Citrus Sinensis ID: 016262

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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--
Protein Sequence
MTPVCPFAKARPDDASPRKPGENSNKYPAECPFSKARPDDAASRKAVENSAKPQAEHDGDKAKSDSMDSASIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISRFKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIKRSHTNSDKEEDEAGENKKVIYEDVSMERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccEEHHcccccccccccccccHHHHHHHHHHccccccccHHHHHHccccHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHcHHHHHHHHcccHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHcHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEHHHHHHHHccccccccHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHccHHHHcccccccHHHHHccccccEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHccccHHHHHHccHHHHHHHHHHHHHHHHHccccccHHHEEEEEEHcccccHHHHccHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcccccHHcHHHHHHHHHHHHHHHHHHHHcccccccc
Coil and Loop (DISEMBL)
mtpvcpfakarpddasprkpgensnkypaecpfskarpddaasrkavensakpqaehdgdkaksdsmdsasippkcpfgydaqsfkigplsCMICQALLfecskctpcshvyckacisrfkdcplcgadiekieadTTLQDVVDRFIEGHARIkrshtnsdkeedeagenkkVIYEDVSMERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKigdlkyyggdlQAARSYYVRSLNVRRdavkrhsnvpsQVLDVAVSLAKVAdvdrsignedvaVDGFQEAIKRLESltlkpeeagleqrcwnssttnfqknhlnqlpkfrsa
Flexible Loop (DISEMBL)
mtpvcpfakarpddasprkpgensnkypaecpfSKARPDDAASRKAvensakpqaehdgdkaksdsMDSASIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISRFKDCPLCGADIEKIEADTTLQDVVDRFIEGHarikrshtnsdkeedeagenkkviyeDVSMERGAFLVQQAMRAFRAQNvesaksrlslCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDavkrhsnvpsqvlDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEqrcwnssttnfqknhlnqlpkfrsa
Low Complexity Region (SEG)
MTPVCPFAKARPDDASPRKPGENSNKYPAECPFSKARPDDAASRKAVENSAKPQAEHdgdkaksdsmdsasIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISRFKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIKRSHTNSDKEEDEAGENKKVIYEDVSMERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA
Disordered region (IsUnstruct)
***************************************************************************CPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISRFKDCPLCGADIEKIEADTTLQDVVDRFIEGHA*********************VIYEDVSMERGAFLVQQAMRAFRAQ********LSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLT**********************************
Disordered Region (DISOPRED)
****CP******************************************************************************FKIGPLSCMICQALLFECSKCTPCSHVYCKACISRFKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIKRSHTNSDKEEDEAGENKKVIYEDVSMERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQ*******
Disordered Region (DISEMBL)
*************************KYPAECPFSK***********************************SIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISRFKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIKR*************ENKKVIYEDVSMERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA
Disordered Region (DISPRO)
**************************************************************************KCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISRFKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIK***************NKKVIYEDVSMERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQ*******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTPVCPFAKARPDDASPRKPGENSNKYPAECPFSKARPDDAASRKAVENSAKPQAEHDGDKAKSDSMDSASIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISRFKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIKRSHTNSDKEEDEAGENKKVIYEDVSMERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA
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	392	2.2.26 [Sep-21-2011]
Q5FWP4	625	E3 ubiquitin-protein liga	N/A	no	0.216	0.136	0.309	3e-07
A5WW08	637	E3 ubiquitin-protein liga	yes	no	0.155	0.095	0.353	6e-07
Q96EP1	664	E3 ubiquitin-protein liga	yes	no	0.170	0.100	0.352	2e-06
Q810L3	664	E3 ubiquitin-protein liga	yes	no	0.170	0.100	0.352	2e-06
Q6P256	626	E3 ubiquitin-protein liga	yes	no	0.170	0.107	0.352	2e-06
Q5RF77	571	E3 ubiquitin-protein liga	yes	no	0.170	0.117	0.352	3e-06
Q640D5	323	Polycomb complex protein	N/A	no	0.224	0.272	0.265	4e-06
Q91648	326	Polycomb complex protein	N/A	no	0.224	0.269	0.309	7e-06
Q5SDR3	326	Polycomb complex protein	no	no	0.224	0.269	0.300	1e-05
Q9TST0	326	Polycomb complex protein	N/A	no	0.224	0.269	0.300	1e-05

>sp|Q5FWP4|CHFR_XENLA E3 ubiquitin-protein ligase CHFR OS=Xenopus laevis GN=chfr PE=1 SV=1

 Score = 56.6 bits (135), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 30/97 (30%), Positives = 50/97 (51%), Gaps = 12/97 (12%)

Query: 72  IPPKCPFGY--DAQSFKIGP------LSCMICQALLFECSKCTPCSHVYCKACISRFKD- 122
           +P  CP G   ++++  + P      L+C+ICQ LL +C    PC H +C AC S + + 
Sbjct: 238 VPASCPIGASDESKTPSMKPDKMEETLTCIICQELLHDCVSLQPCMHTFCAACYSGWMER 297

Query: 123 ---CPLCGADIEKIEADTTLQDVVDRFIEGHARIKRS 156
              CP C   +E+I  +  L ++V+ ++  H    RS
Sbjct: 298 SSLCPTCRCPVERICKNHILNNLVEAYLIQHPEKCRS 334

E3 ubiquitin-protein ligase that functions in the antephase checkpoint by actively delaying passage into mitosis in response to microtubule poisons. Acts in early prophase before chromosome condensation, when the centrosome move apart from each other along the periphery of the nucleus. Probably involved in signaling the presence of mitotic stress caused by microtubule poisons by mediating the 'Lys-48'-linked ubiquitination of target proteins, leading to their degradation by the proteasome. May also promote the formation of 'Lys-63'-linked polyubiquitin chains and functions with the specific ubiquitin-conjugating ubc13-mms2 (ube2n-ube2v2) heterodimer. Substrates that are polyubiquitinated at 'Lys-63' are usually not targeted for degradation, but are rather involved in signaling cellular stress.
Xenopus laevis (taxid: 8355)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|A5WW08|CHFR_DANRE E3 ubiquitin-protein ligase CHFR OS=Danio rerio GN=chfr PE=2 SV=1

 Score = 55.8 bits (133), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 23/65 (35%), Positives = 38/65 (58%), Gaps = 4/65 (6%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD----CPLCGADIEKIEADTTLQDVVDR 145
           L+C+ICQ LL++C    PC H +C AC S + +    CP C   +E+I  +  L ++V+ 
Sbjct: 275 LTCIICQDLLYDCISVQPCMHTFCAACYSGWMERSSFCPTCRCPVERIRKNHILNNLVEA 334

Query: 146 FIEGH 150
           ++  H
Sbjct: 335 YLLQH 339

E3 ubiquitin-protein ligase that functions in the antephase checkpoint by actively delaying passage into mitosis in response to microtubule poisons. Acts in early prophase before chromosome condensation, when the centrosome move apart from each other along the periphery of the nucleus. Probably involved in signaling the presence of mitotic stress caused by microtubule poisons by mediating the 'Lys-48'-linked ubiquitination of target proteins, leading to their degradation by the proteasome. May also promote the formation of 'Lys-63'-linked polyubiquitin chains and functions with the specific ubiquitin-conjugating ubc13-mms2 (ube2n-ube2v2) heterodimer. Substrates that are polyubiquitinated at 'Lys-63' are usually not targeted for degradation, but are rather involved in signaling cellular stress.

Danio rerio (taxid: 7955)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q96EP1|CHFR_HUMAN E3 ubiquitin-protein ligase CHFR OS=Homo sapiens GN=CHFR PE=1 SV=2

 Score = 54.3 bits (129), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 25/71 (35%), Positives = 39/71 (54%), Gaps = 4/71 (5%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD----CPLCGADIEKIEADTTLQDVVDR 145
           L+C+ICQ LL +C    PC H +C AC S + +    CP C   +E+I  +  L ++V+ 
Sbjct: 302 LTCIICQDLLHDCVSLQPCMHTFCAACYSGWMERSSLCPTCRCPVERICKNHILNNLVEA 361

Query: 146 FIEGHARIKRS 156
           ++  H    RS
Sbjct: 362 YLIQHPDKSRS 372

E3 ubiquitin-protein ligase that functions in the antephase checkpoint by actively delaying passage into mitosis in response to microtubule poisons. Acts in early prophase before chromosome condensation, when the centrosome move apart from each other along the periphery of the nucleus. Probably involved in signaling the presence of mitotic stress caused by microtubule poisons by mediating the 'Lys-48'-linked ubiquitination of target proteins, leading to their degradation by the proteasome. Promotes the ubiquitination and subsequent degradation of AURKA and PLK1. Probably acts as a tumor suppressor, possibly by mediating the polyubiquitination of HDAC1, leading to its degradation. May also promote the formation of 'Lys-63'-linked polyubiquitin chains and functions with the specific ubiquitin-conjugating UBC13-MMS2 (UBE2N-UBE2V2) heterodimer. Substrates that are polyubiquitinated at 'Lys-63' are usually not targeted for degradation, but are rather involved in signaling cellular stress.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q810L3|CHFR_MOUSE E3 ubiquitin-protein ligase CHFR OS=Mus musculus GN=Chfr PE=1 SV=1

