHHHHHH-HHHHhCCHHHHHHHHHHHHH
Confidence            7432222224454444333333322211              111122222 34456778888777665554

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=92.43  E-value=14  Score=39.91  Aligned_cols=248  Identities=10%  Similarity=-0.015  Sum_probs=130.2

Q ss_pred             HHHhcCCHHHHHHHHHhcCCC----Chh--hHHHHHHHHHhCCChHHHHHHHHHHhhCCC--CC----ChhhHHHHH---
Q 006580          290 LFSKCNRLEDSVRLFEQLDRW----DYA--VINVMISTYGRYGFGEVALELFQLMLREDI--RP----TEFTLSCVL---  354 (640)
Q Consensus       290 ~~~~~g~~~~A~~~~~~~~~~----~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p----~~~t~~~~l---  354 (640)
                      +....|+.++++.+++.....    +..  .-..+.-+....|..+++..++.......-  .-    ......+.+   
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            466778888888888876541    211  223344556666766678887777654321  00    111111111   


Q ss_pred             hhCCC-CChHHHHHHHHHHHHhCCCCchH--HHHHHHHHHHhcCChHHHHHHHHhCCC-CChh--HHHHHHHHHHhCCCh
Q 006580          355 SSIPI-PPVEHGSQFHSMAIKSGFDSNAV--VASSLMEMYAKTGSIDSSTEIFVKLDK-RDLV--SWNTIMMGLTQNGRA  428 (640)
Q Consensus       355 ~~~~~-~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~--~~~~li~~~~~~g~~  428 (640)
                      -++.. ++ +.+...+..+....- +...  ..-+|...++-.|+.+....++..+.. .+..  -.-.+.-++...|+.
T Consensus       463 la~~GS~~-eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~  540 (963)
T 4ady_A          463 LAAMGSAN-IEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQ  540 (963)
T ss_dssp             HHSTTCCC-HHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCG
T ss_pred             HHhcCCCC-HHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCCh
Confidence            11222 33 344444444443221 1111  112333445566777777777665442 2222  223333445578999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHH---HHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHH
Q 006580          429 AETLDVFEELLEEGLPPDRITLA---AVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDI  505 (640)
Q Consensus       429 ~~a~~~~~~m~~~g~~p~~~~~~---~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  505 (640)
                      +.+..+++.+... -.|-. -|.   .+.-+|+..|+.....+++..+...  ...+......+.-++...|+.+.+.++
T Consensus       541 e~~~~li~~L~~~-~dp~v-Rygaa~alglAyaGTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~e~v~rl  616 (963)
T 4ady_A          541 ELADDLITKMLAS-DESLL-RYGGAFTIALAYAGTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDYTTVPRI  616 (963)
T ss_dssp             GGGHHHHHHHHHC-SCHHH-HHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSCSSHHHH
T ss_pred             HHHHHHHHHHHhC-CCHHH-HHHHHHHHHHHhcCCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCHHHHHHH
Confidence            9999998888873 12322 232   3345678889988777788888763  222333333333344556776666677


Q ss_pred             HHhCCCCCCHHHHHH--HHHHHHHcCC-hHHHHHHHHHHHh
Q 006580          506 TSTMPFQPGCSIWES--ILRASAIYGD-VKLTENVAERMMD  543 (640)
Q Consensus       506 ~~~~~~~~~~~~~~~--l~~~~~~~~~-~~~a~~~~~~~~~  543 (640)
                      ++.+....|+.+-..  +..+....|+ ..++...+..+..
T Consensus       617 v~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          617 VQLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             TTTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            665542334443333  3333333443 3567777777753

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=92.27  E-value=3.3  Score=32.36  Aligned_cols=61  Identities=15%  Similarity=0.064  Sum_probs=35.0

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHh
Q 006580          415 WNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEE  476 (640)
Q Consensus       415 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~  476 (640)
                      ....+..+...|+-++-.+++..+... -+|++.....+..||.+.|+..+|.+++.+..++
T Consensus        94 vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k  154 (172)
T 1wy6_A           94 VNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKK  154 (172)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            344455555666666666666664332 3555665666666666666666666666666554

>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=91.67  E-value=14  Score=38.18  Aligned_cols=384  Identities=11%  Similarity=0.013  Sum_probs=198.2

Q ss_pred             CCCchhHHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHH
Q 006580          176 SLSNVVLGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINA  255 (640)
Q Consensus       176 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~  255 (640)
                      .|......+.-+..+.+.+++.....++.. ...+...-.....+....|+..+|....+.+=..| ......+..++..
T Consensus        68 ~p~~~~Lr~~~l~~l~~~~~w~~~l~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~-~~~p~~c~~l~~~  145 (618)
T 1qsa_A           68 LPPARTLQSRFVNELARREDWRGLLAFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG-KSQPNACDKLFSV  145 (618)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS-SCCCTHHHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHhCCCHHHHHHhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCC-CCCcHHHHHHHHH
Confidence            444445556667777788888888887766 33355555556777888888877877777664444 3445567777777


Q ss_pred             HhccCCchH--HHHHHHHHHHhC-----------CCCchh-HHHHHHHHHHhcCCHHHHHHHHHhcCCCChh---hHHHH
Q 006580          256 CTKLRNLDK--GKQVFALSVKVG-----------FLSNSI-VLSATIDLFSKCNRLEDSVRLFEQLDRWDYA---VINVM  318 (640)
Q Consensus       256 ~~~~~~~~~--a~~~~~~~~~~~-----------~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~l  318 (640)
                      +.+.|.+..  ..+-+..+...|           ++++.. ....++..+.   +...+........ ++..   .+...
T Consensus       146 ~~~~g~lt~~~~~~R~~~al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~~---~p~~~~~~~~~~~-~~~~~~~~~~~~  221 (618)
T 1qsa_A          146 WRASGKQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLAN---NPNTVLTFARTTG-ATDFTRQMAAVA  221 (618)
T ss_dssp             HHHTTCSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHH---CGGGHHHHHHHSC-CCHHHHHHHHHH
T ss_pred             HHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHHh---ChHhHHHHHhccC-CChhhHHHHHHH
Confidence            776665433  222222233222           111111 1111221111   1122222222211 1111   11112


Q ss_pred             HHHHHhCCChHHHHHHHHHHhhCC-CCCChh--hHHHHHhhCCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhc
Q 006580          319 ISTYGRYGFGEVALELFQLMLRED-IRPTEF--TLSCVLSSIPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKT  394 (640)
Q Consensus       319 i~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~--t~~~~l~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  394 (640)
                      +.-+.+ .+.+.|...+....+.. ..+...  ....+...... +....+...+......  ..+.....-.+....+.
T Consensus       222 ~~rlar-~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~e~~~r~Alr~  298 (618)
T 1qsa_A          222 FASVAR-QDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR--SQSTSLIERRVRMALGT  298 (618)
T ss_dssp             HHHHHH-HCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT--CCCHHHHHHHHHHHHHH
T ss_pred             HHHHHh-cCHHHHHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc--CCChHHHHHHHHHHHHC
Confidence            333333 37789999998886543 222221  12223333444 5355555555554433  23333445555666688


Q ss_pred             CChHHHHHHHHhCCCCC---hhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 006580          395 GSIDSSTEIFVKLDKRD---LVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFS  471 (640)
Q Consensus       395 g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~  471 (640)
                      |+++.|...|..|....   ....-=+..++...|+.++|..+|..+...   .+  .|..+..  .+.|..-.      
T Consensus       299 ~d~~~a~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~~---~~--fYg~lAa--~~Lg~~~~------  365 (618)
T 1qsa_A          299 GDRRGLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQQ---RG--FYPMVAA--QRIGEEYE------  365 (618)
T ss_dssp             TCHHHHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---CS--HHHHHHH--HHTTCCCC------
T ss_pred             CCHHHHHHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhcC---CC--hHHHHHH--HHcCCCCC------
Confidence            99999999999998432   222333556777889999999999998752   22  2333322  12221000      


Q ss_pred             HhHHhhCCCCC-h-----hHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 006580          472 AMKEEYGVMPG-E-----EHYACIIDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQ  545 (640)
Q Consensus       472 ~~~~~~~~~p~-~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  545 (640)
                       + ......+. .     ..-..-+..+...|....|...+.......+......+.......|..+.+.....+....+
T Consensus       366 -~-~~~~~~~~~~~~~~~~~~~~r~~~L~~~g~~~~a~~ew~~~~~~~~~~~~~~la~~a~~~~~~~~~v~~~~~~~~~~  443 (618)
T 1qsa_A          366 -L-KIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSKSKTEQAQLARYAFNNQWWDLSVQATIAGKLWD  443 (618)
T ss_dssp             -C-CCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHTTCTT
T ss_pred             -C-CCCCCChhHHhhhccChHHHHHHHHHHCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhc
Confidence             0 00000010 0     01122345677889999998877765433444444555555667788888776665443322


Q ss_pred             C---CChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCccC
Q 006580          546 L---PSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGINKV  583 (640)
Q Consensus       546 p---~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  583 (640)
                      .   .-|..|..++.-+.+.-.++..+-.---..+.+..|.
T Consensus       444 ~~~~~~P~~y~~~i~~~a~~~gv~~~ll~Ai~~~ES~f~p~  484 (618)
T 1qsa_A          444 HLEERFPLAYNDLFKRYTSGKEIPQSYAMAIARQESAWNPK  484 (618)
T ss_dssp             CHHHHSCCTTHHHHHHHHTTSSSCHHHHHHHHHHHHTTCTT
T ss_pred             chhhhCCcchHHHHHHHHHHcCCCHHHHHHHHHHhCCCCCC
Confidence            1   1122355566566655555554433222334444443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.18  E-value=1.2  Score=36.31  Aligned_cols=123  Identities=11%  Similarity=0.000  Sum_probs=61.9

Q ss_pred             CCCCCCHH--HHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCCh-------hHHHHHHHHHHhcCChHHHHHHHHhCC-
Q 006580          441 EGLPPDRI--TLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGE-------EHYACIIDLLCQAGQLGKAIDITSTMP-  510 (640)
Q Consensus       441 ~g~~p~~~--~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~-  510 (640)
                      .|+.|...  ++..-+..+...|.++.|+-+.+.+....+..|+.       .++..+.+++...|++.+|...|+... 
T Consensus        12 ~~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           12 SGLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             ---------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            45556543  33444566677788888877777655443333431       245556677777777777777776643 


Q ss_pred             ----CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHH
Q 006580          511 ----FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVM  575 (640)
Q Consensus       511 ----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  575 (640)
                          ..........+.    .......       -.. .+.+...-..++.+|.+.|++++|+.+++.+
T Consensus        92 ~~k~l~k~~s~~~~~~----~~ss~p~-------s~~-~~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A           92 QKKALSKTSKVRPSTG----NSASTPQ-------SQC-LPSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             HHHCC-------------------------------C-CCCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             HHHHHhcCCCcccccc----ccCCCcc-------ccc-ccchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence                111111110000    0000000       000 1223355567999999999999999998754

>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=91.04  E-value=0.8  Score=44.44  Aligned_cols=69  Identities=13%  Similarity=0.063  Sum_probs=58.6

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHh-----CCCccCCc
Q 006580          517 IWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRK-----NGINKVTG  585 (640)
Q Consensus       517 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~  585 (640)
                      ....++.++...|+++++...+..++..+|-+...|..++.+|.+.|+..+|++.|+.+.+     .|+.|.|.
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~  246 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  246 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHH
Confidence            3455667788899999999999999999999999999999999999999999999988754     47776653

>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=88.76  E-value=17  Score=34.84  Aligned_cols=158  Identities=9%  Similarity=0.004  Sum_probs=77.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCCC--------CChhHHHHHHHHHHhCC-ChHHHHHHHHHHHHCCCCCCHHHH-----
Q 006580          385 SSLMEMYAKTGSIDSSTEIFVKLDK--------RDLVSWNTIMMGLTQNG-RAAETLDVFEELLEEGLPPDRITL-----  450 (640)
Q Consensus       385 ~~l~~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~~-----  450 (640)
                      ..|...|.+.|+.++..+++.....        ........++..+.... ..+.-.++..+..+-. +-+..+|     
T Consensus        23 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~r~flr~~l  101 (394)
T 3txn_A           23 LQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWA-KQEKRTFLRQSL  101 (394)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHH-HHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence            4567777777777777777766652        12233445555554432 2233333333333210 0011122     


Q ss_pred             -HHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC-----CCCCHHHHHH
Q 006580          451 -AAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG----EEHYACIIDLLCQAGQLGKAIDITSTMP-----FQPGCSIWES  520 (640)
Q Consensus       451 -~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~~  520 (640)
                       .-+...|...|++.+|.+++..+.+...-..+    .+.+..-+..|...+++.++...+....     +.+++.+...
T Consensus       102 ~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~  181 (394)
T 3txn_A          102 EARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGA  181 (394)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHH
Confidence             14555666667777776666666654221111    2234444556666667666666665543     2233332221


Q ss_pred             H----HHHHH-HcCChHHHHHHHHHHHh
Q 006580          521 I----LRASA-IYGDVKLTENVAERMMD  543 (640)
Q Consensus       521 l----~~~~~-~~~~~~~a~~~~~~~~~  543 (640)
                      +    +-.+. ..+++..|...|-++.+
T Consensus       182 i~~~~Gi~~l~~~rdyk~A~~~F~eaf~  209 (394)
T 3txn_A          182 LDLQSGILHAADERDFKTAFSYFYEAFE  209 (394)
T ss_dssp             HHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHhccCHHHHHHHHHHHHh
Confidence            1    22334 45666666666655543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=88.76  E-value=3.5  Score=33.63  Aligned_cols=27  Identities=22%  Similarity=0.123  Sum_probs=18.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006580          484 EHYACIIDLLCQAGQLGKAIDITSTMP  510 (640)
Q Consensus       484 ~~~~~l~~~~~~~g~~~~A~~~~~~~~  510 (640)
                      +.--.+..+|.+.|++++|+.+++.++
T Consensus       123 Elkykia~C~~~l~~~~~Ai~~Le~Ip  149 (167)
T 3ffl_A          123 EVKYKLAECYTVLKQDKDAIAILDGIP  149 (167)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHCCHHHHHHHHhcCC
Confidence            333445667777777777777777776

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=88.62  E-value=5.9  Score=41.77  Aligned_cols=54  Identities=15%  Similarity=-0.081  Sum_probs=45.0

Q ss_pred             HHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChHHH
Q 006580          120 SGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLYYA  199 (640)
Q Consensus       120 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  199 (640)
                      ..+...|+++.|+.+-++....                                  .|.+-.+|..|..+|...|+++.|
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~----------------------------------aPseF~tW~~La~vYi~l~d~e~A  390 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTEL----------------------------------ALDSFESWYNLARCHIKKEEYEKA  390 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH----------------------------------CSSCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhccCcHHHHHHHHHHHHhc----------------------------------CchhhHHHHHHHHHHHHhccHHHH
Confidence            3455677777777777777654                                  778899999999999999999999