 Score = 53.9 bits (128), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 25/71 (35%), Positives = 39/71 (54%), Gaps = 4/71 (5%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD----CPLCGADIEKIEADTTLQDVVDR 145
           L+C+ICQ LL +C    PC H +C AC S + +    CP C   +E+I  +  L ++V+ 
Sbjct: 301 LTCIICQDLLHDCVSLQPCMHTFCAACYSGWMERSSLCPTCRCPVERICKNHILNNLVEA 360

Query: 146 FIEGHARIKRS 156
           ++  H    RS
Sbjct: 361 YLIQHPDKSRS 371

E3 ubiquitin-protein ligase that functions in the antephase checkpoint by actively delaying passage into mitosis in response to microtubule poisons. Acts in early prophase before chromosome condensation, when the centrosome move apart from each other along the periphery of the nucleus. Probably involved in signaling the presence of mitotic stress caused by microtubule poisons by mediating the 'Lys-48'-linked ubiquitination of target proteins, leading to their degradation by the proteasome. Promotes the ubiquitination and subsequent degradation of AURKA and PLK1. Probably acts as a tumor suppressor, possibly by mediating the polyubiquitination of HDAC1, leading to its degradation. May also promote the formation of 'Lys-63'-linked polyubiquitin chains and functions with the specific ubiquitin-conjugating UBC13-MMS2 (UBE2N-UBE2V2) heterodimer. Substrates that are polyubiquitinated at 'Lys-63' are usually not targeted for degradation, but are rather involved in signaling cellular stress.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q6P256|CHFR_XENTR E3 ubiquitin-protein ligase CHFR OS=Xenopus tropicalis GN=chfr PE=2 SV=1

 Score = 53.9 bits (128), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 25/71 (35%), Positives = 39/71 (54%), Gaps = 4/71 (5%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD----CPLCGADIEKIEADTTLQDVVDR 145
           L+C+ICQ LL +C    PC H +C AC S + +    CP C   +E+I  +  L ++V+ 
Sbjct: 265 LTCIICQELLHDCVSLQPCMHTFCAACYSGWMERSSLCPTCRCPVERICKNHILNNLVEA 324

Query: 146 FIEGHARIKRS 156
           ++  H    RS
Sbjct: 325 YLIQHPEKCRS 335

E3 ubiquitin-protein ligase that functions in the antephase checkpoint by actively delaying passage into mitosis in response to microtubule poisons. Acts in early prophase before chromosome condensation, when the centrosome move apart from each other along the periphery of the nucleus. Probably involved in signaling the presence of mitotic stress caused by microtubule poisons by mediating the 'Lys-48'-linked ubiquitination of target proteins, leading to their degradation by the proteasome. May also promote the formation of 'Lys-63'-linked polyubiquitin chains and functions with the specific ubiquitin-conjugating ubc13-mms2 (ube2n-ube2v2) heterodimer. Substrates that are polyubiquitinated at 'Lys-63' are usually not targeted for degradation, but are rather involved in signaling cellular stress.

Xenopus tropicalis (taxid: 8364)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5RF77|CHFR_PONAB E3 ubiquitin-protein ligase CHFR OS=Pongo abelii GN=CHFR PE=2 SV=1

 Score = 53.5 bits (127), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 25/71 (35%), Positives = 39/71 (54%), Gaps = 4/71 (5%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD----CPLCGADIEKIEADTTLQDVVDR 145
           L+C+ICQ LL +C    PC H +C AC S + +    CP C   +E+I  +  L ++V+ 
Sbjct: 210 LTCIICQDLLHDCVSLQPCMHTFCAACYSGWMERSSLCPTCRCPVERICKNHILNNLVEA 269

Query: 146 FIEGHARIKRS 156
           ++  H    RS
Sbjct: 270 YLIQHPDKSRS 280

E3 ubiquitin-protein ligase that functions in the antephase checkpoint by actively delaying passage into mitosis in response to microtubule poisons. Acts in early prophase before chromosome condensation, when the centrosome move apart from each other along the periphery of the nucleus. Probably involved in signaling the presence of mitotic stress caused by microtubule poisons by mediating the 'Lys-48'-linked ubiquitination of target proteins, leading to their degradation by the proteasome. Promotes the ubiquitination and subsequent degradation of AURKA and PLK1. Probably acts as a tumor suppressor, possibly by mediating the polyubiquitination of HDAC1, leading to its degradation. May also promote the formation of 'Lys-63'-linked polyubiquitin chains and functions with the specific ubiquitin-conjugating UBC13-MMS2 (UBE2N-UBE2V2) heterodimer. Substrates that are polyubiquitinated at 'Lys-63' are usually not targeted for degradation, but are rather involved in signaling cellular stress.

Pongo abelii (taxid: 9601)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q640D5|BMI1B_XENLA Polycomb complex protein BMI-1-B OS=Xenopus laevis GN=bmi1b PE=2 SV=1

 Score = 53.1 bits (126), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 30/113 (26%), Positives = 52/113 (46%), Gaps = 25/113 (22%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEK------IEADTTL 139
           L C++C     + +    C H +CK CI R+    K CP+C   + K      I AD TL
Sbjct: 16  LMCVLCGGYFIDAATIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRADKTL 75

Query: 140 QDVVDRFIEG---------------HARIKRSHTNSDKEEDEAGENKKVIYED 177
           QD+V + + G               H  +  ++ +++   + A E+K++I +D
Sbjct: 76  QDIVYKLVPGLFKGEMKRRRDFYAAHPSVDAANGSNEDRGEVADEDKRIITDD 128

Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A 'Lys-119', rendering chromatin heritably changed in its expressibility. In the PRC1 complex, it is required to stimulate the E3 ubiquitin-protein ligase activity of rnf2.

Xenopus laevis (taxid: 8355)

>sp|Q91648|BMI1A_XENLA Polycomb complex protein BMI-1-A OS=Xenopus laevis GN=bmi1a PE=1 SV=1

 Score = 52.4 bits (124), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 35/113 (30%), Positives = 54/113 (47%), Gaps = 25/113 (22%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEK------IEADTTL 139
           L C++C     + +    C H +CK CI R+    K CP+C   + K      I AD TL
Sbjct: 16  LMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRADKTL 75

Query: 140 QDVVDRFIEG--HARIKR------SHTNSD----KEEDE---AGENKKVIYED 177
           QD+V + + G     +KR      +H ++D      ED    A E+K++I +D
Sbjct: 76  QDIVYKLVPGLFKGEMKRRRDFYAAHPSADVANGSNEDRGEVADEDKRIITDD 128

Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A 'Lys-119', rendering chromatin heritably changed in its expressibility. In the PRC1 complex, it is required to stimulate the E3 ubiquitin-protein ligase activity of rnf2.

Xenopus laevis (taxid: 8355)

>sp|Q5SDR3|BMI1_CHICK Polycomb complex protein BMI-1 OS=Gallus gallus GN=BMI1 PE=2 SV=1

 Score = 51.2 bits (121), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 34/113 (30%), Positives = 55/113 (48%), Gaps = 25/113 (22%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEK------IEADTTL 139
           L C++C     + +    C H +CK CI R+    K CP+C   + K      I +D TL
Sbjct: 16  LMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTL 75

Query: 140 QDVVDRFIEGHAR--IKR------SHTNSD----KEEDE---AGENKKVIYED 177
           QD+V + + G  +  +KR      +H ++D      ED    A E+K++I +D
Sbjct: 76  QDIVYKLVPGLFKNEMKRRRDFYAAHPSADAANGSNEDRGEVADEDKRIITDD 128

Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A 'Lys-119', rendering chromatin heritably changed in its expressibility. In the PRC1 complex, it is required to stimulate the E3 ubiquitin-protein ligase activity of RNF2/RING2.

Gallus gallus (taxid: 9031)

>sp|Q9TST0|BMI1_FELCA Polycomb complex protein BMI-1 OS=Felis catus GN=BMI1 PE=2 SV=1

 Score = 51.2 bits (121), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 34/113 (30%), Positives = 55/113 (48%), Gaps = 25/113 (22%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEK------IEADTTL 139
           L C++C     + +    C H +CK CI R+    K CP+C   + K      I +D TL
Sbjct: 16  LMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTL 75

Query: 140 QDVVDRFIEGHAR--IKR------SHTNSD----KEEDE---AGENKKVIYED 177
           QD+V + + G  +  +KR      +H ++D      ED    A E+K++I +D
Sbjct: 76  QDIVYKLVPGLFKNEMKRRRDFYAAHPSADAANGSNEDRGEVADEDKRIITDD 128

Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A 'Lys-119', rendering chromatin heritably changed in its expressibility. In the PRC1 complex, it is required to stimulate the E3 ubiquitin-protein ligase activity of RNF2/RING2.

Felis catus (taxid: 9685)

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	392
118489075	363	unknown [Populus trichocarpa x Populus d	0.908	0.980	0.734	1e-154
224075908	353	predicted protein [Populus trichocarpa]	0.872	0.968	0.755	1e-154
296085428	394	unnamed protein product [Vitis vinifera]	0.895	0.890	0.727	1e-152
225465383	369	PREDICTED: uncharacterized protein LOC10	0.895	0.951	0.727	1e-152
224053090	363	predicted protein [Populus trichocarpa]	0.872	0.942	0.736	1e-151
356508245	367	PREDICTED: uncharacterized protein LOC10	0.900	0.961	0.716	1e-149
356517714	367	PREDICTED: uncharacterized protein LOC10	0.900	0.961	0.705	1e-146
297820180	415	binding protein [Arabidopsis lyrata subs	0.920	0.869	0.694	1e-145
449458710	404	PREDICTED: uncharacterized protein LOC10	0.969	0.940	0.653	1e-145
255569221	392	ubiquitin-protein ligase, putative [Rici	0.964	0.964	0.680	1e-144

>gi|118489075|gb|ABK96344.1| unknown [Populus trichocarpa x Populus deltoides]

 Score =  552 bits (1422), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 285/388 (73%), Positives = 309/388 (79%), Gaps = 32/388 (8%)

Query: 1   MTPVCPFAKA-RPDDASPRKPGENSNKYPAECPFSKARPDDAASRKAVENSAKPQAEHD- 58
           MTPVCPF KA RPDD SPRKPG        ECP                   K  AEH+ 
Sbjct: 1   MTPVCPFVKASRPDDGSPRKPG--------ECPI------------------KHGAEHEG 34

Query: 59  GDKAKSDS-MDSASIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACI 117
           G KAK +S  +SA++ PKCPFGYD+Q+FK+GPLSCMICQALLF+CSKC PCSHVYCK CI
Sbjct: 35  GGKAKKESGGESATVSPKCPFGYDSQTFKLGPLSCMICQALLFDCSKCVPCSHVYCKVCI 94

Query: 118 SRFKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIKRSHTNSDKEEDEAGENKKVIYED 177
           SRFKDCPLCGAD+EKIEADT LQ VVDRFI+GHARIKRSH + DK E EAGENKKVIYED
Sbjct: 95  SRFKDCPLCGADVEKIEADTDLQSVVDRFIDGHARIKRSHVDMDK-EGEAGENKKVIYED 153

Query: 178 VSMERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGML 237
           VS+ERGAFLVQQAMRAFRAQNVESAKSRLSLC EDIR +IE +GNTSELCSQLGAVLGML
Sbjct: 154 VSLERGAFLVQQAMRAFRAQNVESAKSRLSLCAEDIRGRIETVGNTSELCSQLGAVLGML 213

Query: 238 GDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARS 297
           GDCCRA+GDA +AV YF +SVEFL KL   DLEI HT SVSLNKIGDLKYY GDL+AARS
Sbjct: 214 GDCCRAVGDAGSAVTYFEESVEFLSKLAAADLEITHTHSVSLNKIGDLKYYDGDLEAARS 273

Query: 298 YYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL 357
           YY+RSLNVRRDA+K H +V SQ LDVAVSLAKVAD DRSIGNED A+D F EAIK LESL
Sbjct: 274 YYMRSLNVRRDAIKHHPSVSSQTLDVAVSLAKVADADRSIGNEDAALDRFHEAIKLLESL 333

Query: 358 TLKPEEAGLEQRCWNSSTTNFQKNHLNQ 385
           TLKPEEAGLEQR    S   F  N L +
Sbjct: 334 TLKPEEAGLEQR--RLSVLEFLNNQLAE 359

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224075908|ref|XP_002304823.1| predicted protein [Populus trichocarpa] gi|222842255|gb|EEE79802.1| predicted protein [Populus trichocarpa]

 Score =  549 bits (1415), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 281/372 (75%), Positives = 304/372 (81%), Gaps = 30/372 (8%)

Query: 1   MTPVCPFAKA-RPDDASPRKPGENSNKYPAECPFSKARPDDAASRKAVENSAKPQAEHD- 58
           MTPVCPF KA RPDD SPRKPG        ECP                   K  AEH+ 
Sbjct: 1   MTPVCPFVKASRPDDGSPRKPG--------ECPI------------------KHGAEHEG 34

Query: 59  GDKAKSDS-MDSASIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACI 117
           G KAK +S  +SA++ PKCPFGYD+Q+FK+GPLSCMICQALLF+CSKC PCSHVYCK CI
Sbjct: 35  GGKAKKESGGESATVSPKCPFGYDSQTFKLGPLSCMICQALLFDCSKCVPCSHVYCKVCI 94

Query: 118 SRFKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIKRSHTNSDKEEDEAGENKKVIYED 177
           SRFKDCPLCGAD+EKIEADT LQ VVDRFI+GHARIKRSH + DK E EAGENKKVIYED
Sbjct: 95  SRFKDCPLCGADVEKIEADTDLQSVVDRFIDGHARIKRSHVDMDK-EGEAGENKKVIYED 153

Query: 178 VSMERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGML 237
           VS+ERGAFLVQQAMRAFRAQNVESAKSRLSLC EDIR +IE +GNTSELCSQLGAVLGML
Sbjct: 154 VSLERGAFLVQQAMRAFRAQNVESAKSRLSLCAEDIRGRIETVGNTSELCSQLGAVLGML 213

Query: 238 GDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARS 297
           GDCCRA+GDA +AV YF +SVEFL KL   DLEI HT SVSLNKIGDLKYY GDL+AARS
Sbjct: 214 GDCCRAVGDAGSAVTYFEESVEFLSKLAAADLEITHTHSVSLNKIGDLKYYDGDLEAARS 273

Query: 298 YYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL 357
           YY+RSLNVRRDA+K H +V SQ LDVAVSLAKVAD DRSIGNED A+D F EAIK LESL
Sbjct: 274 YYMRSLNVRRDAIKHHPSVSSQTLDVAVSLAKVADADRSIGNEDAALDRFHEAIKLLESL 333

Query: 358 TLKPEEAGLEQR 369
           TLKPEEAGLEQR
Sbjct: 334 TLKPEEAGLEQR 345

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296085428|emb|CBI29160.3| unnamed protein product [Vitis vinifera]

 Score =  545 bits (1405), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 269/370 (72%), Positives = 302/370 (81%), Gaps = 19/370 (5%)

Query: 1   MTPVCPFAKA-RPDDASPRKPGENSNKYPAECPFSKARPDDAASRKAVENSAKPQAEHDG 59
           MTPVCPF KA RPDDA+ RKP E  +K+  E    K + D                  D 
Sbjct: 26  MTPVCPFVKAARPDDATSRKPNECPHKHQLELE-GKGKKDSG----------------DS 68

Query: 60  DKAKSDSMDSASIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISR 119
              K DS+D+ASI PKCPFGYD+Q+FK+GPLSCMICQALLFE SKC PCSHVYCKACISR
Sbjct: 69  ASTKKDSVDAASISPKCPFGYDSQTFKLGPLSCMICQALLFESSKCVPCSHVYCKACISR 128

Query: 120 FKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIKRSHTNSDKEEDEAGENKKVIYEDVS 179
           FKDCPLCGADIEKIEAD  LQ+ VDRFIEGH RIKR H N+D EE   G++K VIYEDVS
Sbjct: 129 FKDCPLCGADIEKIEADMNLQNTVDRFIEGHGRIKRPHVNTDSEE-AVGDDKTVIYEDVS 187

Query: 180 MERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGD 239
           +ERGAFLVQ AMRAFRA NVESAKSRLS+C EDIR Q+E++GNTSELCSQLGAVLGMLGD
Sbjct: 188 LERGAFLVQHAMRAFRANNVESAKSRLSICAEDIRGQLEKLGNTSELCSQLGAVLGMLGD 247

Query: 240 CCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYY 299
           CCRA GDAD+AV YF +SV+FL KLP DDLEI HTLSVSLNKIGDLKYY GDL+AARSYY
Sbjct: 248 CCRATGDADSAVTYFEESVDFLRKLPADDLEITHTLSVSLNKIGDLKYYDGDLEAARSYY 307

Query: 300 VRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTL 359
            +SL+VRR+A+K  SNVPSQ+LDVAVSLAKVADV+R++GNEDVA++GF+EAIK LESLTL
Sbjct: 308 SQSLDVRRNAIKDRSNVPSQILDVAVSLAKVADVNRNVGNEDVAINGFEEAIKLLESLTL 367

Query: 360 KPEEAGLEQR 369
             EEAGLEQR
Sbjct: 368 SSEEAGLEQR 377

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225465383|ref|XP_002276838.1| PREDICTED: uncharacterized protein LOC100262520 [Vitis vinifera]

 Score =  545 bits (1404), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 269/370 (72%), Positives = 302/370 (81%), Gaps = 19/370 (5%)

Query: 1   MTPVCPFAKA-RPDDASPRKPGENSNKYPAECPFSKARPDDAASRKAVENSAKPQAEHDG 59
           MTPVCPF KA RPDDA+ RKP E  +K+  E    K + D                  D 
Sbjct: 1   MTPVCPFVKAARPDDATSRKPNECPHKHQLELE-GKGKKDSG----------------DS 43

Query: 60  DKAKSDSMDSASIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISR 119
              K DS+D+ASI PKCPFGYD+Q+FK+GPLSCMICQALLFE SKC PCSHVYCKACISR
Sbjct: 44  ASTKKDSVDAASISPKCPFGYDSQTFKLGPLSCMICQALLFESSKCVPCSHVYCKACISR 103

Query: 120 FKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIKRSHTNSDKEEDEAGENKKVIYEDVS 179
           FKDCPLCGADIEKIEAD  LQ+ VDRFIEGH RIKR H N+D EE   G++K VIYEDVS
Sbjct: 104 FKDCPLCGADIEKIEADMNLQNTVDRFIEGHGRIKRPHVNTDSEE-AVGDDKTVIYEDVS 162