Q ss_pred             HHHHhccC
Q 006580          200 FGVFLNME  207 (640)
Q Consensus       200 ~~~~~~~~  207 (640)
                      +-.++.++
T Consensus       391 LLtLNScP  398 (754)
T 4gns_B          391 LFAINSMP  398 (754)
T ss_dssp             HHHHHHSC
T ss_pred             HHHHhcCC
Confidence            99999998

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=87.56  E-value=11  Score=33.54  Aligned_cols=54  Identities=11%  Similarity=0.153  Sum_probs=32.9

Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 006580          421 GLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKE  475 (640)
Q Consensus       421 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~  475 (640)
                      ...+.|+.++|++....-++.. +-|...-..++..+|-.|++++|.+-++...+
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~   59 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK   59 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            3455666777776666666642 33444555566666777777777766665554

>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=87.26  E-value=6.9  Score=28.52  Aligned_cols=85  Identities=12%  Similarity=0.064  Sum_probs=58.9

Q ss_pred             CchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhh
Q 006580          261 NLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLR  340 (640)
Q Consensus       261 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  340 (640)
                      .-++|..+-+.+...+-  ...+-..-+..+...|++++|..+.+.+.-||...|-+|..  .+.|..+++...+.++..
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   97 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLAR   97 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            45666666666655543  33333344556778899999999999999999999988755  366777888888777776


Q ss_pred             CCCCCChhhH
Q 006580          341 EDIRPTEFTL  350 (640)
Q Consensus       341 ~~~~p~~~t~  350 (640)
                      +| .|....|
T Consensus        98 sg-~p~~q~F  106 (116)
T 2p58_C           98 SQ-DPRIQTF  106 (116)
T ss_dssp             CC-CHHHHHH
T ss_pred             CC-CHHHHHH
Confidence            65 4444444

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=87.04  E-value=6.4  Score=28.62  Aligned_cols=86  Identities=7%  Similarity=0.014  Sum_probs=60.2

Q ss_pred             CchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhh
Q 006580          261 NLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLR  340 (640)
Q Consensus       261 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  340 (640)
                      .-++|..+-+.+...+-  ...+-..-+..+...|++++|..+.+.+.-||...|-+|..  .+.|..+++...+.++..
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   96 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGG   96 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            45666666666655543  33333344556778899999999999999999999988754  467888888888878877


Q ss_pred             CCCCCChhhHH
Q 006580          341 EDIRPTEFTLS  351 (640)
Q Consensus       341 ~~~~p~~~t~~  351 (640)
                      +| .|....|.
T Consensus        97 sg-~p~~q~Fa  106 (115)
T 2uwj_G           97 SS-DPALADFA  106 (115)
T ss_dssp             CS-SHHHHHHH
T ss_pred             CC-CHHHHHHH
Confidence            65 44444443

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=86.40  E-value=7.6  Score=30.75  Aligned_cols=73  Identities=4%  Similarity=-0.066  Sum_probs=47.0

Q ss_pred             CCChhHHHHHHHHHHhcCCh---HHHHHHHHhCC-CCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHH
Q 006580          480 MPGEEHYACIIDLLCQAGQL---GKAIDITSTMP-FQP--GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPY  552 (640)
Q Consensus       480 ~p~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  552 (640)
                      .|+..+--.+..++.++.+.   .+++.++++.. ..|  ....+-.|.-++.+.|++++|.++.+.+++.+|.|..+-
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA~  114 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVG  114 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHH
Confidence            34455544555555555533   24445555443 233  233555677788999999999999999999999886543

>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=86.38  E-value=3.9  Score=31.92  Aligned_cols=71  Identities=4%  Similarity=-0.047  Sum_probs=40.1

Q ss_pred             CChhHHHHHHHHHHhcCCh---HHHHHHHHhCC-CCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhH
Q 006580          481 PGEEHYACIIDLLCQAGQL---GKAIDITSTMP-FQP--GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLP  551 (640)
Q Consensus       481 p~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  551 (640)
                      |+..+--.+..++.++.+.   .+++.+++++. ..|  ....+-.|.-++.+.|+++.|.+..+.+++..|.|.-+
T Consensus        38 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           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  114 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHH
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHH
Confidence            3334433444444444432   23444444433 223  23455566667778888888888888888888877544

>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=85.86  E-value=6.1  Score=38.17  Aligned_cols=71  Identities=17%  Similarity=0.192  Sum_probs=54.2

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH----hhCCCCChhHH
Q 006580          415 WNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKE----EYGVMPGEEHY  486 (640)
Q Consensus       415 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~----~~~~~p~~~~~  486 (640)
                      ...++..+...|++++|+..+..+... -+-+...+..++.++...|+..+|.+.|+.+.+    ..|+.|+..+-
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            344566777888999998888888774 245777888888999999999999888887654    35888877654

>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=85.51  E-value=4.2  Score=29.80  Aligned_cols=62  Identities=23%  Similarity=0.299  Sum_probs=46.8

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHH
Q 006580          428 AAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIID  491 (640)
Q Consensus       428 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  491 (640)
                      .-+..+-++.+....+.|++......+++|-+.+++..|+++++.++.+  ..+...+|..+++
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K--~~~~~~iY~~~lq   87 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--hcCchhhHHHHHH
Confidence            4456666777777778899999999999999999999999999988775  3333456666654

>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=85.02  E-value=9.2  Score=27.88  Aligned_cols=73  Identities=12%  Similarity=-0.033  Sum_probs=38.1

Q ss_pred             CCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCCCChhhHHHHHHHHhcCCChhHHHHHh
Q 006580           28 FKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVF  104 (640)
Q Consensus        28 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~  104 (640)
                      ....++|..+-+.+...+.  ...+--.-+..+.+.|++++|..+.+...-||..+|-.|-.+  +.|--+++...+
T Consensus        20 ~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL   92 (116)
T 2p58_C           20 NHYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCEY--RLGLGSALESRL   92 (116)
T ss_dssp             TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHHH--HHTCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHH
Confidence            4456666666666666553  222222233344566666666666666666666665554442  334444444333

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=84.11  E-value=16  Score=32.88  Aligned_cols=115  Identities=6%  Similarity=-0.091  Sum_probs=51.8

Q ss_pred             HHHHhhhcCCChHHHHHHHhccCCCCee---eHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcch--HHHHHHHHhcc
Q 006580          185 SLIDMYGKLGVLYYAFGVFLNMEELDII---SWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYT--ISIVINACTKL  259 (640)
Q Consensus       185 ~li~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t--~~~ll~~~~~~  259 (640)
                      +.+...++.|+.+....+++.-...+..   .-.+.+...+..|+.+    +++.+.+.|..|+...  -.+.+...+..
T Consensus         7 ~~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~~g~t~L~~A~~~g~~~----~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~   82 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQQLLEGGANVNFQEEEGGWTPLHNAVQMSRED----IVELLLRHGADPVLRKKNGATPFLLAAIA   82 (285)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTTCCCHHHHHHHTTCHH----HHHHHHHTTCCTTCCCTTCCCHHHHHHHH
T ss_pred             hHHHHHHHcCCHHHHHHHHHcCCCcccccCCCCCcHHHHHHHcCCHH----HHHHHHHcCCCCcccCCCCCCHHHHHHHc
Confidence            3444455566666666666554332211   1112344445556644    3444444555444321  11223333344


Q ss_pred             CCchHHHHHHHHHHHhCCCCchhH--HHHHHHHHHhcCCHHHHHHHHHhc
Q 006580          260 RNLDKGKQVFALSVKVGFLSNSIV--LSATIDLFSKCNRLEDSVRLFEQL  307 (640)
Q Consensus       260 ~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~A~~~~~~~  307 (640)
                      |+.+    +++.+++.|..++...  ..+.+...+..|+.+-...+++.-
T Consensus        83 ~~~~----~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g  128 (285)
T 1wdy_A           83 GSVK----LLKLFLSKGADVNECDFYGFTAFMEAAVYGKVKALKFLYKRG  128 (285)
T ss_dssp             TCHH----HHHHHHHTTCCTTCBCTTCCBHHHHHHHTTCHHHHHHHHHTT
T ss_pred             CCHH----HHHHHHHcCCCCCccCcccCCHHHHHHHhCCHHHHHHHHHhC
Confidence            5543    4444455555443221  122334445666666666666553

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=83.59  E-value=19  Score=30.44  Aligned_cols=80  Identities=10%  Similarity=0.098  Sum_probs=39.0

Q ss_pred             CchhhHHHHHHHHHccCCchHHHHHHhcCCCCChhhHHHHHHHHhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCC
Q 006580           48 AHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLLKSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGY  127 (640)
Q Consensus        48 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~y~~li~~~~~~~~  127 (640)
                      ++..+....+..+.+.++.+....+.+.+..++...-...+.++.+.++.+..-.+.+.+..++...-...+.++.+.++
T Consensus        26 ~~~~vr~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~~L~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~  105 (201)
T 3ltj_A           26 DSYYVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDEDGWVRQSAAVALGQIGD  105 (201)
T ss_dssp             SCHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCC
T ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCc
Confidence            44444444445555555444444444444445555544555555555554444444444444555444445555554444

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=83.32  E-value=23  Score=40.01  Aligned_cols=166  Identities=9%  Similarity=0.026  Sum_probs=102.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChH
Q 006580          284 LSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVE  363 (640)
Q Consensus       284 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~  363 (640)
                      ...++..+.+.+..+.+.++..-.+. +...--.+..+|...|++++|.+.|.+... |+..+....         ....
T Consensus       815 ~~~l~~~l~~~~~~~~~~~l~~~~~~-~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~---------~~~~  883 (1139)
T 4fhn_B          815 VTELVEKLFLFKQYNACMQLIGWLNS-DPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQF---------AVLR  883 (1139)
T ss_dssp             HHHHHHHHHHHSCTTHHHHHHHHSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSC---------SSHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhccC-CcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhh---------hhhc
Confidence            34566677778888888776665544 444445667889999999999999987532 222111100         0000


Q ss_pred             HHHHHHHHHHHhC--CCCchHHHHHHHHHHHhcCChHHHHHHHHhCC----CCC----hhHHHHHHHHHHhCCChHHHHH
Q 006580          364 HGSQFHSMAIKSG--FDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD----KRD----LVSWNTIMMGLTQNGRAAETLD  433 (640)
Q Consensus       364 ~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~----~~~~~~li~~~~~~g~~~~a~~  433 (640)
                      .    +..+....  ...-..-|.-++..+.+.+.++.+.+.-....    ..+    ...|..+.+++...|++++|..
T Consensus       884 ~----~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~  959 (1139)
T 4fhn_B          884 E----FQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHV  959 (1139)
T ss_dssp             H----HHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGH
T ss_pred             c----cccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHH
Confidence            0    11111111  11123445667777888888777766554332    212    2268889999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHH
Q 006580          434 VFEELLEEGLPPDRITLAAVLLACNYGGFVDKG  466 (640)
Q Consensus       434 ~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A  466 (640)
                      .+-.+.....  -...+..|+..+|..|..+.-
T Consensus       960 aL~~~pd~~~--r~~cLr~LV~~lce~~~~~~L  990 (1139)
T 4fhn_B          960 ALMVLSTTPL--KKSCLLDFVNQLTKQGKINQL  990 (1139)
T ss_dssp             HHHHHHHSSS--CHHHHHHHHHHHHHHCCHHHH
T ss_pred             HHHhCCCHHH--HHHHHHHHHHHHHhCCChhhh
Confidence            9988876433  345677777777777665543

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=82.92  E-value=21  Score=30.46  Aligned_cols=18  Identities=11%  Similarity=-0.206  Sum_probs=7.0

Q ss_pred             CCeeeHHHHHHHHHhcCC
Q 006580          209 LDIISWNSLISGCFNSGY  226 (640)
Q Consensus       209 ~~~~~~~~li~~~~~~~~  226 (640)
                      ++..+-...+.++.+.+.
T Consensus       124 ~~~~vr~~a~~aL~~~~~  141 (211)
T 3ltm_A          124 EDWFVRIAAAFALGEIGD  141 (211)
T ss_dssp             SSHHHHHHHHHHHHHHCC
T ss_pred             CCHHHHHHHHHHHHHcCC
Confidence            333333333444444443

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=82.79  E-value=16  Score=30.91  Aligned_cols=83  Identities=8%  Similarity=0.048  Sum_probs=57.3

Q ss_pred             HHHHHHHHhCC-CCCCHHHHHHHHHHHHH--cCChHHHHHHHHHHHhcC--CCChhHHHHHHHHHHhcCChHHHHHHHHH
Q 006580          500 GKAIDITSTMP-FQPGCSIWESILRASAI--YGDVKLTENVAERMMDLQ--LPSPLPYSLLTQAYAMRGRWEAIVRVKKV  574 (640)
Q Consensus       500 ~~A~~~~~~~~-~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  574 (640)
                      +++.+.|.... .+.|+..+..-+.....  .++...+..+|..|...+  ..-+..|...+..+...|++++|.++++.
T Consensus        61 Erc~~~F~~~~rYkND~RYLklWl~Ya~~~~~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~  140 (202)
T 3esl_A           61 ERCLIYIQDMETYRNDPRFLKIWIWYINLFLSNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLEL  140 (202)
T ss_dssp             HHHHHHHTTCGGGTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhcccccccCCHHHHHHHHHHHHhhcccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            34444454444 56666544433333222  455778889999988774  47778899999999999999999999998


Q ss_pred             HHhCCCcc
Q 006580          575 MRKNGINK  582 (640)
Q Consensus       575 m~~~~~~~  582 (640)
                      =.+++-.|
T Consensus       141 GI~~~A~P  148 (202)
T 3esl_A          141 GAENNCRP  148 (202)
T ss_dssp             HHHTTCBS
T ss_pred             HHHcCCcc
Confidence            77766433

>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=82.72  E-value=35  Score=32.75  Aligned_cols=27  Identities=7%  Similarity=0.111  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 006580          283 VLSATIDLFSKCNRLEDSVRLFEQLDR  309 (640)
Q Consensus       283 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  309 (640)
                      ....|...|.+.|+.++..+++.....
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~~~   47 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVTRP   47 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345677888888888888888877654

>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=81.57  E-value=13  Score=27.20  Aligned_cols=46  Identities=22%  Similarity=0.233  Sum_probs=37.3

Q ss_pred             CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHH
Q 006580          511 FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLT  556 (640)
Q Consensus       511 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  556 (640)
                      .-|++.+..+.+.+|++.+|+..|.++++-+...-.+...+|..++
T Consensus        41 lVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~l   86 (109)
T 1v54_E           41 LVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVI   86 (109)
T ss_dssp             BCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             cCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHHH
Confidence            6889999999999999999999999999988877544445566554