Query: 180 MERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGD 239
           +ERGAFLVQ AMRAFRA NVESAKSRLS+C EDIR Q+E++GNTSELCSQLGAVLGMLGD
Sbjct: 163 LERGAFLVQHAMRAFRANNVESAKSRLSICAEDIRGQLEKLGNTSELCSQLGAVLGMLGD 222

Query: 240 CCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYY 299
           CCRA GDAD+AV YF +SV+FL KLP DDLEI HTLSVSLNKIGDLKYY GDL+AARSYY
Sbjct: 223 CCRATGDADSAVTYFEESVDFLRKLPADDLEITHTLSVSLNKIGDLKYYDGDLEAARSYY 282

Query: 300 VRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTL 359
            +SL+VRR+A+K  SNVPSQ+LDVAVSLAKVADV+R++GNEDVA++GF+EAIK LESLTL
Sbjct: 283 SQSLDVRRNAIKDRSNVPSQILDVAVSLAKVADVNRNVGNEDVAINGFEEAIKLLESLTL 342

Query: 360 KPEEAGLEQR 369
             EEAGLEQR
Sbjct: 343 SSEEAGLEQR 352

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224053090|ref|XP_002297702.1| predicted protein [Populus trichocarpa] gi|222844960|gb|EEE82507.1| predicted protein [Populus trichocarpa]

 Score =  541 bits (1394), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 274/372 (73%), Positives = 304/372 (81%), Gaps = 30/372 (8%)

Query: 1   MTPVCPFAKA-RPDDASPRKPGENSNKYPAECPFSKARPDDAASRKAVENSAKPQAEHD- 58
           MT VCP  KA RPDD S RKPG        ECP                   K  AEH+ 
Sbjct: 1   MTTVCPLVKASRPDDGSSRKPG--------ECP------------------EKHAAEHEG 34

Query: 59  GDKAKSDSMD-SASIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACI 117
           G KAK +S+  SA++ PKCPFGYD+Q+FK+GP SCMICQALLF+CSKC PCSHVYCK CI
Sbjct: 35  GGKAKKESVGASATVSPKCPFGYDSQTFKLGPHSCMICQALLFDCSKCVPCSHVYCKVCI 94

Query: 118 SRFKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIKRSHTNSDKEEDEAGENKKVIYED 177
           SRFKDCPLCGADIE+IEADT LQ VVDRF++GHARIKRSH + DK E + GENKKVIYED
Sbjct: 95  SRFKDCPLCGADIERIEADTDLQSVVDRFVDGHARIKRSHVDMDK-EGKVGENKKVIYED 153

Query: 178 VSMERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGML 237
           VS+ERGAFLVQQAMRAFRAQNVESA+SRLSLC EDIR QIE  G+TSELCSQLGAVLGML
Sbjct: 154 VSLERGAFLVQQAMRAFRAQNVESARSRLSLCAEDIRGQIEIAGSTSELCSQLGAVLGML 213

Query: 238 GDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARS 297
           GDCCR+MGDA +AV+YF +SVEFL KLP  DLEI+HTLSVSLNKIGDLKYY GDL+AARS
Sbjct: 214 GDCCRSMGDAGSAVSYFEESVEFLSKLPAADLEIMHTLSVSLNKIGDLKYYDGDLEAARS 273

Query: 298 YYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL 357
           YY+RSLNVRRDA+K H +V SQ LDVAVSLAKVADVDR+IGNED A+D F++AIK LESL
Sbjct: 274 YYIRSLNVRRDAIKHHPSVSSQTLDVAVSLAKVADVDRTIGNEDAALDRFRDAIKLLESL 333

Query: 358 TLKPEEAGLEQR 369
           TLKPEEAGLEQR
Sbjct: 334 TLKPEEAGLEQR 345

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356508245|ref|XP_003522869.1| PREDICTED: uncharacterized protein LOC100813258 [Glycine max]

 Score =  534 bits (1376), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 275/384 (71%), Positives = 307/384 (79%), Gaps = 31/384 (8%)

Query: 1   MTPVCPFAKARPDDASPRKPGENSNKYPAECPFSKARPDDA-ASRKAVENSAKPQAEHDG 59
           MTPVCPF KA                         ARPDD  AS+K+ ENS K QAE + 
Sbjct: 3   MTPVCPFVKA-------------------------ARPDDNNASKKSGENSMKHQAESES 37

Query: 60  DKAKSDSMDSASIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISR 119
            K K +  DSAS  PKCPFGYD+QSFKIGPLSC +CQALLF+ SKC PCSHV+CKACISR
Sbjct: 38  -KVKKEVNDSASTSPKCPFGYDSQSFKIGPLSCTVCQALLFDTSKCVPCSHVFCKACISR 96

Query: 120 FKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIKRSHTNSDKEEDEAGENKKVIYEDVS 179
           FKDCPLCGADI KIE D  LQ VVDRFIEGHARIKRS  ++DK E EA E+K+VIYEDVS
Sbjct: 97  FKDCPLCGADIVKIEPDANLQGVVDRFIEGHARIKRS-VSADKGE-EAAESKQVIYEDVS 154

Query: 180 MERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGD 239
           +ERG+FLVQQAMRAFRAQN+ESAKSRL+ C EDIRDQ+E++GNTSELCSQLGAVLGMLGD
Sbjct: 155 LERGSFLVQQAMRAFRAQNLESAKSRLNFCAEDIRDQLEKVGNTSELCSQLGAVLGMLGD 214

Query: 240 CCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYY 299
           CCRAMGDA +AVAYF +SV+FL KLP DDLEI HTLSVSLNKIGDLKYY GDLQAARSYY
Sbjct: 215 CCRAMGDASSAVAYFEESVQFLSKLPKDDLEITHTLSVSLNKIGDLKYYDGDLQAARSYY 274

Query: 300 VRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTL 359
            +SLNVRRDAVK +SNVPSQVLDVAVSLAKVADVDR++G+E +A DGFQEAI  LESLTL
Sbjct: 275 FKSLNVRRDAVKHNSNVPSQVLDVAVSLAKVADVDRNLGDEKLATDGFQEAIDLLESLTL 334

Query: 360 KPEEAGLEQRCWNSSTTNFQKNHL 383
           K E +GLEQR    S  +F ++ L
Sbjct: 335 KSEASGLEQR--RQSVIDFLRSQL 356

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356517714|ref|XP_003527531.1| PREDICTED: uncharacterized protein LOC100813844 [Glycine max]

 Score =  523 bits (1347), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 271/384 (70%), Positives = 302/384 (78%), Gaps = 31/384 (8%)

Query: 1   MTPVCPFAKA-RPDDASPRKPGENSNKYPAECPFSKARPDDAASRKAVENSAKPQAEHDG 59
           MTPVCPF KA RPD                         D+ AS+K+ ENS K Q E + 
Sbjct: 3   MTPVCPFVKASRPD-------------------------DNNASKKSGENSMKHQVESES 37

Query: 60  DKAKSDSMDSASIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISR 119
            K K +  DSAS  PKCPFGYD+ SFKIGPLSC +CQALLF+ SKC PCSHV+CKACI R
Sbjct: 38  -KGKKEVNDSASTSPKCPFGYDSHSFKIGPLSCTVCQALLFDTSKCVPCSHVFCKACILR 96

Query: 120 FKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIKRSHTNSDKEEDEAGENKKVIYEDVS 179
           FKDCPLCGADI KIE D  LQ VVD FIEGHARIKRS  +SDK E EA E+KKVIYEDVS
Sbjct: 97  FKDCPLCGADIVKIEPDANLQGVVDHFIEGHARIKRS-VSSDKGE-EATESKKVIYEDVS 154

Query: 180 MERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGD 239
           +ERG+FLVQQAMRAFRAQN+ESAKSRL+LC EDIRDQ+E++GNTSELCSQLGAVLGMLGD
Sbjct: 155 LERGSFLVQQAMRAFRAQNLESAKSRLNLCAEDIRDQLEKVGNTSELCSQLGAVLGMLGD 214

Query: 240 CCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYY 299
           CCRAMGDA +AVAYF +SV+FL KLP DDLEI HTLSVSLNKIGDLKYY  DLQAARSYY
Sbjct: 215 CCRAMGDASSAVAYFEESVQFLSKLPKDDLEITHTLSVSLNKIGDLKYYDEDLQAARSYY 274

Query: 300 VRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTL 359
            +SLNVRRD VK +SNVPSQVLDVAVSLAKVADVDR++G+E +A DGFQEAI  LESLTL
Sbjct: 275 FKSLNVRRDVVKHNSNVPSQVLDVAVSLAKVADVDRNLGDEKLATDGFQEAIDLLESLTL 334

Query: 360 KPEEAGLEQRCWNSSTTNFQKNHL 383
           K E +GLEQR    S  +F ++ L
Sbjct: 335 KSEASGLEQR--RQSVLDFLRSQL 356

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297820180|ref|XP_002877973.1| binding protein [Arabidopsis lyrata subsp. lyrata] gi|297323811|gb|EFH54232.1| binding protein [Arabidopsis lyrata subsp. lyrata]

 Score =  520 bits (1340), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 255/367 (69%), Positives = 300/367 (81%), Gaps = 6/367 (1%)

Query: 5   CPFAKA-RPDDASPRKPGENSNKYPAECPFSKA-RPDDAASRKAVENSAKPQAEHDGDKA 62
           CPF+KA RPDDAS RK GE +    + CPFSKA RPDDA++RK  E ++    EH+G K 
Sbjct: 30  CPFSKAARPDDASARKQGEIT---ASGCPFSKAARPDDASARKQDEIASNGCPEHEG-KL 85

Query: 63  KSDSMDSASIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISRFKD 122
             DS DSA++P KCPFGYD+Q+FK+GP SCM+CQALL+E S+C PC+HV+CK C+SRF D
Sbjct: 86  NKDSTDSATVPAKCPFGYDSQTFKLGPFSCMLCQALLYESSRCVPCTHVFCKVCVSRFND 145

Query: 123 CPLCGADIEKIEADTTLQDVVDRFIEGHARIKRSHTNSDKEEDEAGENKKVIYEDVSMER 182
           CPLCGADIE IE D  LQ +VD+FIEGHARIKRS  N  ++E+   +NKKVIY DVSMER
Sbjct: 146 CPLCGADIESIEVDENLQKMVDQFIEGHARIKRSVVNGTEKEEIENDNKKVIYADVSMER 205

Query: 183 GAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCR 242
           G+FLVQQAMRAF AQN ESAKSRL++CTEDIRDQ+ R GNT ELCSQLGAVLGMLGDC R
Sbjct: 206 GSFLVQQAMRAFSAQNYESAKSRLAMCTEDIRDQLGREGNTPELCSQLGAVLGMLGDCSR 265

Query: 243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRS 302
           AMGD+ +AV +F +SVEFLMKLP++DLEI HTLSVSLNKIGDLKYY  DLQAARSYY R+
Sbjct: 266 AMGDSSSAVKHFEESVEFLMKLPLNDLEITHTLSVSLNKIGDLKYYDEDLQAARSYYDRA 325

Query: 303 LNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPE 362
           LNVRRDA+K H N PSQ+LDVAVSLAKVAD+DR++ NE  A DGF+E +K LESL L  E
Sbjct: 326 LNVRRDAMKHHPNAPSQILDVAVSLAKVADIDRTLQNEVAATDGFKEGMKLLESLKLDSE 385

Query: 363 EAGLEQR 369
           ++ LEQR
Sbjct: 386 DSALEQR 392

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449458710|ref|XP_004147090.1| PREDICTED: uncharacterized protein LOC101210945 [Cucumis sativus] gi|449503311|ref|XP_004161939.1| PREDICTED: uncharacterized LOC101210945 [Cucumis sativus]

 Score =  520 bits (1339), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 266/407 (65%), Positives = 309/407 (75%), Gaps = 27/407 (6%)

Query: 1   MTPVCPFAK-ARPDDASPRK-PGENSNKYPAECPFSKA-RPDDAASRKAVENSAKP---- 53
           MTPVCPF K ARPDDAS RK  GE++      CPF+K+ R DDA+SRK    SA P    
Sbjct: 1   MTPVCPFVKSARPDDASSRKHQGESA------CPFAKSGRSDDASSRKPQSESACPVSKS 54

Query: 54  ------------QAEHDGDKAKSDSMDSASIPPKCPFGYDAQSFKIGPLSCMICQALLFE 101
                       QAE + + A+ D  D+A    KCPFGYD+Q+FKIGPLSCMICQALLFE
Sbjct: 55  VRSDDASSLKKNQAEAESNGAEKDVADAAGAGGKCPFGYDSQTFKIGPLSCMICQALLFE 114

Query: 102 CSKCTPCSHVYCKACISRFKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIKRSHTNSD 161
           CS+C PC+H++CKACISRF DCPLCGADIEKIEAD  LQ  VDRFIEGHARIKR   NSD
Sbjct: 115 CSRCVPCTHIFCKACISRFNDCPLCGADIEKIEADDNLQATVDRFIEGHARIKRPQVNSD 174

Query: 162 KEEDEAGENKKVIYEDVSMERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMG 221
           KE+++  E+K VIYEDVSMERGAFL+QQAMRAFRAQN+ESAKSRL++C EDIRDQ+E+MG
Sbjct: 175 KEQEKVNESKVVIYEDVSMERGAFLIQQAMRAFRAQNIESAKSRLTVCVEDIRDQLEKMG 234

Query: 222 NTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNK 281
           ++ ELCSQLGAVLG LGDCCRA GDA +A+ +F +SVEFL KLP    EI HTLSVSLNK
Sbjct: 235 SSPELCSQLGAVLGTLGDCCRAAGDAASAIKHFEESVEFLSKLPEKTHEITHTLSVSLNK 294

Query: 282 IGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNED 341
           IGDLKYY GDL+AARSYY+RSLNVR+DA K H + P+Q+LDVAVSLAKVADVD  +GNED
Sbjct: 295 IGDLKYYEGDLEAARSYYLRSLNVRQDASKHHPDDPAQILDVAVSLAKVADVDSGLGNED 354

Query: 342 VAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPK 388
           +AVD FQE IK LESL+L  E   L+ R    S   F +  L +  K
Sbjct: 355 MAVDRFQEGIKLLESLSLNSENPALQHR--RESVMKFLEGQLAERQK 399

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255569221|ref|XP_002525579.1| ubiquitin-protein ligase, putative [Ricinus communis] gi|223535158|gb|EEF36838.1| ubiquitin-protein ligase, putative [Ricinus communis]

 Score =  518 bits (1333), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 264/388 (68%), Positives = 300/388 (77%), Gaps = 10/388 (2%)

Query: 1   MTPVCPFAKA-RPDDASPRKPGENSNKYPAECPFSKARPDDAASRKAVENSAKPQAEHDG 59
           MTPVCPF KA RPDD+  +K  EN +K+  E    KA+ +      +V NS  P+     
Sbjct: 1   MTPVCPFVKASRPDDSPAKKTSENQSKHGQELEL-KAKKESCGGGDSV-NSNSPKCPFGY 58

Query: 60  DKAKSDSMDS----ASIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKA 115
           D   +D+  S    A+IP KCP GYD++SFKIGPLSC+ICQALLF+ +KC PC+H++CKA
Sbjct: 59  DSVNADANASPKSAATIPAKCPLGYDSRSFKIGPLSCIICQALLFDTTKCVPCNHIFCKA 118

Query: 116 CISRFKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIKRSHTNSDKEEDEAGENKKVIY 175
           C+S F+DCPLCGADIEK EA+  LQ  VDRFIEGHARIKRSH N   EE+E GEN KVIY
Sbjct: 119 CVSPFRDCPLCGADIEKFEAEMNLQATVDRFIEGHARIKRSHINK-HEEEEVGENTKVIY 177

Query: 176 EDVSMERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLG 235
           EDVS+ERGAFLVQ AMRAFRA+N ESAKSRLSLC EDIR QIE  GNT ELCSQLGAVLG
Sbjct: 178 EDVSLERGAFLVQHAMRAFRAKNFESAKSRLSLCAEDIRGQIEAAGNTPELCSQLGAVLG 237

Query: 236 MLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAA 295
           MLGDCCRAMGDA +AVAYF +SVEFL K P DD E++HTLSVSLNKIGDLKYY GDL+AA
Sbjct: 238 MLGDCCRAMGDAGSAVAYFEESVEFLSKFPTDDQEVMHTLSVSLNKIGDLKYYDGDLEAA 297

Query: 296 RSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE 355
           +SYY RSLNVRRDA++ H +V SQ LDVAVSLAKVAD DRS+GNED AV  FQEAIK LE
Sbjct: 298 KSYYSRSLNVRRDAIEHHPHVSSQSLDVAVSLAKVADADRSLGNEDAAVSRFQEAIKLLE 357

Query: 356 SLTLKPEEAGLEQRCWNSSTTNFQKNHL 383
           SLTLKPEEA L+QR    S   F  N L
Sbjct: 358 SLTLKPEEAALDQR--RLSVLEFLNNQL 383

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	392
TAIR|locus:2096179	405	AT3G54360 [Arabidopsis thalian	0.931	0.901	0.646	2.6e-127
UNIPROTKB|Q5T8Z4	150	BMI1 "Polycomb complex protein	0.163	0.426	0.32	2.5e-06
UNIPROTKB|Q5T8Z5	92	BMI1 "Polycomb complex protein	0.163	0.695	0.32	2.5e-06
UNIPROTKB|Q5T8Z6	105	BMI1 "Polycomb complex protein	0.163	0.609	0.32	2.5e-06
ZFIN|ZDB-GENE-030131-3522	637	chfr "checkpoint with forkhead	0.201	0.124	0.325	3.5e-06
UNIPROTKB|Q5FWP4	625	chfr "E3 ubiquitin-protein lig	0.216	0.136	0.319	7.3e-06
UNIPROTKB|F5GWT6	349	CHFR "E3 ubiquitin-protein lig	0.201	0.226	0.325	7.7e-06
UNIPROTKB|E1BBP0	663	CHFR "Uncharacterized protein"	0.318	0.188	0.284	1.3e-05
MGI|MGI:2444898	664	Chfr "checkpoint with forkhead	0.364	0.215	0.277	1.7e-05
UNIPROTKB|Q5RF77	571	CHFR "E3 ubiquitin-protein lig	0.201	0.138	0.325	1.8e-05