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=81.24  E-value=19  Score=40.63  Aligned_cols=51  Identities=14%  Similarity=0.035  Sum_probs=24.6

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHh
Q 006580          418 IMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAM  473 (640)
Q Consensus       418 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~  473 (640)
                      ++..+...+.++.+.++...     ++.+...--.+..++...|++++|.++|++.
T Consensus       818 l~~~l~~~~~~~~~~~l~~~-----~~~~~~~~yl~g~~~L~~ge~~~A~~~F~ka  868 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGW-----LNSDPIAVYLKALIYLKSKEAVKAVRCFKTT  868 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHH-----SCCCHHHHHHHHHHHHHTTCHHHHHHHHHTC
T ss_pred             HHHHHHHhhhHHHHHHHhhh-----ccCCcHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            44455555555555443321     1223322223344555666666666666554

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=81.23  E-value=2.5  Score=37.71  Aligned_cols=58  Identities=19%  Similarity=0.200  Sum_probs=41.5

Q ss_pred             HHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCh
Q 006580          492 LLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSP  549 (640)
Q Consensus       492 ~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  549 (640)
                      .+.+.|.+++|++.+..-. ..| |...-..|+..+|-.|++++|..-++...+++|...
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~   65 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYL   65 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhh
Confidence            4556777777777666544 444 677777777788888888888888888888877543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=80.70  E-value=45  Score=32.72  Aligned_cols=184  Identities=11%  Similarity=0.091  Sum_probs=109.2

Q ss_pred             CChHHHHHHHHHHhhC-----CCCCChhhHHHHHhhCCC-CChHHHHHHHHHHHHh-CCCCch--HHHHHHHHHHHhcCC
Q 006580          326 GFGEVALELFQLMLRE-----DIRPTEFTLSCVLSSIPI-PPVEHGSQFHSMAIKS-GFDSNA--VVASSLMEMYAKTGS  396 (640)
Q Consensus       326 ~~~~~a~~~~~~m~~~-----~~~p~~~t~~~~l~~~~~-~~~~~a~~~~~~~~~~-~~~~~~--~~~~~l~~~~~~~g~  396 (640)
                      |+++.|++.+-.+.+.     +..........++..|.. ++++.....+..+.+. |..+..  ...+.++........
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~  109 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKS  109 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCc
Confidence            6788888887666542     234445556677777777 8888877766655543 222111  111222333333333


Q ss_pred             hH--HHHHHHHhCCC---C-------ChhHHHHHHHHHHhCCChHHHHHHHHHHHHC--CCCCCH---HHHHHHHHHHhc
Q 006580          397 ID--SSTEIFVKLDK---R-------DLVSWNTIMMGLTQNGRAAETLDVFEELLEE--GLPPDR---ITLAAVLLACNY  459 (640)
Q Consensus       397 ~~--~A~~~~~~~~~---~-------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~~---~~~~~ll~~~~~  459 (640)
                      .+  .-..+......   .       .......|...+...|++.+|..++..+...  |..+..   ..+..-++.|..
T Consensus       110 ~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~  189 (445)
T 4b4t_P          110 LDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSIL  189 (445)
T ss_dssp             THHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH
Confidence            22  22333333331   1       1123356777888899999999999988752  222221   245566778888


Q ss_pred             cCCHHHHHHHHHHhHHhh-CCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhC
Q 006580          460 GGFVDKGMLVFSAMKEEY-GVMPG----EEHYACIIDLLCQAGQLGKAIDITSTM  509 (640)
Q Consensus       460 ~~~~~~A~~~~~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~  509 (640)
                      .+++.+|..++.++.... ...++    ...+...+..+...+++.+|-+.|.++
T Consensus       190 ~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          190 KGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            999999999988875321 22222    235666777778888888887766554

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	640
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.91
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.9
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.58
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.51
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.16
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.05
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.01
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.0
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.99
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.98
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.95
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.93
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.84
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.78
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.73
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.71
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.66
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.63
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.56
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.55
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.55
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.55
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.52
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.49
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.48
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.42
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.4
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.37
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.37
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.32
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.32
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.24
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.24
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.19
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.19
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.14
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.11
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.96
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.93
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.93
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.88
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.85
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.79
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.76
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.72
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.7
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.69
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.58
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.53
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.46
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.45
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.39
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.23
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.14
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.98
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.6
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.14
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.61
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.43
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.47
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.1
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.46
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	84.56
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	80.11

>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=99.91  E-value=4e-21  Score=189.91  Aligned_cols=372  Identities=10%  Similarity=-0.006  Sum_probs=269.7

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhchhHHHHHHHHHHHhCCCCCchhHHHHHHHhhhcCCChH
Q 006580          118 MISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVSSACHGKQIHGSMIRSGLSLSNVVLGNSLIDMYGKLGVLY  197 (640)
Q Consensus       118 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  197 (640)
                      +...+.+.|++++|++.++++.+.                                  .|.+...+..+..+|.+.|+++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~----------------------------------~p~~~~~~~~la~~~~~~~~~~   50 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQ----------------------------------EPDNTGVLLLLSSIHFQCRRLD   50 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH----------------------------------CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh----------------------------------CCCCHHHHHHHHHHHHHcCCHH
Confidence            345566778888888888887765                                  5556777777778888888888


Q ss_pred             HHHHHHhccC--CC-CeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHH
Q 006580          198 YAFGVFLNME--EL-DIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVK  274 (640)
Q Consensus       198 ~A~~~~~~~~--~~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  274 (640)
                      +|...|+...  .| +..+|..+...+.+.|++++|+..+........ .+..............+....+.........
T Consensus        51 ~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  129 (388)
T d1w3ba_          51 RSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKP-DFIDGYINLAAALVAAGDMEGAVQAYVSALQ  129 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHSCSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHhhhhcccccccccccccccccc-ccccccccccccccccccccccccccccccc
Confidence            8888887765  23 455677777778888888888888877766432 2233333334444444555555444444444


Q ss_pred             hCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHH
Q 006580          275 VGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLS  351 (640)
Q Consensus       275 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~  351 (640)
                      ... ................+....+...+.....   .+...+..+...+...|++++|...+.+..+           
T Consensus       130 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~-----------  197 (388)
T d1w3ba_         130 YNP-DLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVT-----------  197 (388)
T ss_dssp             HCT-TCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH-----------
T ss_pred             ccc-ccccccccccccccccchhhhhHHHHHHhhccCcchhHHHHhhcccccccCcHHHHHHHHHHHHH-----------
Confidence            332 2333333444445555555555555444332   2334455555555556666666655555443           


Q ss_pred             HHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCCh
Q 006580          352 CVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRA  428 (640)
Q Consensus       352 ~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~  428 (640)
                                             .. |.+...+..+...+...|++++|...+....   ..+...+..+...+.+.|++
T Consensus       198 -----------------------~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  253 (388)
T d1w3ba_         198 -----------------------LD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLI  253 (388)
T ss_dssp             -----------------------HC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             -----------------------hC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCH
Confidence                                   22 3345566778888899999999999988776   34667788888999999999


Q ss_pred             HHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHH
Q 006580          429 AETLDVFEELLEEGLPPD-RITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITS  507 (640)
Q Consensus       429 ~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  507 (640)
                      ++|+..|++..+.  .|+ ..++..+...+...|++++|++.++....  ..+.+...+..+...+.+.|++++|++.++
T Consensus       254 ~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  329 (388)
T d1w3ba_         254 DLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYR  329 (388)
T ss_dssp             HHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhc--cCCccchhhhHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999984  454 56888889999999999999999998876  445677888899999999999999999999


Q ss_pred             hCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCC
Q 006580          508 TMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGR  564 (640)
Q Consensus       508 ~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  564 (640)
                      +.. ..| +..++..+...+...|++++|...++++++++|.++.+|..|+.+|.+.|+
T Consensus       330 ~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         330 KALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            976 566 678899999999999999999999999999999999999999999998875

>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=99.90  E-value=3.2e-20  Score=183.28  Aligned_cols=356  Identities=13%  Similarity=0.070  Sum_probs=277.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC
Q 006580          217 LISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNR  296 (640)
Q Consensus       217 li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  296 (640)
                      +...+.+.|++++|++.++++.+.. +-+...+..+...+...|++++|...++.+++.. +.+..++..+..+|.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            3455677788888888888887642 2234567777777888888888888888887765 2355677888888888888


Q ss_pred             HHHHHHHHHhcCCC---ChhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHH
Q 006580          297 LEDSVRLFEQLDRW---DYAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAI  373 (640)
Q Consensus       297 ~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~  373 (640)
                      +++|+..+....+.   +...+..........+....+............................+....+...+....
T Consensus        83 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhh
Confidence            88888888777642   333444444555555666666666655555444444444333333333366667766666666


Q ss_pred             HhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCC--C-CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHH
Q 006580          374 KSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLD--K-RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITL  450 (640)
Q Consensus       374 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  450 (640)
                      ... +.+...+..+...+...|++++|...+.+..  . .+...|..+...+...|++++|+..+++....+ +.+...+
T Consensus       163 ~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  240 (388)
T d1w3ba_         163 ETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVH  240 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHH
T ss_pred             ccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHH
Confidence            554 4556777888899999999999999998876  3 356788999999999999999999999998853 4456677


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHc
Q 006580          451 AAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIY  528 (640)
Q Consensus       451 ~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~  528 (640)
                      ..+...+.+.|++++|+..|++..+.  .+-+...+..+...+...|++++|.+.++...  .+.+...+..+...+...
T Consensus       241 ~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  318 (388)
T d1w3ba_         241 GNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQ  318 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHC
Confidence            88888999999999999999998863  34457789999999999999999999999876  555888999999999999


Q ss_pred             CChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          529 GDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       529 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      |++++|+..++++++.+|.++.++..++.+|.+.|++++|.+.+++..+.
T Consensus       319 ~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  368 (388)
T d1w3ba_         319 GNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             TCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999998864

>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=99.58  E-value=1.9e-13  Score=130.39  Aligned_cols=224  Identities=13%  Similarity=0.022  Sum_probs=171.5

Q ss_pred             HHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCh
Q 006580          318 MISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSI  397 (640)
Q Consensus       318 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  397 (640)
                      ....+.+.|++++|+..|++..+.  .|                                 .+...+..+..+|...|++
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~--~P---------------------------------~~~~a~~~lg~~~~~~~~~   69 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQ--DP---------------------------------KHMEAWQYLGTTQAENEQE   69 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHS--CT---------------------------------TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CC---------------------------------CCHHHHHHHHHHHHHcCCh
Confidence            445567778888888888877764  23                                 2344556677777778888


Q ss_pred             HHHHHHHHhCC--C-CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHH----------------HHHHHHHHh
Q 006580          398 DSSTEIFVKLD--K-RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRIT----------------LAAVLLACN  458 (640)
Q Consensus       398 ~~A~~~~~~~~--~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~----------------~~~ll~~~~  458 (640)
                      ++|...|.+..  . .+...|..+...|...|++++|.+.+++....  .|+...                ....+..+.
T Consensus        70 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (323)
T d1fcha_          70 LLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRY--TPAYAHLVTPAEEGAGGAGLGPSKRILGSLL  147 (323)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--STTTGGGCC---------------CTTHHHH
T ss_pred             HHHHHHHHhhhccccccccccccccccccccccccccccchhhHHHh--ccchHHHHHhhhhhhhhcccccchhhHHHHH
Confidence            88888777765  2 35667777778888888888888888887763  232110                111122233


Q ss_pred             ccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHH
Q 006580          459 YGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTEN  536 (640)
Q Consensus       459 ~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~  536 (640)
                      ..+.+.+|...+....+.....++...+..+...+...|++++|+..+++.. ..| +..+|..+...+...|++++|.+
T Consensus       148 ~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~  227 (323)
T d1fcha_         148 SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVA  227 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHH
Confidence            4456778888888877653344567788889999999999999999999976 444 68899999999999999999999


Q ss_pred             HHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          537 VAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       537 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      .++++++.+|.++.+|..++.+|.+.|++++|++.+++..+.
T Consensus       228 ~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         228 AYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999998874

>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=99.51  E-value=1.2e-12  Score=124.73  Aligned_cols=266  Identities=14%  Similarity=0.019  Sum_probs=175.1

Q ss_pred             HHHHHHhccCCchHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHhCCC
Q 006580          251 IVINACTKLRNLDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDR---WDYAVINVMISTYGRYGF  327 (640)
Q Consensus       251 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~  327 (640)
                      .....+.+.|++++|...|+.+++.. +.+...+..+..+|...|++++|...|++..+   .+...|..+...|...|+
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccccccccccccccccccccc
Confidence            34445667777777777777777654 22455666677777777777777777766543   344556666666667777


Q ss_pred             hHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhC
Q 006580          328 GEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKL  407 (640)
Q Consensus       328 ~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  407 (640)
                      +++|.+.++.....  .|+....                                 ........ .              
T Consensus       103 ~~~A~~~~~~~~~~--~~~~~~~---------------------------------~~~~~~~~-~--------------  132 (323)
T d1fcha_         103 QRQACEILRDWLRY--TPAYAHL---------------------------------VTPAEEGA-G--------------  132 (323)
T ss_dssp             HHHHHHHHHHHHHT--STTTGGG---------------------------------CC----------------------
T ss_pred             ccccccchhhHHHh--ccchHHH---------------------------------HHhhhhhh-h--------------
Confidence            77777666665542  2221110                                 00000000 0              


Q ss_pred             CCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHH
Q 006580          408 DKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEG-LPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHY  486 (640)
Q Consensus       408 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~  486 (640)
                       ..+.......+..+...+.+.+|.+.+.+..+.. -.++...+..+...+...|++++|+..++.....  .+-+...|
T Consensus       133 -~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~  209 (323)
T d1fcha_         133 -GAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLW  209 (323)
T ss_dssp             ---------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             -hcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccch
Confidence             0001111112223344566778888888887632 2334567778888899999999999999998764  23357788


Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChh-----------HHH
Q 006580          487 ACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPL-----------PYS  553 (640)
Q Consensus       487 ~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-----------~~~  553 (640)
                      ..+...|.+.|++++|.+.++++. ..| +..+|..++.+|...|++++|+..|+++++++|.+..           .|.
T Consensus       210 ~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~  289 (323)
T d1fcha_         210 NKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWS  289 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHH
T ss_pred             hhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHH
Confidence            899999999999999999999876 455 6888999999999999999999999999999886654           345