TAIR|locus:2096179 AT3G54360 [Arabidopsis thaliana (taxid:3702)]

 Score = 1250 (445.1 bits), Expect = 2.6e-127, P = 2.6e-127
 Identities = 249/385 (64%), Positives = 293/385 (76%)

Query:     2 TPVCPFAKA-RPDDASPRKPGENSNKYPAECPFSKA-RPDDAASRKAVEN---------S 50
             T VCPF+KA RPDD S RK GE +    + CPFSKA RPDDA++RK  E          S
Sbjct:     4 TSVCPFSKAARPDDGSTRKQGEIT---ASGCPFSKAARPDDASARKQGETTASGCPFSKS 60

Query:    51 AKPQAE------HXXXXXXXXXXXXXXIPPKCPFGYDAQSFKIGPLSCMICQALLFECSK 104
             A+P                        +P KCPFGYD+Q+FK+GP SCM+CQALL+E S+
Sbjct:    61 ARPDENGSKGCPEQEGNLNKDSTDSATVPAKCPFGYDSQTFKLGPFSCMLCQALLYESSR 120

Query:   105 CTPCSHVYCKACISRFKDCPLCGADIEKIEADTTLQDVVDRFIEGHARIKRSHTNSDKEE 164
             C PC+HV+CK C++RFKDCPLCGADIE IE D  LQ +VD+FIEGHARIKRS  N  ++E
Sbjct:   121 CVPCTHVFCKVCLTRFKDCPLCGADIESIEVDENLQKMVDQFIEGHARIKRSVVNGTEKE 180

Query:   165 DEAGENKKVIYEDVSMERGAFLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTS 224
             +   +NKKVIY DVSMERG+FLVQQAMRAF AQN ESAKSRL++CTEDIRDQ+ R GNT 
Sbjct:   181 EVENDNKKVIYADVSMERGSFLVQQAMRAFSAQNYESAKSRLAMCTEDIRDQLGREGNTP 240

Query:   225 ELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGD 284
             ELCSQLGAVLGMLGDC RAMGD+ +AV +F +SVEFLMKLP++DLEI HTLSVSLNKIGD
Sbjct:   241 ELCSQLGAVLGMLGDCSRAMGDSSSAVKHFEESVEFLMKLPLNDLEITHTLSVSLNKIGD 300

Query:   285 LKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAV 344
             LKYY  DLQAARSYY R+LNVRRDA+K H N PSQ+LDVAVSLAKVAD+DR++ NE  A 
Sbjct:   301 LKYYDEDLQAARSYYDRALNVRRDAMKHHPNAPSQILDVAVSLAKVADIDRTLQNEVAAT 360

Query:   345 DGFQEAIKRLESLTLKPEEAGLEQR 369
             DGF+E ++ LESL L  E++ LEQR
Sbjct:   361 DGFKEGMRLLESLKLDSEDSALEQR 385

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q5T8Z4 BMI1 "Polycomb complex protein BMI-1" [Homo sapiens (taxid:9606)]

 Score = 116 (45.9 bits), Expect = 2.5e-06, P = 2.5e-06
 Identities = 24/75 (32%), Positives = 38/75 (50%)

Query:    86 KIGP-LSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEK------IE 134
             ++ P L C++C     + +    C H +CK CI R+    K CP+C   + K      I 
Sbjct:    11 ELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIR 70

Query:   135 ADTTLQDVVDRFIEG 149
             +D TLQD+V + + G
Sbjct:    71 SDKTLQDIVYKLVPG 85

GO:0008270 "zinc ion binding" evidence=IEA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0000151 "ubiquitin ligase complex" evidence=IEA

GO:0001701 "in utero embryonic development" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0006959 "humoral immune response" evidence=IEA

GO:0007420 "brain development" evidence=IEA

GO:0016573 "histone acetylation" evidence=IEA

GO:0016574 "histone ubiquitination" evidence=IEA

GO:0016604 "nuclear body" evidence=IEA

GO:0021903 "rostrocaudal neural tube patterning" evidence=IEA

GO:0030890 "positive regulation of B cell proliferation" evidence=IEA

GO:0031519 "PcG protein complex" evidence=IEA

GO:0033092 "positive regulation of immature T cell proliferation in thymus" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0048103 "somatic stem cell division" evidence=IEA

GO:0048704 "embryonic skeletal system morphogenesis" evidence=IEA

UNIPROTKB|Q5T8Z5 BMI1 "Polycomb complex protein BMI-1" [Homo sapiens (taxid:9606)]

 Score = 116 (45.9 bits), Expect = 2.5e-06, P = 2.5e-06
 Identities = 24/75 (32%), Positives = 38/75 (50%)

Query:    86 KIGP-LSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEK------IE 134
             ++ P L C++C     + +    C H +CK CI R+    K CP+C   + K      I 
Sbjct:    11 ELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIR 70

Query:   135 ADTTLQDVVDRFIEG 149
             +D TLQD+V + + G
Sbjct:    71 SDKTLQDIVYKLVPG 85

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q5T8Z6 BMI1 "Polycomb complex protein BMI-1" [Homo sapiens (taxid:9606)]

 Score = 116 (45.9 bits), Expect = 2.5e-06, P = 2.5e-06
 Identities = 24/75 (32%), Positives = 38/75 (50%)

Query:    86 KIGP-LSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEK------IE 134
             ++ P L C++C     + +    C H +CK CI R+    K CP+C   + K      I 
Sbjct:    11 ELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIR 70

Query:   135 ADTTLQDVVDRFIEG 149
             +D TLQD+V + + G
Sbjct:    71 SDKTLQDIVYKLVPG 85

GO:0008270 "zinc ion binding" evidence=IEA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0000151 "ubiquitin ligase complex" evidence=IEA

GO:0001701 "in utero embryonic development" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0006959 "humoral immune response" evidence=IEA

GO:0007420 "brain development" evidence=IEA

GO:0016573 "histone acetylation" evidence=IEA

GO:0016574 "histone ubiquitination" evidence=IEA

GO:0016604 "nuclear body" evidence=IEA

GO:0021903 "rostrocaudal neural tube patterning" evidence=IEA

GO:0030890 "positive regulation of B cell proliferation" evidence=IEA

GO:0031519 "PcG protein complex" evidence=IEA

GO:0033092 "positive regulation of immature T cell proliferation in thymus" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0048103 "somatic stem cell division" evidence=IEA

GO:0048704 "embryonic skeletal system morphogenesis" evidence=IEA

ZFIN|ZDB-GENE-030131-3522 chfr "checkpoint with forkhead and ring finger domains, E3 ubiquitin protein ligase" [Danio rerio (taxid:7955)]

 Score = 139 (54.0 bits), Expect = 3.5e-06, P = 3.5e-06
 Identities = 28/86 (32%), Positives = 46/86 (53%)

Query:    90 LSCMICQALLFECSKCTPCSHVYCKACISRFKD----CPLCGADIEKIEADTTLQDVVDR 145
             L+C+ICQ LL++C    PC H +C AC S + +    CP C   +E+I  +  L ++V+ 
Sbjct:   275 LTCIICQDLLYDCISVQPCMHTFCAACYSGWMERSSFCPTCRCPVERIRKNHILNNLVEA 334

Query:   146 FIEGHARIKRSHTNSDKEEDEAGENK 171
             ++  H   ++  T  D    +A  NK
Sbjct:   335 YLLQHP--EKCRTEDDLRSMDA-RNK 357

GO:0008270 "zinc ion binding" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=IEA;ISS

GO:0007093 "mitotic cell cycle checkpoint" evidence=ISS

GO:0000209 "protein polyubiquitination" evidence=ISS

GO:0000166 "nucleotide binding" evidence=ISS

GO:0016605 "PML body" evidence=ISS

GO:0019941 "modification-dependent protein catabolic process" evidence=ISS

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0051301 "cell division" evidence=IEA

GO:0007067 "mitosis" evidence=IEA

UNIPROTKB|Q5FWP4 chfr "E3 ubiquitin-protein ligase CHFR" [Xenopus laevis (taxid:8355)]

 Score = 136 (52.9 bits), Expect = 7.3e-06, P = 7.3e-06
 Identities = 31/97 (31%), Positives = 48/97 (49%)

Query:    72 IPPKCPFGYDAQSF--KIGP------LSCMICQALLFECSKCTPCSHVYCKACISRFKD- 122
             +P  CP G   +S    + P      L+C+ICQ LL +C    PC H +C AC S + + 
Sbjct:   238 VPASCPIGASDESKTPSMKPDKMEETLTCIICQELLHDCVSLQPCMHTFCAACYSGWMER 297

Query:   123 ---CPLCGADIEKIEADTTLQDVVDRFIEGHARIKRS 156
                CP C   +E+I  +  L ++V+ ++  H    RS
Sbjct:   298 SSLCPTCRCPVERICKNHILNNLVEAYLIQHPEKCRS 334

GO:0000166 "nucleotide binding" evidence=ISS

GO:0000209 "protein polyubiquitination" evidence=ISS

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISS

GO:0007093 "mitotic cell cycle checkpoint" evidence=ISS

GO:0016605 "PML body" evidence=IDA

GO:0019941 "modification-dependent protein catabolic process" evidence=ISS

UNIPROTKB|F5GWT6 CHFR "E3 ubiquitin-protein ligase CHFR" [Homo sapiens (taxid:9606)]

 Score = 132 (51.5 bits), Expect = 7.7e-06, P = 7.7e-06
 Identities = 28/86 (32%), Positives = 46/86 (53%)

Query:    90 LSCMICQALLFECSKCTPCSHVYCKACISRFKD----CPLCGADIEKIEADTTLQDVVDR 145
             L+C+ICQ LL +C    PC H +C AC S + +    CP C   +E+I  +  L ++V+ 
Sbjct:   102 LTCIICQDLLHDCVSLQPCMHTFCAACYSGWMERSSLCPTCRCPVERICKNHILNNLVEA 161

Query:   146 FIEGHARIKRSHTNSDKEEDEAGENK 171
             ++  H    +S +  D +  +A  NK
Sbjct:   162 YLIQHP--DKSRSEEDVQSMDA-RNK 184

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E1BBP0 CHFR "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 134 (52.2 bits), Expect = 1.3e-05, P = 1.3e-05
 Identities = 41/144 (28%), Positives = 67/144 (46%)

Query:    90 LSCMICQALLFECSKCTPCSHVYCKACISRFKD----CPLCGADIEKIEADTTLQDVVDR 145
             L+C+ICQ LL +C    PC H +C AC S + +    CP C   +E+I  +  L ++V+ 
Sbjct:   302 LTCIICQDLLHDCVSLQPCMHTFCAACYSGWMERSALCPTCRCPVERICKNHILNNLVEA 361

Query:   146 FIEGHARIKRSHTNSDKEEDEAGENKKVIYEDVSMERGAFLVQQAMRAFRAQNVESAKSR 205
             ++  H   +RS  +       A  NK  I +D+       L  +  RAF  +   S++  
Sbjct:   362 YLLQHPDKRRSEEDL---RSMAARNK--ITQDM-------LQPKVRRAFSDEE-GSSEDL 408

Query:   206 LSLCTEDIRDQIERMGNTSELCSQ 229
             L L   D+  +   +   S +C Q
Sbjct:   409 LEL--SDVDSESSDVSQPSIVCRQ 430

GO:0016605 "PML body" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0000278 "mitotic cell cycle" evidence=IEA

GO:0000209 "protein polyubiquitination" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

MGI|MGI:2444898 Chfr "checkpoint with forkhead and ring finger domains" [Mus musculus (taxid:10090)]

 Score = 133 (51.9 bits), Expect = 1.7e-05, P = 1.7e-05
 Identities = 46/166 (27%), Positives = 77/166 (46%)

Query:    90 LSCMICQALLFECSKCTPCSHVYCKACISRFKD----CPLCGADIEKIEADTTLQDVVDR 145
             L+C+ICQ LL +C    PC H +C AC S + +    CP C   +E+I  +  L ++V+ 
Sbjct:   301 LTCIICQDLLHDCVSLQPCMHTFCAACYSGWMERSSLCPTCRCPVERICKNHILNNLVEA 360

Query:   146 FIEGHARIKRSHTNSDKEEDEAGENKKVIYEDVSME--RGAFLVQQAMRA--FRAQNVES 201
             ++  H    +S +  D    +A  NK  I +D+     R +F  ++          +V+S
Sbjct:   361 YLIQHP--DKSRSEEDVRSMDA-RNK--ITQDMLQPKVRRSFSDEEGSSEDLLELSDVDS 415

Query:   202 AKSRLS----LCTEDIRDQIERMGNTSELC----SQLGAVLGMLGD 239
               S +S    +C +    +  R    S  C    S+LGA L + G+
Sbjct:   416 ESSDISQPYIVCRQC--PEYRRQAVQSLPCPVPESELGATLALGGE 459

GO:0000166 "nucleotide binding" evidence=ISO

GO:0000209 "protein polyubiquitination" evidence=ISO;IDA

GO:0000278 "mitotic cell cycle" evidence=IMP

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISO;IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IDA

GO:0007049 "cell cycle" evidence=IEA

GO:0007067 "mitosis" evidence=IEA

GO:0007093 "mitotic cell cycle checkpoint" evidence=ISO

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IMP

GO:0016605 "PML body" evidence=ISO

GO:0016874 "ligase activity" evidence=IEA

GO:0019941 "modification-dependent protein catabolic process" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0051301 "cell division" evidence=IEA

UNIPROTKB|Q5RF77 CHFR "E3 ubiquitin-protein ligase CHFR" [Pongo abelii (taxid:9601)]

 Score = 132 (51.5 bits), Expect = 1.8e-05, P = 1.8e-05
 Identities = 28/86 (32%), Positives = 46/86 (53%)

Query:    90 LSCMICQALLFECSKCTPCSHVYCKACISRFKD----CPLCGADIEKIEADTTLQDVVDR 145
             L+C+ICQ LL +C    PC H +C AC S + +    CP C   +E+I  +  L ++V+ 
Sbjct:   210 LTCIICQDLLHDCVSLQPCMHTFCAACYSGWMERSSLCPTCRCPVERICKNHILNNLVEA 269

Query:   146 FIEGHARIKRSHTNSDKEEDEAGENK 171
             ++  H    +S +  D +  +A  NK
Sbjct:   270 YLIQHP--DKSRSEEDVQSMDA-RNK 292

GO:0000166 "nucleotide binding" evidence=ISS

GO:0000209 "protein polyubiquitination" evidence=ISS

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0007093 "mitotic cell cycle checkpoint" evidence=ISS

GO:0016605 "PML body" evidence=ISS

GO:0019941 "modification-dependent protein catabolic process" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	0.691

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	392
pfam13424	78	pfam13424, TPR_12, Tetratricopeptide repeat	7e-08
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	5e-07
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-06
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	7e-06
smart00184	40	smart00184, RING, Ring finger	9e-06
pfam13424	78	pfam13424, TPR_12, Tetratricopeptide repeat	1e-05
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	5e-04

>gnl|CDD|205602 pfam13424, TPR_12, Tetratricopeptide repeat

 Score = 48.9 bits (117), Expect = 7e-08
 Identities = 22/80 (27%), Positives = 31/80 (38%), Gaps = 4/80 (5%)

Query: 229 QLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYY 288
            L A L  L    R +GD D A+     ++E   +L  D  E        LN +  L   
Sbjct: 3   DLAAALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARA----LNNLARLYLA 58

Query: 289 GGDLQAARSYYVRSLNVRRD 308
            GD   A  Y  ++L +R  
Sbjct: 59  LGDYDEALEYLEKALALREA 78

Length = 78

>gnl|CDD|238093 cd00162, RING, RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

 Score = 45.5 bits (108), Expect = 5e-07
 Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 5/44 (11%)

Query: 92  CMICQALLFECSKCTPCSHVYCKACISRF-----KDCPLCGADI 130
           C IC     E     PC HV+C++CI ++       CPLC   I
Sbjct: 2   CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 44.4 bits (105), Expect = 1e-06
 Identities = 18/44 (40%), Positives = 23/44 (52%), Gaps = 4/44 (9%)

Query: 89  PLSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGA 128
            L C IC  LL +    TPC HV+C+ CI R+      CP+C  
Sbjct: 2   ELECPICLDLLRDPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain

 Score = 42.4 bits (100), Expect = 7e-06
 Identities = 14/45 (31%), Positives = 19/45 (42%), Gaps = 6/45 (13%)

Query: 91  SCMICQALLFECSKC--TPCSHVYCKACISRFKD----CPLCGAD 129
            C IC        +    PC HV+ K C+ ++      CPLC A 
Sbjct: 2   ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

>gnl|CDD|214546 smart00184, RING, Ring finger

 Score = 42.1 bits (99), Expect = 9e-06
 Identities = 12/40 (30%), Positives = 20/40 (50%), Gaps = 5/40 (12%)

Query: 92  CMICQALLFECSKCTPCSHVYCKACISRFKD-----CPLC 126
           C IC     +     PC H +C++CI ++ +     CP+C
Sbjct: 1   CPICLEEYLKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s). Length = 40

>gnl|CDD|205602 pfam13424, TPR_12, Tetratricopeptide repeat

 Score = 42.7 bits (101), Expect = 1e-05
 Identities = 16/79 (20%), Positives = 37/79 (46%), Gaps = 7/79 (8%)

Query: 278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSI 337
           +LN +  +    GD   A     ++L + R+  + H        + A +L  +A +  ++
Sbjct: 7   ALNNLALVLRRLGDYDEALELLEKALELARELGEDH-------PETARALNNLARLYLAL 59

Query: 338 GNEDVAVDGFQEAIKRLES 356
           G+ D A++  ++A+   E+
Sbjct: 60  GDYDEALEYLEKALALREA 78

Length = 78

>gnl|CDD|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger)

 Score = 37.1 bits (86), Expect = 5e-04
 Identities = 14/40 (35%), Positives = 17/40 (42%), Gaps = 5/40 (12%)

Query: 92  CMICQALLFECSKCTPCSHVYCKACI-----SRFKDCPLC 126
           C IC     +     PC H++C  CI     S    CPLC
Sbjct: 1   CPICLEEPKDPVTILPCGHLFCSKCILSWLESGNVTCPLC 40