Q ss_pred             HHHHHHHhcCChHHHHH
Q 006580          554 LLTQAYAMRGRWEAIVR  570 (640)
Q Consensus       554 ~l~~~~~~~g~~~~a~~  570 (640)
                      .+..++...|+.+.+..
T Consensus       290 ~l~~al~~~~~~d~~~~  306 (323)
T d1fcha_         290 TLRLALSMLGQSDAYGA  306 (323)
T ss_dssp             HHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHHcCCHHHHHH
Confidence            56666666676655443

>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=99.16  E-value=5.2e-09  Score=100.31  Aligned_cols=194  Identities=16%  Similarity=0.023  Sum_probs=136.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCC-------CC----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCC----CCCHHH
Q 006580          385 SSLMEMYAKTGSIDSSTEIFVKLD-------KR----DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGL----PPDRIT  449 (640)
Q Consensus       385 ~~l~~~~~~~g~~~~A~~~~~~~~-------~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~----~p~~~~  449 (640)
                      ..+...+...|++..+...+....       .+    ....+..+...+...|+++.+...+........    .....+
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            344555666677776666665443       11    122455666778888999999999888876321    222345


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC-----hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-----CHHHH
Q 006580          450 LAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG-----EEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-----GCSIW  518 (640)
Q Consensus       450 ~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-----~~~~~  518 (640)
                      +......+...++...+...+............     ...+..+...+...|++++|...++... ..|     ....+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence            555666777888898888888776553222221     2245566677889999999999998876 222     24566


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhc------CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          519 ESILRASAIYGDVKLTENVAERMMDL------QLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       519 ~~l~~~~~~~~~~~~a~~~~~~~~~~------~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      ..+...+...|++++|...+++++..      .|.....+..++.+|...|++++|.+.+++..+.
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l  320 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  320 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            77888999999999999999998754      3455677889999999999999999999987653

>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=99.05  E-value=4.2e-09  Score=98.55  Aligned_cols=194  Identities=7%  Similarity=0.035  Sum_probs=152.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHhCC--CC-ChhHHHHHHHHHHhCC-ChHHHHHHHHHHHHCCCCCC-HHHHHHHHHH
Q 006580          382 VVASSLMEMYAKTGSIDSSTEIFVKLD--KR-DLVSWNTIMMGLTQNG-RAAETLDVFEELLEEGLPPD-RITLAAVLLA  456 (640)
Q Consensus       382 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~  456 (640)
                      ..++-+...+.+.+..++|+.+++++.  .| +...|+....++...| ++++|+..+++..+.  .|+ ..+|..+...
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~--~p~~~~a~~~~~~~  121 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--HHhhhhHHHHHhHH
Confidence            344556667778888999999998887  34 5667888888888776 489999999998884  454 5688888888


Q ss_pred             HhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCC----
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGD----  530 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~----  530 (640)
                      +.+.|++++|+..++.+.+.  -+.+...|..+...+.+.|++++|++.++++. ..| +...|+.+...+...+.    
T Consensus       122 ~~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHhhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchh
Confidence            88999999999999998864  34457788889999999999999999998887 455 77888887777666554    


Q ss_pred             --hHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          531 --VKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       531 --~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                        +++|++.+.++++.+|.+...|..++.++...| .+++.+.++...+...
T Consensus       200 ~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l~~  250 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRG-LSKYPNLLNQLLDLQP  250 (315)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHHTT
T ss_pred             hhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHhCC
Confidence              678999999999999999999998888766544 5778888887776543

>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=99.01  E-value=1.4e-08  Score=94.83  Aligned_cols=221  Identities=11%  Similarity=0.133  Sum_probs=157.3

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh
Q 006580          314 VINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAK  393 (640)
Q Consensus       314 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  393 (640)
                      .++.+...+.+.+.+++|+++++++.+.  .|+..                                 ..|+....++..
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~l--nP~~~---------------------------------~a~~~r~~~l~~   89 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIEL--NAANY---------------------------------TVWHFRRVLLKS   89 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCH---------------------------------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHH--CCCCh---------------------------------HHHHHHHHHHHH
Confidence            4556666777888888999888888873  44443                                 334555556666


Q ss_pred             cC-ChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 006580          394 TG-SIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLV  469 (640)
Q Consensus       394 ~g-~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~  469 (640)
                      .| ++++|...++...   ..+..+|+.+...+.+.|++++|++.++++.+.. +-+...|..+...+...|++++|++.
T Consensus        90 l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~  168 (315)
T d2h6fa1          90 LQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQY  168 (315)
T ss_dssp             TTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHH
T ss_pred             hCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHH
Confidence            55 4788888887765   3467788888888888899999999999998842 33466888888888888999999999


Q ss_pred             HHHhHHhhCCCCChhHHHHHHHHHHhcCC------hHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 006580          470 FSAMKEEYGVMPGEEHYACIIDLLCQAGQ------LGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERM  541 (640)
Q Consensus       470 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~------~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~  541 (640)
                      ++.+.+.  -+-+...|+.+..++.+.+.      +++|++.+.++. ..| +...|..+...+. ....+++.+.++++
T Consensus       169 ~~~al~~--~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~  245 (315)
T d2h6fa1         169 VDQLLKE--DVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQ-DRGLSKYPNLLNQL  245 (315)
T ss_dssp             HHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHT-TTCGGGCHHHHHHH
T ss_pred             HHHHHHH--CCccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHH-hcChHHHHHHHHHH
Confidence            9988864  23345667777666666665      578888887765 455 7888888877654 44568888999999


Q ss_pred             HhcCC--CChhHHHHHHHHHHhc--CChHHHHHHHH
Q 006580          542 MDLQL--PSPLPYSLLTQAYAMR--GRWEAIVRVKK  573 (640)
Q Consensus       542 ~~~~p--~~~~~~~~l~~~~~~~--g~~~~a~~~~~  573 (640)
                      +++.|  .++..+..++.+|...  +..+.+...++
T Consensus       246 ~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~  281 (315)
T d2h6fa1         246 LDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILN  281 (315)
T ss_dssp             HHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHH
T ss_pred             HHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            88877  4555667777777543  44333444333

>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=99.00  E-value=6.5e-08  Score=92.35  Aligned_cols=257  Identities=8%  Similarity=-0.068  Sum_probs=156.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCC-----CC----hhhHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHH
Q 006580          284 LSATIDLFSKCNRLEDSVRLFEQLDR-----WD----YAVINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVL  354 (640)
Q Consensus       284 ~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l  354 (640)
                      +..+..+|...|++++|...|++..+     ++    ..++..+...+...|++..+...+.......            
T Consensus        54 ~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~------------  121 (366)
T d1hz4a_          54 TSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLI------------  121 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH------------
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh------------
Confidence            34444555555555555555554432     11    1234445566667777777777766654310            


Q ss_pred             hhCCCCChHHHHHHHHHHHHhCCC--C-chHHHHHHHHHHHhcCChHHHHHHHHhCCC--------CChhHHHHHHHHHH
Q 006580          355 SSIPIPPVEHGSQFHSMAIKSGFD--S-NAVVASSLMEMYAKTGSIDSSTEIFVKLDK--------RDLVSWNTIMMGLT  423 (640)
Q Consensus       355 ~~~~~~~~~~a~~~~~~~~~~~~~--~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~  423 (640)
                                        ...+.+  + ....+..+...+...|+++.+...+.....        .....+..+...+.
T Consensus       122 ------------------~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (366)
T d1hz4a_         122 ------------------NEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSL  183 (366)
T ss_dssp             ------------------HHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHH
T ss_pred             ------------------HhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHH
Confidence                              000000  0 112334456677778888888777766541        12334555666777


Q ss_pred             hCCChHHHHHHHHHHHHC--CCCCCH----HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCC--CChhHHHHHHHHHHh
Q 006580          424 QNGRAAETLDVFEELLEE--GLPPDR----ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVM--PGEEHYACIIDLLCQ  495 (640)
Q Consensus       424 ~~g~~~~a~~~~~~m~~~--g~~p~~----~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~--p~~~~~~~l~~~~~~  495 (640)
                      ..++...+...+.+....  ......    ..+..+...+...|++++|...++.........  .....+..+...+..
T Consensus       184 ~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~  263 (366)
T d1hz4a_         184 ARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQIL  263 (366)
T ss_dssp             HHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHH
Confidence            788888888887766551  111111    234555566778899999999988765431111  113355667888899


Q ss_pred             cCChHHHHHHHHhCC-------CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC---------ChhHHHHHHHH
Q 006580          496 AGQLGKAIDITSTMP-------FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLP---------SPLPYSLLTQA  558 (640)
Q Consensus       496 ~g~~~~A~~~~~~~~-------~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~---------~~~~~~~l~~~  558 (640)
                      .|++++|.+.++++.       ..| ...++..+...+...|++++|.+.+++++++.+.         ....+..+...
T Consensus       264 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~  343 (366)
T d1hz4a_         264 LGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQ  343 (366)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHH
Confidence            999999999888764       223 2457788889999999999999999999887331         12234445555


Q ss_pred             HHhcCChHHHHH
Q 006580          559 YAMRGRWEAIVR  570 (640)
Q Consensus       559 ~~~~g~~~~a~~  570 (640)
                      +...|+.+++.+
T Consensus       344 l~~~~~l~e~e~  355 (366)
T d1hz4a_         344 LIQLNTLPELEQ  355 (366)
T ss_dssp             HHHTTCSCHHHH
T ss_pred             HHhcCCChHHHH
Confidence            666677776654

>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=98.99  E-value=4.5e-08  Score=91.31  Aligned_cols=182  Identities=10%  Similarity=0.052  Sum_probs=139.1

Q ss_pred             ChHHHHHHHHhCC----CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 006580          396 SIDSSTEIFVKLD----KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFS  471 (640)
Q Consensus       396 ~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~  471 (640)
                      ..++|..+|++..    ..+...|...+..+...|+++.|..+|+++++.........|...+..+.+.|+.+.|.++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            4567778887754    235567888888888999999999999999874322224467888888888999999999999


Q ss_pred             HhHHhhCCCCChhHHHHHHHH-HHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 006580          472 AMKEEYGVMPGEEHYACIIDL-LCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPS  548 (640)
Q Consensus       472 ~~~~~~~~~p~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  548 (640)
                      .+.+.  .+.+...|...... +...|+.+.|..+|+.+.  .+.++..|...+..+...|+.+.|..+|++++...|.+
T Consensus       159 ~al~~--~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         159 KARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHHTS--TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHHh--CCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            88753  23344445444443 344688999999999887  44578899999999999999999999999999987644


Q ss_pred             h----hHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          549 P----LPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       549 ~----~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      +    ..|...+..-...|+.+.+.++.+++.+.-
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~  271 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  271 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            3    467777777778899999999999887643

>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=98.98  E-value=3.2e-09  Score=96.71  Aligned_cols=194  Identities=13%  Similarity=0.022  Sum_probs=125.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHH
Q 006580          382 VVASSLMEMYAKTGSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPD-RITLAAVLLAC  457 (640)
Q Consensus       382 ~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~  457 (640)
                      .++..+..+|.+.|++++|...|++..   ..++.+|+.+..++...|++++|++.|++..+.  .|+ ..++..+..++
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            345566778888888888888888776   246778888888888888888888888888884  444 45677777888


Q ss_pred             hccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCCHHHHHHHHHHHH----HcCChH
Q 006580          458 NYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQPGCSIWESILRASA----IYGDVK  532 (640)
Q Consensus       458 ~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~----~~~~~~  532 (640)
                      ...|++++|...++...+. . +.+......+...+.+.+..+.+..+..... ..++...++. +..+.    ..+..+
T Consensus       116 ~~~g~~~~A~~~~~~al~~-~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  192 (259)
T d1xnfa_         116 YYGGRDKLAQDDLLAFYQD-D-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNI-VEFYLGNISEQTLME  192 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHH-HHHHTTSSCHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHhh-c-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhhH-HHHHHHHHHHHHHHH
Confidence            8888888888888888764 2 2334444344444555555444444433322 1222212221 11111    112334


Q ss_pred             HHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006580          533 LTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       533 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  580 (640)
                      .+...+.......|....+|..++.+|...|++++|.+.+++..+..+
T Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  240 (259)
T d1xnfa_         193 RLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  240 (259)
T ss_dssp             HHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            444444444444566666788888888888999999998888876543

>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=98.95  E-value=1.9e-09  Score=102.46  Aligned_cols=227  Identities=8%  Similarity=-0.068  Sum_probs=155.9

Q ss_pred             CChHHHHHHHHHHhhCCCCCChh-hHHHHHhh--CCC-CChHHHHHHHHHHHHhCCCCchHH-HHHHHHHHHhcCChHHH
Q 006580          326 GFGEVALELFQLMLREDIRPTEF-TLSCVLSS--IPI-PPVEHGSQFHSMAIKSGFDSNAVV-ASSLMEMYAKTGSIDSS  400 (640)
Q Consensus       326 ~~~~~a~~~~~~m~~~~~~p~~~-t~~~~l~~--~~~-~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A  400 (640)
                      |++++|+..++...+.  .|+.. .+......  ... ++.+.+...+..+.+... ++... +......+...+..++|
T Consensus        87 ~~~~~al~~~~~~l~~--~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~~A  163 (334)
T d1dcea1          87 ALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEE  163 (334)
T ss_dssp             HHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHh--CCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccHHH
Confidence            3455666666666553  33322 22222111  222 556677777766666542 33333 34455677788999999


Q ss_pred             HHHHHhCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhh
Q 006580          401 TEIFVKLDK---RDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEY  477 (640)
Q Consensus       401 ~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~  477 (640)
                      ...++...+   .+...|+.+...+...|++++|...+.+....  .|+..   .+...+...+..+++...+.....  
T Consensus       164 l~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~---~~~~~~~~l~~~~~a~~~~~~~l~--  236 (334)
T d1dcea1         164 LAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKEL---ELVQNAFFTDPNDQSAWFYHRWLL--  236 (334)
T ss_dssp             HHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHHH---HHHHHHHHHCSSCSHHHHHHHHHH--
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHHH---HHHHHHHHhcchhHHHHHHHHHHH--
Confidence            999998884   36778888889999999988887666554442  22222   223334455666677777777665  


Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHH
Q 006580          478 GVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLL  555 (640)
Q Consensus       478 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  555 (640)
                      .-+++...+..++..+...|+.++|...+.+.. ..| +..+|..++..+...|++++|...++++++++|.+...|..|
T Consensus       237 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L  316 (334)
T d1dcea1         237 GRAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDL  316 (334)
T ss_dssp             SCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             hCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHH
Confidence            334555566677778888899999999998876 455 566888899999999999999999999999999999999999


Q ss_pred             HHHHHhc
Q 006580          556 TQAYAMR  562 (640)
Q Consensus       556 ~~~~~~~  562 (640)
                      ...+.-.
T Consensus       317 ~~~~~~e  323 (334)
T d1dcea1         317 RSKFLLE  323 (334)
T ss_dssp             HHHHHHH
T ss_pred             HHHHhHh
Confidence            8877753

>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=98.93  E-value=7.6e-09  Score=94.11  Aligned_cols=201  Identities=11%  Similarity=0.032  Sum_probs=131.1

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHhhCCCCCChhhHHHHHhhCCCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh
Q 006580          314 VINVMISTYGRYGFGEVALELFQLMLREDIRPTEFTLSCVLSSIPIPPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAK  393 (640)
Q Consensus       314 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  393 (640)
                      +|..+...|.+.|++++|+..|++..+.  .                                 |.++.++..+..+|.+
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l--~---------------------------------p~~~~a~~~lg~~~~~   83 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAI--R---------------------------------PDMPEVFNYLGIYLTQ   83 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--C---------------------------------CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhcc--C---------------------------------CCCHHHHhhhchHHHH
Confidence            4555666777777777777777777653  2                                 3345567788889999


Q ss_pred             cCChHHHHHHHHhCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 006580          394 TGSIDSSTEIFVKLD--KR-DLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVF  470 (640)
Q Consensus       394 ~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~  470 (640)
                      .|++++|...|+++.  .| +..++..+..++...|++++|++.|++..+.. +.+......+..++.+.+..+.+..+.
T Consensus        84 ~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (259)
T d1xnfa_          84 AGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLK  162 (259)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            999999999998887  33 56688888999999999999999999998852 233444434444455555555555555


Q ss_pred             HHhHHhhCCCCChhHHHHHHHHHHhcCC----hHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 006580          471 SAMKEEYGVMPGEEHYACIIDLLCQAGQ----LGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDL  544 (640)
Q Consensus       471 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~----~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  544 (640)
                      ......   .++...+. ++..+.....    .+.+...+.... ..| ...+|..+...+...|++++|...++++++.
T Consensus       163 ~~~~~~---~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         163 QHFEKS---DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             HHHHHS---CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHhhcc---chhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            544332   22222222 2222222222    222222221111 223 2346778889999999999999999999999


Q ss_pred             CCCChhHHHH
Q 006580          545 QLPSPLPYSL  554 (640)
Q Consensus       545 ~p~~~~~~~~  554 (640)
                      +|++...|..
T Consensus       239 ~p~~~~~~~~  248 (259)
T d1xnfa_         239 NVHNFVEHRY  248 (259)
T ss_dssp             CCTTCHHHHH
T ss_pred             CCCCHHHHHH
Confidence            9988665543

>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=98.84  E-value=1.4e-07  Score=87.83  Aligned_cols=185  Identities=12%  Similarity=0.093  Sum_probs=144.8

Q ss_pred             hHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCC--C-C-hhHHHHHHHHHHhCCChHHHHHHHHH
Q 006580          362 VEHGSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDK--R-D-LVSWNTIMMGLTQNGRAAETLDVFEE  437 (640)
Q Consensus       362 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~-~~~~~~li~~~~~~g~~~~a~~~~~~  437 (640)
                      .+.+..+++..++...+.+...+...+..+.+.|+++.|..+|+++..  | + ...|...+....+.|+.+.|.++|++
T Consensus        80 ~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~  159 (308)
T d2onda1          80 SDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  159 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            455666666666554555666777888888999999999999998763  3 2 34788999999999999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHH-HhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC----CC
Q 006580          438 LLEEGLPPDRITLAAVLLA-CNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP----FQ  512 (640)
Q Consensus       438 m~~~g~~p~~~~~~~ll~~-~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~  512 (640)
                      +.+.+ +.+...|...... +...|+.+.|..+|+.+.+.  .+.+...|...++.+.+.|++++|..+|++..    ..
T Consensus       160 al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         160 AREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            99864 3334444443332 34568999999999999875  34567889999999999999999999999864    23


Q ss_pred             C--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCh
Q 006580          513 P--GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSP  549 (640)
Q Consensus       513 ~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  549 (640)
                      |  ....|...+..-..+|+.+.+..+++++.+..|...
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~  275 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEY  275 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTT
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcccc
Confidence            3  246899999988999999999999999999887553

>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=98.78  E-value=6.4e-09  Score=98.68  Aligned_cols=244  Identities=10%  Similarity=-0.036  Sum_probs=162.8

Q ss_pred             CChHHHHHHHHHHhhCCCCCChhhHH----HHHhhCC-------C-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh
Q 006580          326 GFGEVALELFQLMLREDIRPTEFTLS----CVLSSIP-------I-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAK  393 (640)
Q Consensus       326 ~~~~~a~~~~~~m~~~~~~p~~~t~~----~~l~~~~-------~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  393 (640)
                      +..++|++++.+..+  ..|+..+.-    .++..+.       . +.++.+..+++.+.+.. |.+...+..+..++..
T Consensus        43 ~~~~~al~~~~~~l~--~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~  119 (334)
T d1dcea1          43 ELDESVLELTSQILG--ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSR  119 (334)
T ss_dssp             CCSHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             cccHHHHHHHHHHHH--HCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHH
Confidence            334677777776665  355554321    1111111       1 34667777777777764 4455666666666666


Q ss_pred             cC--ChHHHHHHHHhCC---CCChhHHHH-HHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHH
Q 006580          394 TG--SIDSSTEIFVKLD---KRDLVSWNT-IMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGM  467 (640)
Q Consensus       394 ~g--~~~~A~~~~~~~~---~~~~~~~~~-li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~  467 (640)
                      .+  ++++|...+.++.   .++...+.. ....+...+.+++|+..++++.+.. +-+...|..+...+...|++++|.
T Consensus       120 ~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~  198 (334)
T d1dcea1         120 LPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSG  198 (334)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             hccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHH
Confidence            54  4778888888775   234555443 3456667788888888888887742 234557777777788888877776


Q ss_pred             HHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 006580          468 LVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQ-PGCSIWESILRASAIYGDVKLTENVAERMMDLQ  545 (640)
Q Consensus       468 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  545 (640)
                      ..++.....   .|+   ...+...+...+..+++...+.... .. ++...+..++..+...++.++|...+.+.++.+
T Consensus       199 ~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  272 (334)
T d1dcea1         199 PQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKELQELEPEN  272 (334)
T ss_dssp             SCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            655544332   111   1122333455566666666666554 23 345556667777788899999999999999999


Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          546 LPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       546 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      |.+..++..++.+|...|++++|.+.++++.+..
T Consensus       273 p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld  306 (334)
T d1dcea1         273 KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD  306 (334)
T ss_dssp             HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC
T ss_pred             chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            9999999999999999999999999999998854

>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=98.73  E-value=5.1e-08  Score=84.51  Aligned_cols=97  Identities=9%  Similarity=-0.028  Sum_probs=51.2

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHH
Q 006580          481 PGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQA  558 (640)
Q Consensus       481 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  558 (640)
                      |+...+......|.+.|++++|+..|+++. ..| ++..|..+..+|.+.|++++|+..++++++++|.++.+|..++.+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~   81 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHH
Confidence            334444444455555555555555555443 222 445555555555555555555555555555555555555555555


Q ss_pred             HHhcCChHHHHHHHHHHHh
Q 006580          559 YAMRGRWEAIVRVKKVMRK  577 (640)
Q Consensus       559 ~~~~g~~~~a~~~~~~m~~  577 (640)
                      |...|++++|...++++.+
T Consensus        82 ~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          82 QLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            5555555555555555443

>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=98.71  E-value=6.4e-08  Score=75.07  Aligned_cols=90  Identities=19%  Similarity=0.146  Sum_probs=73.4

Q ss_pred             HHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHH
Q 006580          490 IDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEA  567 (640)
Q Consensus       490 ~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  567 (640)
                      ...+.+.|++++|+..|+++. ..| ++..|..+..++...|++++|+..++++++.+|.++..|..++.++...|++++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHHH
Confidence            456777788888888888776 344 677888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHhCC
Q 006580          568 IVRVKKVMRKNG  579 (640)
Q Consensus       568 a~~~~~~m~~~~  579 (640)
                      |+..+++..+..
T Consensus        90 A~~~~~~a~~~~  101 (117)
T d1elwa_          90 AKRTYEEGLKHE  101 (117)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhC
Confidence            888888887654

>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=98.66  E-value=2.6e-07  Score=71.51  Aligned_cols=105  Identities=11%  Similarity=-0.028  Sum_probs=87.3

Q ss_pred             HHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCCh
Q 006580          454 LLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDV  531 (640)
Q Consensus       454 l~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~  531 (640)
                      ...+...|++++|+..|+...+.  -+.+...|..+..+|...|++++|+..++++.  .+.++..|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH
Confidence            45567788888888888888764  34456678888888888999999998888876  444788999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 006580          532 KLTENVAERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       532 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      ++|+..++++++.+|.++.++..+..+-.
T Consensus        88 ~~A~~~~~~a~~~~p~~~~~~~~l~~l~~  116 (117)
T d1elwa_          88 EEAKRTYEEGLKHEANNPQLKEGLQNMEA  116 (117)
T ss_dssp             HHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHhC
Confidence            99999999999999999998888876543

>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=98.63  E-value=1.1e-07  Score=72.96  Aligned_cols=89  Identities=11%  Similarity=-0.071  Sum_probs=81.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCh
Q 006580          488 CIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRW  565 (640)
Q Consensus       488 ~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  565 (640)
                      .+...+.+.|++++|+..++++. ..| ++..|..+...+...|++++|+..++++++.+|.++.++..++.+|...|++
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCCH
Confidence            45667888999999999999987 555 7889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 006580          566 EAIVRVKKVMR  576 (640)
Q Consensus       566 ~~a~~~~~~m~  576 (640)
                      ++|.+.+++..
T Consensus       101 ~~A~~~l~~~l  111 (112)
T d1hxia_         101 NAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999998753

>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=98.56  E-value=7.7e-07  Score=73.31  Aligned_cols=117  Identities=7%  Similarity=-0.066  Sum_probs=94.5

Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCC
Q 006580          453 VLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGD  530 (640)
Q Consensus       453 ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~  530 (640)
                      ....|.+.|++++|+..|++..+.  -+-+...|..+..+|...|++++|++.|+++. ..| +...|..++.++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCC
Confidence            345677888899999888888864  24456778888888999999999999998876 455 67899999999999999


Q ss_pred             hHHHHHHHHHHHhcCCCChhHHHHHHHHH--HhcCChHHHHHH
Q 006580          531 VKLTENVAERMMDLQLPSPLPYSLLTQAY--AMRGRWEAIVRV  571 (640)
Q Consensus       531 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~a~~~  571 (640)
                      +++|...++++++++|.++..+..+..+.  ...+.+++|...
T Consensus        94 ~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          94 FRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999999999999888876664  344556666654

>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=98.55  E-value=1.1e-06  Score=74.85  Aligned_cols=118  Identities=8%  Similarity=-0.105  Sum_probs=80.6

Q ss_pred             HhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHH
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLT  534 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a  534 (640)
                      +...|+++.|++.|..+     .+|+...|..+..+|...|++++|++.|++.. ..| ++..|..+..++.+.|++++|
T Consensus        15 ~~~~~d~~~Al~~~~~i-----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHH
Confidence            45566777777666543     23555666667777777777777777777765 334 566777777777777777777


Q ss_pred             HHHHHHHHhcCCCCh----------------hHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          535 ENVAERMMDLQLPSP----------------LPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       535 ~~~~~~~~~~~p~~~----------------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ...++++++..+.+.                ..+..++.++.+.|++++|.+.++......
T Consensus        90 ~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          90 IKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            777777776644332                345677788888888888888887766644

>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=98.55  E-value=9.2e-07  Score=72.85  Aligned_cols=92  Identities=15%  Similarity=0.052  Sum_probs=84.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCh
Q 006580          488 CIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRW  565 (640)
Q Consensus       488 ~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  565 (640)
                      .....|.+.|++++|+..|+++. ..| +...|..+...+...|++++|...++++++++|.+..+|..++.+|...|++
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            34567889999999999999987 445 7889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCC
Q 006580          566 EAIVRVKKVMRKNG  579 (640)
Q Consensus       566 ~~a~~~~~~m~~~~  579 (640)
                      ++|...+++.....
T Consensus        95 ~eA~~~~~~a~~~~  108 (159)
T d1a17a_          95 RAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcC
Confidence            99999999998864

>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=98.55  E-value=1.5e-07  Score=81.49  Aligned_cols=106  Identities=8%  Similarity=-0.085  Sum_probs=65.7

Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHH
Q 006580          445 PDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESIL  522 (640)
Q Consensus       445 p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~  522 (640)
                      |+...+......+.+.|++++|+..|++..+.  .+.+...|..+..+|.+.|++++|+..++++. ..| +..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            44445555556666666666666666665543  23345556666666666666666666666665 445 456666677


Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCCCChhHH
Q 006580          523 RASAIYGDVKLTENVAERMMDLQLPSPLPY  552 (640)
Q Consensus       523 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  552 (640)
                      .++...|++++|+..++++++++|.+...+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~~~  109 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRLNF  109 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCC
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccHHHH
Confidence            777777777777777777776665443333

>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=98.52  E-value=6.3e-07  Score=76.34  Aligned_cols=88  Identities=15%  Similarity=0.093  Sum_probs=82.4

Q ss_pred             HHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHH
Q 006580          490 IDLLCQAGQLGKAIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIV  569 (640)
Q Consensus       490 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  569 (640)
                      ...+...|++++|++.|+++. +|++.+|..+...+...|++++|++.|+++++++|.++..|..++.+|.+.|++++|.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~-~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ-DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHH
Confidence            455688999999999999876 7889999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhC
Q 006580          570 RVKKVMRKN  578 (640)
Q Consensus       570 ~~~~~m~~~  578 (640)
                      +.+++....
T Consensus        91 ~~~~kAl~~   99 (192)
T d1hh8a_          91 KDLKEALIQ   99 (192)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHh
Confidence            999998764

>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=98.49  E-value=3.8e-07  Score=70.71  Aligned_cols=99  Identities=8%  Similarity=-0.154  Sum_probs=44.6

Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCCh---HHHHHHHHhCC-CCCCH---HHHHHHHHHH
Q 006580          453 VLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQL---GKAIDITSTMP-FQPGC---SIWESILRAS  525 (640)
Q Consensus       453 ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~-~~~~~---~~~~~l~~~~  525 (640)
                      +++.+...+++++|.+.|+.....  -+.+..++..+..++.+.++.   ++|+++++++. ..|++   .+|..+..+|
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            444444455555555555554442  122334444444444443322   23455554443 22221   1344444455


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCChhHHH
Q 006580          526 AIYGDVKLTENVAERMMDLQLPSPLPYS  553 (640)
Q Consensus       526 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~  553 (640)
                      .+.|++++|++.++++++++|.+..+..
T Consensus        83 ~~~g~~~~A~~~~~~aL~~~P~~~~A~~  110 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQTEPQNNQAKE  110 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHhCcCCHHHHH
Confidence            5555555555555555555554444433

>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=98.48  E-value=1.9e-06  Score=79.08  Aligned_cols=189  Identities=12%  Similarity=0.009  Sum_probs=131.3

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCCC-----CC----hhHHHHHHHHHHhCCChHHHHHHHHHHHHC----CCC-CCHHHH
Q 006580          385 SSLMEMYAKTGSIDSSTEIFVKLDK-----RD----LVSWNTIMMGLTQNGRAAETLDVFEELLEE----GLP-PDRITL  450 (640)
Q Consensus       385 ~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~-p~~~~~  450 (640)
                      ......|...|++++|.+.|.+...     .+    ..+|..+..+|.+.|++++|++.+++..+.    |.. ....++
T Consensus        41 ~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  120 (290)
T d1qqea_          41 VQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFK  120 (290)
T ss_dssp             HHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHH
Confidence            3346678899999999999987752     12    357888999999999999999999987652    211 112355


Q ss_pred             HHHHHHHh-ccCCHHHHHHHHHHhHHhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCC--------HH
Q 006580          451 AAVLLACN-YGGFVDKGMLVFSAMKEEYGVMPG----EEHYACIIDLLCQAGQLGKAIDITSTMP-FQPG--------CS  516 (640)
Q Consensus       451 ~~ll~~~~-~~~~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~--------~~  516 (640)
                      ..+...|. ..|++++|++.+++..+......+    ..++..+...+...|++++|++.++++. ..|+        ..
T Consensus       121 ~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~  200 (290)
T d1qqea_         121 FELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKD  200 (290)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHH
T ss_pred             HHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHH
Confidence            56666664 469999999999987643211111    3457788999999999999999998865 2221        12


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCh-----hHHHHHHHHHHh--cCChHHHHHHHH
Q 006580          517 IWESILRASAIYGDVKLTENVAERMMDLQLPSP-----LPYSLLTQAYAM--RGRWEAIVRVKK  573 (640)
Q Consensus       517 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-----~~~~~l~~~~~~--~g~~~~a~~~~~  573 (640)
                      .+...+..+...++++.|...++++.+.+|...     .....++.++..  .+.+++|+..++
T Consensus       201 ~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~  264 (290)
T d1qqea_         201 YFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFD  264 (290)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHT
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            344555567788999999999999999987432     234556666554  345778877775

>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=98.42  E-value=3.7e-06  Score=77.13  Aligned_cols=165  Identities=9%  Similarity=-0.031  Sum_probs=125.0

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHC----CCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC----hhH
Q 006580          415 WNTIMMGLTQNGRAAETLDVFEELLEE----GLPPDR-ITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG----EEH  485 (640)
Q Consensus       415 ~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~-~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~----~~~  485 (640)
                      |......|...|++++|.+.|.+..+.    +-+++. .+|..+..+|.+.|++++|.+.++...+.+.-..+    ...
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            444577899999999999999988762    222222 47888899999999999999999987654221222    345


Q ss_pred             HHHHHHHHHh-cCChHHHHHHHHhCC----CCC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCh-------
Q 006580          486 YACIIDLLCQ-AGQLGKAIDITSTMP----FQP----GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSP-------  549 (640)
Q Consensus       486 ~~~l~~~~~~-~g~~~~A~~~~~~~~----~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-------  549 (640)
                      +..+...|.. .|++++|++.+++..    ...    -..++..+...+...|++++|...++++....|.+.       
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            6666777754 699999999998764    111    134678889999999999999999999999977554       


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          550 LPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       550 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ..+...+..+...|+++.|.+.+++..+..
T Consensus       200 ~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         200 DYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            235667778888999999999999876654

>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=98.40  E-value=4.7e-06  Score=69.14  Aligned_cols=134  Identities=10%  Similarity=-0.012  Sum_probs=95.6

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLL  493 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~  493 (640)
                      .+......+.+.|++++|+..|++.+..  -|..            .+....-......+.        ..+|..+..+|
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~--~~~~------------~~~~~~~~~~~~~~~--------~~~~~nla~~y   72 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSW--LEYE------------SSFSNEEAQKAQALR--------LASHLNLAMCH   72 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTC------------CCCCSHHHHHHHHHH--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhc------------cccchHHHhhhchhH--------HHHHHHHHHHH
Confidence            3444556677777888888877777652  1100            000000001111111        23567788889


Q ss_pred             HhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHH
Q 006580          494 CQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIV  569 (640)
Q Consensus       494 ~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  569 (640)
                      .+.|++++|+..+++.. ..| ++.+|..++.++...|++++|...|+++++++|.++.+...+..+..+.+...+..
T Consensus        73 ~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~e  150 (170)
T d1p5qa1          73 LKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLARE  150 (170)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999887 555 78899999999999999999999999999999999999999988877766655443

>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=98.37  E-value=4.7e-06  Score=69.14  Aligned_cols=64  Identities=6%  Similarity=-0.094  Sum_probs=60.0

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          516 SIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       516 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      .+|+.+...|.+.|++++|+..++++++++|.++.+|..++.+|...|++++|...+++..+..
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            4577788889999999999999999999999999999999999999999999999999998865

>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=98.37  E-value=1.2e-06  Score=67.79  Aligned_cols=92  Identities=9%  Similarity=-0.076  Sum_probs=56.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcC---ChHHHHHHHHHHHhcCCCC--hhHHHHHHHHHH
Q 006580          488 CIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYG---DVKLTENVAERMMDLQLPS--PLPYSLLTQAYA  560 (640)
Q Consensus       488 ~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~  560 (640)
                      .+++.+...+++++|.+.|++..  .+.++.++..+..++.+.+   ++++|+.+++++++.+|.+  ..++..|+.+|.
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            45556666666677777666665  3335666666666665433   3445666676666666533  235666667777


Q ss_pred             hcCChHHHHHHHHHHHhCC
Q 006580          561 MRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       561 ~~g~~~~a~~~~~~m~~~~  579 (640)
                      +.|++++|++.++++.+..
T Consensus        84 ~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HHhhhHHHHHHHHHHHHhC
Confidence            7777777777776666543

>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=98.32  E-value=1e-05  Score=66.99  Aligned_cols=93  Identities=8%  Similarity=-0.042  Sum_probs=77.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhc
Q 006580          485 HYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMR  562 (640)
Q Consensus       485 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  562 (640)
                      .|..+..+|.+.|++++|+..++.+.  .+.+..+|..+..++...|++++|...++++++++|+++.+...+..+..+.
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            56667888999999999999999987  4447889999999999999999999999999999999999999998888777


Q ss_pred             CChH-HHHHHHHHHHh
Q 006580          563 GRWE-AIVRVKKVMRK  577 (640)
Q Consensus       563 g~~~-~a~~~~~~m~~  577 (640)
                      +... ...+++..|-+
T Consensus       146 ~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         146 KEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHh
Confidence            6554 34556655544

>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=98.32  E-value=7.2e-06  Score=66.60  Aligned_cols=64  Identities=11%  Similarity=-0.078  Sum_probs=58.6

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          516 SIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       516 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      .++..+...|.+.|++++|++.++++++.+|.+..+|..++.+|...|++++|...|++..+..
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            4677788889999999999999999999999999999999999999999999999999888754

>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=98.24  E-value=2.5e-06  Score=66.97  Aligned_cols=93  Identities=8%  Similarity=0.098  Sum_probs=78.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChh-------HHHHHH
Q 006580          486 YACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPL-------PYSLLT  556 (640)
Q Consensus       486 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-------~~~~l~  556 (640)
                      +..+...+.+.|++++|++.|++.. ..| +...+..+..+|...|++++|+..++++++++|.++.       +|..++
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            4456778889999999999998887 444 7889999999999999999999999999999886654       566677


Q ss_pred             HHHHhcCChHHHHHHHHHHHhC
Q 006580          557 QAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       557 ~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      ..+...+++++|++.+++....
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHhc
Confidence            7888889999999999887653

>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=98.24  E-value=6.5e-06  Score=68.33  Aligned_cols=66  Identities=8%  Similarity=-0.031  Sum_probs=57.6

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          514 GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       514 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ....|..+...+.+.|++++|+..++++++++|.++.+|..++.+|...|++++|+..+++..+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~  141 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  141 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            455677788888889999999999999999999999999999999999999999999999888753

>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=0.00039  Score=62.08  Aligned_cols=150  Identities=9%  Similarity=-0.096  Sum_probs=100.2

Q ss_pred             CCChHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHh----cCCh
Q 006580          425 NGRAAETLDVFEELLEEGLPPDRITLA-AVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQ----AGQL  499 (640)
Q Consensus       425 ~g~~~~a~~~~~~m~~~g~~p~~~~~~-~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~  499 (640)
                      .++.+.|...++...+.|..+....+. ..............+...+......    .+...+..|...|..    ..+.
T Consensus        87 ~~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~L~~~~~~~~~~~~~~  162 (265)
T d1ouva_          87 SQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL----NDGDGCTILGSLYDAGRGTPKDL  162 (265)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCH
T ss_pred             chhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhcc----cccchhhhhhhhhccCCCccccc
Confidence            456677788887777765322221111 1111122345566777777665442    455666667777665    4466


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHh----cCChHHHHHH
Q 006580          500 GKAIDITSTMPFQPGCSIWESILRASAI----YGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAM----RGRWEAIVRV  571 (640)
Q Consensus       500 ~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~  571 (640)
                      ..+...++......+......+...+..    .++++.|+..|+++.+.+  ++..+..|+.+|.+    ..++++|.++
T Consensus       163 ~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~  240 (265)
T d1ouva_         163 KKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIEN  240 (265)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHH
T ss_pred             ccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHH
Confidence            6777777766534467777777766665    568999999999998885  56788889998876    4489999999


Q ss_pred             HHHHHhCCC
Q 006580          572 KKVMRKNGI  580 (640)
Q Consensus       572 ~~~m~~~~~  580 (640)
                      +++..+.|.
T Consensus       241 ~~kAa~~g~  249 (265)
T d1ouva_         241 FKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHTC
T ss_pred             HHHHHHCcC
Confidence            999988875

>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=98.19  E-value=7.8e-06  Score=67.82  Aligned_cols=133  Identities=6%  Similarity=-0.078  Sum_probs=95.6

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCC-CChhHHHHHHHH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVM-PGEEHYACIIDL  492 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~-p~~~~~~~l~~~  492 (640)
                      .+......+...|++++|++.|.+.++.  .+          ............          .+. .....|..+..+
T Consensus        29 ~~~~~~~~~~~~~~y~~Ai~~y~~al~~--~~----------~~~~~~~~~~~~----------~~~~~~~~~~~nla~~   86 (169)
T d1ihga1          29 DLKNIGNTFFKSQNWEMAIKKYTKVLRY--VE----------GSRAAAEDADGA----------KLQPVALSCVLNIGAC   86 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--HH----------HHHHHSCHHHHG----------GGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--hh----------hhhhhhhhHHHH----------HhChhhHHHHHHHHHH
Confidence            3445556677788888888888776541  00          000000111000          111 234467778889


Q ss_pred             HHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHH
Q 006580          493 LCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAI  568 (640)
Q Consensus       493 ~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  568 (640)
                      +.+.|++++|+..++++. ..| ++..|..+..++...|++++|+..++++++++|++..++..+..+..+.....++
T Consensus        87 ~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l~~~~~~  164 (169)
T d1ihga1          87 KLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDK  164 (169)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999986 555 7889999999999999999999999999999999999999888877665555443

>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=98.14  E-value=1.9e-05  Score=63.93  Aligned_cols=128  Identities=9%  Similarity=-0.096  Sum_probs=92.3

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHH
Q 006580          413 VSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDL  492 (640)
Q Consensus       413 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~  492 (640)
                      ..+..-...+.+.|++.+|+..|.+.+..  -|..           ..............        ....+|..+..+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~--~~~~-----------~~~~~~~~~~~~~~--------~~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHT-----------EEWDDQILLDKKKN--------IEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTC-----------TTCCCHHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh--Ccch-----------hhhhhHHHHHhhhh--------HHHHHHhhHHHH
Confidence            34555667778888888888888887762  1110           00000000000010        112467778889


Q ss_pred             HHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHh
Q 006580          493 LCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAM  561 (640)
Q Consensus       493 ~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  561 (640)
                      |.+.|++++|++.++.+. ..| +..+|..++.++...|++++|...++++++++|.|+.+...+..+..+
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~k  147 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  147 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            999999999999999977 455 788999999999999999999999999999999999888877665543

>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=98.11  E-value=5.1e-05  Score=62.56  Aligned_cols=64  Identities=5%  Similarity=-0.019  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          516 SIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       516 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      .+|..+..+|.+.|++++|+..++++++++|.+..+|..++.+|...|++++|...++++.+..
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            4566778888999999999999999999999999999999999999999999999999998754

>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=2.9e-05  Score=64.52  Aligned_cols=117  Identities=13%  Similarity=0.036  Sum_probs=83.3

Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCCh--HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 006580          453 VLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQL--GKAIDITSTMPFQPGCSIWESILRASAIYGD  530 (640)
Q Consensus       453 ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~--~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~  530 (640)
                      ........|++++|.+.|......+.-.+-...         ..+.+  .+...+-     ......+..+...+...|+
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~---------~~~~w~~~~r~~l~-----~~~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREWRGPVLDDL---------RDFQFVEPFATALV-----EDKVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGG---------TTSTTHHHHHHHHH-----HHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccccccC---------cchHHHHHHHHHHH-----HHHHHHHHHHHHHHHHCCC
Confidence            334667788999999888887754211110000         00110  0111111     1124567888999999999


Q ss_pred             hHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHh-----CCCccC
Q 006580          531 VKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRK-----NGINKV  583 (640)
Q Consensus       531 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~~~  583 (640)
                      +++|...++++++.+|.+...|..++.+|.+.|++++|++.|+++.+     .|+.|.
T Consensus        83 ~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~  140 (179)
T d2ff4a2          83 ASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPG  140 (179)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCC
T ss_pred             chHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcC
Confidence            99999999999999999999999999999999999999999999854     466544

>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=97.93  E-value=0.0019  Score=57.41  Aligned_cols=145  Identities=8%  Similarity=-0.033  Sum_probs=67.1

Q ss_pred             CChHHHHHHHHHHhhCCCCCChhhHHHHHhh-CCC-CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh----cCChHH
Q 006580          326 GFGEVALELFQLMLREDIRPTEFTLSCVLSS-IPI-PPVEHGSQFHSMAIKSGFDSNAVVASSLMEMYAK----TGSIDS  399 (640)
Q Consensus       326 ~~~~~a~~~~~~m~~~~~~p~~~t~~~~l~~-~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  399 (640)
                      .+.+.|...++...+.|.......+...... ... .....+...+......   .+...+..|...|..    ..+...
T Consensus        88 ~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~  164 (265)
T d1ouva_          88 QNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKDLKK  164 (265)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             hhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhhhccCCCccccccc
Confidence            3455566666655554432222222111111 111 4444455555444442   233334444444443    234444


Q ss_pred             HHHHHHhCC-CCChhHHHHHHHHHHh----CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCCHHHHHHHH
Q 006580          400 STEIFVKLD-KRDLVSWNTIMMGLTQ----NGRAAETLDVFEELLEEGLPPDRITLAAVLLACNY----GGFVDKGMLVF  470 (640)
Q Consensus       400 A~~~~~~~~-~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~A~~~~  470 (640)
                      +...+.... ..+......+...|..    ..++++|+..|++..+.|   +...+..|...|.+    ..+.++|.+.|
T Consensus       165 ~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~  241 (265)
T d1ouva_         165 ALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENF  241 (265)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHH
T ss_pred             chhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHHH
Confidence            555554443 2345555555444443    346666777776666654   23333344444433    23566666666


Q ss_pred             HHhHHh
Q 006580          471 SAMKEE  476 (640)
Q Consensus       471 ~~~~~~  476 (640)
                      ++....
T Consensus       242 ~kAa~~  247 (265)
T d1ouva_         242 KKGCKL  247 (265)
T ss_dssp             HHHHHH
T ss_pred             HHHHHC
Confidence            665544

>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=97.93  E-value=1.6e-06  Score=86.33  Aligned_cols=90  Identities=8%  Similarity=-0.076  Sum_probs=31.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCC
Q 006580          486 YACIIDLLCQAGQLGKAIDITSTMPFQPG-CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGR  564 (640)
Q Consensus       486 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  564 (640)
                      +..+...+.+.|+.++|...+.... .++ ..++..++..+...+++++|...|+++++++|++...|+.|+.++...|+
T Consensus       123 ~~~lg~~~~~~~~~~~A~~~~~~al-~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~  201 (497)
T d1ya0a1         123 SSQLGIISNKQTHTSAIVKPQSSSC-SYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGD  201 (497)
T ss_dssp             --------------------CCHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTC
T ss_pred             HHHhHHHHHhCCCHHHHHHHHHHHh-CCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCC
Confidence            3334444444444444444333322 111 12334444444444555555555555555555555555555555555555


Q ss_pred             hHHHHHHHHHHH
Q 006580          565 WEAIVRVKKVMR  576 (640)
Q Consensus       565 ~~~a~~~~~~m~  576 (640)
                      ..+|...+.+..
T Consensus       202 ~~~A~~~y~ral  213 (497)
T d1ya0a1         202 HLTTIFYYCRSI  213 (497)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555554444443

>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=97.88  E-value=4.1e-05  Score=58.03  Aligned_cols=85  Identities=9%  Similarity=-0.006  Sum_probs=38.8

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcC
Q 006580          419 MMGLTQNGRAAETLDVFEELLEEGLPP-DRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAG  497 (640)
Q Consensus       419 i~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  497 (640)
                      ...+.+.|++++|+..|++....  .| +..+|..+..++.+.|++++|+..+++..+.  .+.+...+..+...|...|
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhccc--ccccchhhhhhhhhhhhhhhHHHhhccccccccc--ccccccchHHHHHHHHHCC
Confidence            33444555555555555555542  23 2334444444555555555555555544432  1222334444444444444


Q ss_pred             ChHHHHHHHH
Q 006580          498 QLGKAIDITS  507 (640)
Q Consensus       498 ~~~~A~~~~~  507 (640)
                      ++++|.+.++
T Consensus        99 ~~~~A~~~l~  108 (112)
T d1hxia_          99 NANAALASLR  108 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            4444444443

>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=97.85  E-value=0.0099  Score=53.93  Aligned_cols=46  Identities=7%  Similarity=0.044  Sum_probs=28.4

Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHH
Q 006580          525 SAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVK  572 (640)
Q Consensus       525 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  572 (640)
                      ..+.+++......++...+.+  +...++.|..+|...++++.-++.+
T Consensus       258 ~~k~~~l~li~p~Le~v~~~n--~~~vn~al~~lyie~~d~~~l~~~i  303 (336)
T d1b89a_         258 FSKVKQLPLVKPYLRSVQNHN--NKSVNESLNNLFITEEDYQALRTSI  303 (336)
T ss_dssp             HHHTTCTTTTHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHhcCCcHHHHHHHHHHHHcC--hHHHHHHHHHHHhCcchhHHHHHHH
Confidence            344555566666666654433  4567788888888888875544443

>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=97.79  E-value=0.012  Score=53.31  Aligned_cols=133  Identities=16%  Similarity=0.111  Sum_probs=84.9

Q ss_pred             CChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHccCCchHHHHHHhcCCCCChhhHHHHHHHHh
Q 006580           13 ASLSYCSQLIDRCLSFKSFDFAKTIHGHLFKLGFNAHTYLGNRCLDLYSRFGTSDDVLQLFDEIPQKNCISWNICLRGLL   92 (640)
Q Consensus        13 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~   92 (640)
                      ||..--..+...|.+.|.++.|..++..+.         -|..++..+.+.+++..|.+.+...  .+..+|..+...+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~--~~~~~~k~~~~~l~   80 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACV   80 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHc--CCHHHHHHHHHHHH
Confidence            555566778888999999999999997554         3667888889999999998888765  46678888899988


Q ss_pred             cCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHh
Q 006580           93 KSDNLDTALKVFDEIPEPDVVSWNSMISGYASCGYSDYALEMFSKMQLQGVRPSGFTFSILLSTVS  158 (640)
Q Consensus        93 ~~~~~~~A~~~~~~~~~~~~~~y~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~  158 (640)
                      +......|.-+ ......++.....++..|-..|.+++.+.+++..... -.++...++-++..++
T Consensus        81 ~~~e~~la~i~-~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lya  144 (336)
T d1b89a_          81 DGKEFRLAQMC-GLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYS  144 (336)
T ss_dssp             HTTCHHHHHHT-TTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHH
T ss_pred             hCcHHHHHHHH-HHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHH
Confidence            88777655332 2222345555567889999999999999999987543 2344455556666555

>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=97.76  E-value=1.9e-05  Score=63.19  Aligned_cols=75  Identities=15%  Similarity=0.096  Sum_probs=49.4

Q ss_pred             hHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcC-----------ChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCh
Q 006580          499 LGKAIDITSTMP-FQP-GCSIWESILRASAIYG-----------DVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRW  565 (640)
Q Consensus       499 ~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~-----------~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  565 (640)
                      +++|++.|+++. +.| +..+|..+..+|...|           ++++|.+.|+++++++|.+...+..|....      
T Consensus        57 ~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~------  130 (145)
T d1zu2a1          57 IQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTA------  130 (145)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH------
T ss_pred             HHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHHH------
Confidence            345555555544 334 4556666666655443           468899999999999999988777776553      


Q ss_pred             HHHHHHHHHHHhCCC
Q 006580          566 EAIVRVKKVMRKNGI  580 (640)
Q Consensus       566 ~~a~~~~~~m~~~~~  580 (640)
                       +|.+++.+..++|+
T Consensus       131 -ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         131 -KAPQLHAEAYKQGL  144 (145)
T ss_dssp             -THHHHHHHHHHSSS
T ss_pred             -HHHHHHHHHHHHhc
Confidence             55666666666654

>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=97.72  E-value=8.6e-05  Score=54.11  Aligned_cols=73  Identities=8%  Similarity=-0.044  Sum_probs=55.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC--------CCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHH
Q 006580          486 YACIIDLLCQAGQLGKAIDITSTMP--------FQPG-CSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLT  556 (640)
Q Consensus       486 ~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  556 (640)
                      +-.+...+.+.|++++|...|++..        ..++ ..++..|..++.+.|++++|...++++++++|.++.++.++.
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl~   87 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLK   87 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHHH
Confidence            3455666666777766666666553        1222 568889999999999999999999999999999999888875


Q ss_pred             HH
Q 006580          557 QA  558 (640)
Q Consensus       557 ~~  558 (640)
                      ..
T Consensus        88 ~~   89 (95)
T d1tjca_          88 YF   89 (95)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=97.70  E-value=2.4e-05  Score=62.60  Aligned_cols=87  Identities=5%  Similarity=-0.121  Sum_probs=65.2

Q ss_pred             HHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHH----------cCChHHHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 006580          493 LCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAI----------YGDVKLTENVAERMMDLQLPSPLPYSLLTQAYA  560 (640)
Q Consensus       493 ~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~----------~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  560 (640)
                      |.+.+.+++|.+.++... ..| ++.++..+..++..          .+.+++|+..++++++++|.++.+|..++.+|.
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~   86 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHH
Confidence            344555667777666665 344 56666666666553          345689999999999999999999999999998


Q ss_pred             hcCC-----------hHHHHHHHHHHHhCC
Q 006580          561 MRGR-----------WEAIVRVKKVMRKNG  579 (640)
Q Consensus       561 ~~g~-----------~~~a~~~~~~m~~~~  579 (640)
                      ..|+           +++|.+.|++..+..
T Consensus        87 ~~g~~~~~~~~~~~~~~~A~~~~~kal~l~  116 (145)
T d1zu2a1          87 SFAFLTPDETEAKHNFDLATQFFQQAVDEQ  116 (145)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HcccchhhHHHHHHhHHHhhhhhhcccccC
Confidence            8764           688888888887754

>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=97.69  E-value=0.00024  Score=55.10  Aligned_cols=59  Identities=10%  Similarity=0.013  Sum_probs=36.1

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 006580          416 NTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKE  475 (640)
Q Consensus       416 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~  475 (640)
                      -.+...+...|++++|+..|++.++.+ +.+...+..+..+|.+.|++++|+..++.+.+
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHH
Confidence            345556666666777777666666642 23345566666666666666666666666554

>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=97.58  E-value=0.00013  Score=59.15  Aligned_cols=63  Identities=11%  Similarity=-0.115  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCC-------C----ChhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006580          516 SIWESILRASAIYGDVKLTENVAERMMDLQL-------P----SPLPYSLLTQAYAMRGRWEAIVRVKKVMRKN  578 (640)
Q Consensus       516 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-------~----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  578 (640)
                      .+|+.+..+|...|++++|...+++++++.|       .    ....|..++.+|...|++++|...+++..+.
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            5677888888889999999988888887633       1    1236788999999999999999999998764

>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=97.53  E-value=4.2e-05  Score=75.71  Aligned_cols=129  Identities=9%  Similarity=-0.075  Sum_probs=67.6

Q ss_pred             CChHHHHHHHHhCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 006580          395 GSIDSSTEIFVKLD---KRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFS  471 (640)
Q Consensus       395 g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~  471 (640)
                      +.++.|...+....   .++...+..+...+.+.|+.++|...+.+....  .| ..++..+...+...|++++|+..|+
T Consensus       100 ~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~~-~~~~~~LG~l~~~~~~~~~A~~~y~  176 (497)
T d1ya0a1         100 GFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--IC-QHCLVHLGDIARYRNQTSQAESYYR  176 (497)
T ss_dssp             HHHHHHHHHHTC-------------------------------CCHHHHH--HH-HHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--CH-HHHHHHHHHHHHHcccHHHHHHHHH
Confidence            33444444444433   234455666777777888888888777666542  11 2466667777788888888888888


Q ss_pred             HhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHHc
Q 006580          472 AMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP--FQPGCSIWESILRASAIY  528 (640)
Q Consensus       472 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~  528 (640)
                      +..+.  .+-+...|+.|...+...|+..+|...|.+..  .+|.+.++..|...+.+.
T Consensus       177 ~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         177 HAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHHH
T ss_pred             HHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHh
Confidence            87753  23345678888888888888888888887765  456777777777766543

>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=97.46  E-value=0.00052  Score=49.71  Aligned_cols=65  Identities=12%  Similarity=-0.031  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-------hhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          515 CSIWESILRASAIYGDVKLTENVAERMMDLQLPS-------PLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       515 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      ...+-.++..+.+.|+++.|...++++++..|.+       ..++..|+.+|.+.|++++|+..++++.+..
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            3445578889999999999999999999885432       4679999999999999999999999998854

>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=97.45  E-value=0.00022  Score=63.18  Aligned_cols=128  Identities=11%  Similarity=0.047  Sum_probs=82.3

Q ss_pred             HHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCC-hhHHHHHHHHHHhcCChH
Q 006580          422 LTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPG-EEHYACIIDLLCQAGQLG  500 (640)
Q Consensus       422 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~  500 (640)
                      ..+.|++++|+..+++.++.. +-|...+..+...++..|++++|...++...+.   .|+ ...+..+...+...+..+
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhccccH
Confidence            345788888888888888852 344567788888888888888888888887754   444 334444445554444444


Q ss_pred             HHHHHHHhCC--CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHH
Q 006580          501 KAIDITSTMP--FQP-GCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYS  553 (640)
Q Consensus       501 ~A~~~~~~~~--~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  553 (640)
                      ++..-.....  ..| +...+......+...|+.++|.+.++++.+..|..+..++
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~~  137 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLAN  137 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEET
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCcccc
Confidence            4433322211  223 2233444455667778888888888888888876665544

>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=97.39  E-value=0.0001  Score=65.33  Aligned_cols=121  Identities=10%  Similarity=0.008  Sum_probs=89.7

Q ss_pred             HhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHcCChHHH
Q 006580          457 CNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGKAIDITSTMP-FQP-GCSIWESILRASAIYGDVKLT  534 (640)
Q Consensus       457 ~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a  534 (640)
                      ..+.|++++|+..+++..+  .-+-+...+..++..|+..|++++|.+.++... ..| +...+..+...+...+..+++
T Consensus         6 aL~~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           6 ALSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHH
Confidence            4567999999999999987  445677899999999999999999999999987 566 455666666665544444443


Q ss_pred             HHHHHHHHhc-CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          535 ENVAERMMDL-QLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       535 ~~~~~~~~~~-~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      .......... +|++...+...+..+...|++++|.+.++++.+..
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            3332222222 34445556667788899999999999999988754

>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=97.23  E-value=0.0031  Score=50.53  Aligned_cols=62  Identities=11%  Similarity=-0.009  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC--------CCCC-----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 006580          485 HYACIIDLLCQAGQLGKAIDITSTMP--------FQPG-----CSIWESILRASAIYGDVKLTENVAERMMDLQL  546 (640)
Q Consensus       485 ~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  546 (640)
                      .|+.+..+|...|++++|.+.+++..        ..++     ...+..+..+|...|++++|+..|++++++.|
T Consensus        57 ~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~  131 (156)
T d2hr2a1          57 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIE  131 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence            34444555555555555554444432        1111     22466778888889999999999999888844

>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=97.14  E-value=0.0044  Score=50.83  Aligned_cols=72  Identities=17%  Similarity=0.213  Sum_probs=57.1

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH----hhCCCCChhH
Q 006580          413 VSWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKE----EYGVMPGEEH  485 (640)
Q Consensus       413 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~----~~~~~p~~~~  485 (640)
                      ..+..+...+...|++++|+..++++.+.. +-+...|..++.++...|+..+|++.|+.+.+    ..|+.|+..+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            456777888888999999999999988842 44567888889999999999999988888744    3588888765

>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=96.98  E-value=0.036  Score=40.48  Aligned_cols=141  Identities=9%  Similarity=0.017  Sum_probs=106.1

Q ss_pred             HHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHhcCChHH
Q 006580          422 LTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQAGQLGK  501 (640)
Q Consensus       422 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  501 (640)
                      +.-.|..++..+++.+...   +.+..-|+.++-.....-+-+...++++.+-+-+.+.|-.. ...++..+.+.+    
T Consensus        12 ~ildG~ve~Gveii~k~~~---ss~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~N-lk~vv~C~~~~n----   83 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITK---SSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQN-LKSVVECGVINN----   83 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHH---HSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSC-THHHHHHHHHTT----
T ss_pred             HHHhhhHHhHHHHHHHHcc---cCCccccceeeeecccccchHHHHHHHHHHhhhcCchhhhc-HHHHHHHHHHhc----
Confidence            4567889999999988877   34556677777777777788888888888766555444321 223334444333    


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 006580          502 AIDITSTMPFQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMRKNGIN  581 (640)
Q Consensus       502 A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  581 (640)
                                 .+...++..+.....+|+-+.-.++++.+.+.+..++.....++.+|-+.|...++-+++.+.-++|++
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                       334456667788889999999999999999988889999999999999999999999999999999974

>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=96.60  E-value=0.0095  Score=44.24  Aligned_cols=67  Identities=9%  Similarity=-0.053  Sum_probs=48.6

Q ss_pred             CCHHHHHHHHHHHHHcC---ChHHHHHHHHHHHhcCCCCh-hHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006580          513 PGCSIWESILRASAIYG---DVKLTENVAERMMDLQLPSP-LPYSLLTQAYAMRGRWEAIVRVKKVMRKNG  579 (640)
Q Consensus       513 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  579 (640)
                      |...+--....++.+..   +.++|+.+++.+...+|.+. ..+..|+-+|.+.|++++|.+.++.+.+..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ie  103 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  103 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccC
Confidence            45556566666666554   45678888888887777654 567788888888888888888888887744

>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=96.14  E-value=0.58  Score=44.25  Aligned_cols=264  Identities=9%  Similarity=-0.021  Sum_probs=130.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhCC-CCCChhhHHHHHhhCCCCChHH
Q 006580          286 ATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLRED-IRPTEFTLSCVLSSIPIPPVEH  364 (640)
Q Consensus       286 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~t~~~~l~~~~~~~~~~  364 (640)
                      .-+..+.+.++++..+..+..-+ .+...-.....+....|+.+.|...+..+-..| ..|+.                 
T Consensus        77 ~~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~~-----------------  138 (450)
T d1qsaa1          77 RFVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPNA-----------------  138 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCTH-----------------
T ss_pred             HHHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCchH-----------------
Confidence            33455666777766555443221 234444556667777788877777776665444 23322                 


Q ss_pred             HHHHHHHHHHhCCCCchHHHHHHHHHHHhcCChHHHHHHHHhCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHCCCC
Q 006580          365 GSQFHSMAIKSGFDSNAVVASSLMEMYAKTGSIDSSTEIFVKLDKRDLVSWNTIMMGLTQNGRAAETLDVFEELLEEGLP  444 (640)
Q Consensus       365 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  444 (640)
                      ...++....+.| ..+...+-.-+......|+...|..+...+...........+.....   +..+....   ..  ..
T Consensus       139 c~~l~~~~~~~~-~lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~---p~~~~~~~---~~--~~  209 (450)
T d1qsaa1         139 CDKLFSVWRASG-KQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANN---PNTVLTFA---RT--TG  209 (450)
T ss_dssp             HHHHHHHHHHTT-CSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHHH---HH--SC
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhC---hHhHHHHH---hc--CC
Confidence            122334344433 23333333445555666777777777776665444444444443322   22221111   11  12


Q ss_pred             CCHHHHHHHHHHHhc--cCCHHHHHHHHHHhHHhhCCCCChhH--HHHHHHHHHhcCChHHHHHHHHhCC-CCCCHHHHH
Q 006580          445 PDRITLAAVLLACNY--GGFVDKGMLVFSAMKEEYGVMPGEEH--YACIIDLLCQAGQLGKAIDITSTMP-FQPGCSIWE  519 (640)
Q Consensus       445 p~~~~~~~ll~~~~~--~~~~~~A~~~~~~~~~~~~~~p~~~~--~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~  519 (640)
                      ++......+..++.+  ..+.+.|...+..........++...  ...+...+...+..+.+...+.... ...+.....
T Consensus       210 ~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  289 (450)
T d1qsaa1         210 ATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIE  289 (450)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHH
T ss_pred             CChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHH
Confidence            233222222222222  24566677766666554222222111  1111222233455566666555544 233444444


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006580          520 SILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAIVRVKKVMR  576 (640)
Q Consensus       520 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  576 (640)
                      -.+......+++..+...+..+.......+....=++.++...|+.++|..+++.+.
T Consensus       290 w~~~~al~~~~~~~~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a  346 (450)
T d1qsaa1         290 RRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLM  346 (450)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCChHHHHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHHh
Confidence            444445556677777776666533222334444556667777777777777776654

>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=95.61  E-value=0.96  Score=42.65  Aligned_cols=353  Identities=10%  Similarity=-0.003  Sum_probs=181.1

Q ss_pred             HHHHHHHhhhcCCChHHHHHHHhccCCCCeeeHHHHHHHHHhcCChhHHHHHHHHhHHCCCCCCcchHHHHHHHHhccCC
Q 006580          182 LGNSLIDMYGKLGVLYYAFGVFLNMEELDIISWNSLISGCFNSGYGELALDQFYSMRYSGYSPDEYTISIVINACTKLRN  261 (640)
Q Consensus       182 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~  261 (640)
                      ....-+..+.+.+++......+...+ .+...-.....+....|+.+.|...+...=..|. .....+.           
T Consensus        74 lr~~~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~-~~p~~c~-----------  140 (450)
T d1qsaa1          74 LQSRFVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGK-SQPNACD-----------  140 (450)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSS-CCCTHHH-----------
T ss_pred             HHHHHHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC-CCchHHH-----------
Confidence            33444566777788877666554322 2344444667778888999888887776654432 1222233           


Q ss_pred             chHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHhCCChHHHHHHHHHHhhC
Q 006580          262 LDKGKQVFALSVKVGFLSNSIVLSATIDLFSKCNRLEDSVRLFEQLDRWDYAVINVMISTYGRYGFGEVALELFQLMLRE  341 (640)
Q Consensus       262 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  341 (640)
                           .++..+.+.|. .+...+-.-+......|+...|..+...+...........+......   ..+......    
T Consensus       141 -----~l~~~~~~~~~-lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~p---~~~~~~~~~----  207 (450)
T d1qsaa1         141 -----KLFSVWRASGK-QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNP---NTVLTFART----  207 (450)
T ss_dssp             -----HHHHHHHHTTC-SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCG---GGHHHHHHH----
T ss_pred             -----HHHHHHHhcCC-CCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhCh---HhHHHHHhc----
Confidence                 33333333332 33333344455566667777787777776654444444444433221   111111111    


Q ss_pred             CCCCChhhHHHHHhhCCC---CChHHHHHHHHHHHHhCCCCchHHH---HHHHHHHHhcCChHHHHHHHHhCC--CCChh
Q 006580          342 DIRPTEFTLSCVLSSIPI---PPVEHGSQFHSMAIKSGFDSNAVVA---SSLMEMYAKTGSIDSSTEIFVKLD--KRDLV  413 (640)
Q Consensus       342 ~~~p~~~t~~~~l~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~  413 (640)
                       ..++......+..++.+   .+.+.+...+...............   ..+.......+..+.+...+....  ..+..
T Consensus       208 -~~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~  286 (450)
T d1qsaa1         208 -TGATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTS  286 (450)
T ss_dssp             -SCCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHH
T ss_pred             -CCCChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchH
Confidence             11122222222222222   4556666666555543322211111   111122223455566665554443  22333


Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHH
Q 006580          414 SWNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLL  493 (640)
Q Consensus       414 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~  493 (640)
                      ...-.+......+++..+...+..|-.. ..-...-.--+..++...|+.+.|...|..+..    .++  .|..|..  
T Consensus       287 ~~~w~~~~al~~~~~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LAa--  357 (450)
T d1qsaa1         287 LIERRVRMALGTGDRRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVAA--  357 (450)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHHH--
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc----CCC--hHHHHHH--
Confidence            3333444455667888888777776432 112233334556777888888888888887653    233  3443322  


Q ss_pred             HhcCChHHHHHHH-HhCCCCCC-HHH---HHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHH
Q 006580          494 CQAGQLGKAIDIT-STMPFQPG-CSI---WESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLTQAYAMRGRWEAI  568 (640)
Q Consensus       494 ~~~g~~~~A~~~~-~~~~~~~~-~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  568 (640)
                      .+.|..-.   +- ......+. ...   --.-+..+...|....|...+..+....  ++.....++....+.|.++.|
T Consensus       358 ~~Lg~~~~---~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~a  432 (450)
T d1qsaa1         358 QRIGEEYE---LKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLS  432 (450)
T ss_dssp             HHTTCCCC---CCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHcCCCCC---CCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHH
Confidence            12222100   00 00011111 100   1122455667899999999888877543  456677888888899999999


Q ss_pred             HHHHHHH
Q 006580          569 VRVKKVM  575 (640)
Q Consensus       569 ~~~~~~m  575 (640)
                      +....+.
T Consensus       433 I~a~~~~  439 (450)
T d1qsaa1         433 VQATIAG  439 (450)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHH
Confidence            8877655

>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=95.43  E-value=0.1  Score=39.78  Aligned_cols=50  Identities=10%  Similarity=-0.009  Sum_probs=36.3

Q ss_pred             CChHHHHHHHHHHHhcCCCChhHHHHHHHHHHh----cCChHHHHHHHHHHHhCCC
Q 006580          529 GDVKLTENVAERMMDLQLPSPLPYSLLTQAYAM----RGRWEAIVRVKKVMRKNGI  580 (640)
Q Consensus       529 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~  580 (640)
                      .|.++|.++++++.+.+  ++.....|+.+|..    ..+.++|.+++++..+.|.
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            46778888888887764  35556677777765    4578888888888877774

>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=94.47  E-value=0.37  Score=36.37  Aligned_cols=112  Identities=12%  Similarity=-0.093  Sum_probs=74.7

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHHHHHh----cCChHHH
Q 006580          427 RAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIIDLLCQ----AGQLGKA  502 (640)
Q Consensus       427 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A  502 (640)
                      ++++|++.|++..+.|. |..  ...|.  .....+.++|+..+++..+. |   ++.....|...|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~-~~a--~~~l~--~~~~~~~~~a~~~~~~aa~~-g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE-MFG--CLSLV--SNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC-TTH--HHHHH--TCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCC-hhh--hhhhc--cccccCHHHHHHHHhhhhcc-c---chhhhhhHHHhhhhccccchhhHHH
Confidence            57788888888877762 222  22222  23456788888888887664 4   44455556666654    4567888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCC
Q 006580          503 IDITSTMPFQPGCSIWESILRASAI----YGDVKLTENVAERMMDLQLP  547 (640)
Q Consensus       503 ~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~  547 (640)
                      .++|++....-++.....|...|..    ..|.++|.++++++.+.+.+
T Consensus        79 ~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~~  127 (133)
T d1klxa_          79 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  127 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCCH
Confidence            8888887634456666667666655    45899999999999887654

>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=94.10  E-value=0.29  Score=35.97  Aligned_cols=73  Identities=4%  Similarity=-0.079  Sum_probs=50.0

Q ss_pred             CChhHHHHHHHHHHhcCC---hHHHHHHHHhCC-CCC-CH-HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHH
Q 006580          481 PGEEHYACIIDLLCQAGQ---LGKAIDITSTMP-FQP-GC-SIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYS  553 (640)
Q Consensus       481 p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~-~~~-~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  553 (640)
                      |+..+--....++.++.+   .++++.+++++. ..| +. ..+-.|.-+|.+.|++++|.+.++++++.+|.|..+..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA~~  111 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGA  111 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHHHH
Confidence            444454455555555543   456666666655 333 33 46677888888999999999999999999998876543

>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=93.46  E-value=0.94  Score=32.92  Aligned_cols=63  Identities=16%  Similarity=0.104  Sum_probs=40.5

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCC
Q 006580          415 WNTIMMGLTQNGRAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGV  479 (640)
Q Consensus       415 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~  479 (640)
                      ++..+..+...|+-+.-.++++.+.+.+ +|++.....+..+|-+.|...++-+++.+..++ |+
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~-G~  151 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKK-GE  151 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH-hH
Confidence            3444556666777777777777665543 666666666777777777777777777776665 54

>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=84.56  E-value=2.4  Score=29.08  Aligned_cols=63  Identities=22%  Similarity=0.293  Sum_probs=47.0

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhhCCCCChhHHHHHHH
Q 006580          427 RAAETLDVFEELLEEGLPPDRITLAAVLLACNYGGFVDKGMLVFSAMKEEYGVMPGEEHYACIID  491 (640)
Q Consensus       427 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  491 (640)
                      +.-++.+-++.+....+.|++......++||-+.+++..|.++++.++.+  ..++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K--~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--hcCcHHHHHHHHH
Confidence            34456666677777778899999999999999999999999999988764  3334556666554

>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=80.11  E-value=6.9  Score=26.74  Aligned_cols=46  Identities=22%  Similarity=0.233  Sum_probs=36.8

Q ss_pred             CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCChhHHHHHH
Q 006580          511 FQPGCSIWESILRASAIYGDVKLTENVAERMMDLQLPSPLPYSLLT  556 (640)
Q Consensus       511 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  556 (640)
                      .-|++.+..+.+.+|++.+|+..|.++++-+....-++...|..+.
T Consensus        37 lVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~~k~~y~yil   82 (105)
T d1v54e_          37 LVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVI   82 (105)
T ss_dssp             BCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             cCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            6889999999999999999999999999988877433455665543