The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid. Many proteins containing a RING finger play a key role in the ubiquitination pathway. Length = 40

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	392
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.24
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.05
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.96
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	98.85
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.83
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.8
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.79
KOG4367	699	consensus Predicted Zn-finger protein [Function un	98.78
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.72
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.7
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.65
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	98.63
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	98.62
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.59
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.58
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.57
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.54
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.52
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.42
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	98.41
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.39
PHA02929	238	N1R/p28-like protein; Provisional	98.36
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	98.36
PF14634	44	zf-RING_5: zinc-RING finger domain	98.31
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.3
PHA02926	242	zinc finger-like protein; Provisional	98.27
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.27
KOG2660	331	consensus Locus-specific chromosome binding protei	98.25
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.11
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.07
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	98.06
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.04
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.01
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.01
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	97.99
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.94
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.89
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	97.79
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	97.74
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	97.7
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.68
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.67
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.63
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.63
COG5152	259	Uncharacterized conserved protein, contains RING a	97.53
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.49
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	97.46
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	97.45
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.41
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.37
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.31
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	97.31
PRK15359	144	type III secretion system chaperone protein SscB;	97.31
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.19
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	97.12
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.12
COG5222	427	Uncharacterized conserved protein, contains RING Z	97.11
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	97.04
KOG0825	1134	consensus PHD Zn-finger protein [General function	96.92
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	96.92
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	96.9
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	96.88
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.8
KOG1126	638	consensus DNA-binding cell division cycle control	96.78
PRK11788	389	tetratricopeptide repeat protein; Provisional	96.78
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	96.74
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	96.73
PRK11189	296	lipoprotein NlpI; Provisional	96.72
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	96.71
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	96.63
KOG0553	304	consensus TPR repeat-containing protein [General f	96.6
PRK15359	144	type III secretion system chaperone protein SscB;	96.59
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	96.58
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.57
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.5
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	96.47
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.45
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	96.45
TIGR02552	135	LcrH_SycD type III secretion low calcium response	96.43
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	96.33
PRK10370	198	formate-dependent nitrite reductase complex subuni	96.3
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	96.23
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	96.18
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.17
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.15
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	96.12
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.08
KOG0297	391	consensus TNF receptor-associated factor [Signal t	96.07
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	96.03
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	96.0
KOG2003	840	consensus TPR repeat-containing protein [General f	95.95
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.95
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	95.94
PRK11788	389	tetratricopeptide repeat protein; Provisional	95.93
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	95.91
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	95.9
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	95.88
PF12688	120	TPR_5: Tetratrico peptide repeat	95.83
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	95.82
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	95.78
PRK12370	553	invasion protein regulator; Provisional	95.77
KOG2003	840	consensus TPR repeat-containing protein [General f	95.76
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	95.76
PRK04841	903	transcriptional regulator MalT; Provisional	95.74
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	95.72
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	95.68
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	95.65
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	95.64
KOG2376	652	consensus Signal recognition particle, subunit Srp	95.62
PRK04841	903	transcriptional regulator MalT; Provisional	95.61
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	95.6
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	95.54
KOG0553	304	consensus TPR repeat-containing protein [General f	95.46
PRK11189	296	lipoprotein NlpI; Provisional	95.43
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	95.42
KOG1125	579	consensus TPR repeat-containing protein [General f	95.21
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.19
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	95.11
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	95.1
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	95.1
TIGR02552	135	LcrH_SycD type III secretion low calcium response	95.08
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	95.05
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	94.96
PRK12370	553	invasion protein regulator; Provisional	94.95
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	94.94
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.89
KOG1125	579	consensus TPR repeat-containing protein [General f	94.88
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	94.86
PRK10803	263	tol-pal system protein YbgF; Provisional	94.79
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	94.72
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	94.71
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	94.68
KOG1126	638	consensus DNA-binding cell division cycle control	94.65
PF12862	94	Apc5: Anaphase-promoting complex subunit 5	94.37
PRK10370	198	formate-dependent nitrite reductase complex subuni	94.37
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	94.32
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	94.19
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.17
KOG4234	271	consensus TPR repeat-containing protein [General f	94.13
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	94.11
PRK10803	263	tol-pal system protein YbgF; Provisional	94.07
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.97
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	93.76
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	93.7
PF10952	140	DUF2753: Protein of unknown function (DUF2753); In	93.68
PF13371	73	TPR_9: Tetratricopeptide repeat	93.56
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	93.49
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	93.43
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	93.35
KOG1586	288	consensus Protein required for fusion of vesicles	93.33
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	93.31
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	93.24
KOG4739	233	consensus Uncharacterized protein involved in syna	93.22
KOG4555	175	consensus TPR repeat-containing protein [Function	93.2
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.96
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	92.78
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	92.68
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	92.59
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	92.56
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	92.48
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	92.14
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	91.99
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	91.85
PF04641	260	Rtf2: Rtf2 RING-finger	91.81
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	91.71
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	91.52
PF10516	38	SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetrat	91.42
KOG0547	606	consensus Translocase of outer mitochondrial membr	91.37
PF12968	144	DUF3856: Domain of Unknown Function (DUF3856); Int	91.28
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	91.18
KOG1586	288	consensus Protein required for fusion of vesicles	91.12
PRK14574	822	hmsH outer membrane protein; Provisional	91.07
KOG0547	606	consensus Translocase of outer mitochondrial membr	91.05
KOG3039	303	consensus Uncharacterized conserved protein [Funct	90.53
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	90.46
cd02682	75	MIT_AAA_Arch MIT: domain contained within Microtub	90.09
PF10516	38	SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetrat	89.95
KOG1001	674	consensus Helicase-like transcription factor HLTF/	89.9
KOG1129	478	consensus TPR repeat-containing protein [General f	89.85
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	89.59
PF12862	94	Apc5: Anaphase-promoting complex subunit 5	89.52
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	89.44
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	89.33
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	89.31
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	89.0
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	88.89
COG5236	493	Uncharacterized conserved protein, contains RING Z	88.88
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	88.76
PRK14720	906	transcript cleavage factor/unknown domain fusion p	88.7
PF13428	44	TPR_14: Tetratricopeptide repeat	88.57
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	88.54
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	88.45
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	88.41
PF12688	120	TPR_5: Tetratrico peptide repeat	88.23
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	88.18
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	88.08
PF13371	73	TPR_9: Tetratricopeptide repeat	88.06
KOG2076	895	consensus RNA polymerase III transcription factor	87.9
KOG3002	299	consensus Zn finger protein [General function pred	87.85
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	87.73
KOG1585	308	consensus Protein required for fusion of vesicles	87.64
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	87.26
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	87.1
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	87.08
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	87.03
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	86.87
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	86.1
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	85.95
COG5219	1525	Uncharacterized conserved protein, contains RING Z	85.78
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	85.66
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	85.62
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	85.21
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	85.1
PLN02789	320	farnesyltranstransferase	84.94
PRK14720	906	transcript cleavage factor/unknown domain fusion p	84.87
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	84.75
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	84.17
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	84.0
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	83.97
PF04212	69	MIT: MIT (microtubule interacting and transport) d	83.93
PRK14574	822	hmsH outer membrane protein; Provisional	83.9
KOG2076	895	consensus RNA polymerase III transcription factor	83.65
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	83.49
KOG1839	1236	consensus Uncharacterized protein CLU1/cluA/TIF31	83.09
PF03704	146	BTAD: Bacterial transcriptional activator domain;	82.84
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	82.24
COG4783	484	Putative Zn-dependent protease, contains TPR repea	81.95
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	81.33
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	81.07
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	80.88
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	80.78

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.24  E-value=6.9e-11  Score=119.53  Aligned_cols=186  Identities=17%  Similarity=0.152  Sum_probs=156.9

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCch
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDL  269 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~  269 (392)
                      +..-+.+|+++.|...+..+...+.....      ..++.....+.+|+..+..++++.+|+.+|++++.....+.+.. 
T Consensus       206 a~~y~~~g~~e~A~~l~k~Al~~l~k~~G------~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~-  278 (508)
T KOG1840|consen  206 AEMYAVQGRLEKAEPLCKQALRILEKTSG------LKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED-  278 (508)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHccC------ccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC-
Confidence            44467899999999999877766433222      13444455566788888889999999999999999988877744 


Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 016262          270 EIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQE  349 (392)
Q Consensus       270 e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~  349 (392)
                        +..++..+++|+.++...|++++|..+++++++|++........      +|+..|++++.++..++.+++|+.+|++
T Consensus       279 --h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~------~v~~~l~~~~~~~~~~~~~Eea~~l~q~  350 (508)
T KOG1840|consen  279 --HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHP------EVAAQLSELAAILQSMNEYEEAKKLLQK  350 (508)
T ss_pred             --CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChH------HHHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence              45678999999999999999999999999999999985443333      7899999999999999999999999999


Q ss_pred             HHHHHHHh--hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          350 AIKRLESL--TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       350 al~ile~l--~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +++|+...  ..++-.+.+..+++.  +|.+.++|.++.++|.+|
T Consensus       351 al~i~~~~~g~~~~~~a~~~~nl~~--l~~~~gk~~ea~~~~k~a  393 (508)
T KOG1840|consen  351 ALKIYLDAPGEDNVNLAKIYANLAE--LYLKMGKYKEAEELYKKA  393 (508)
T ss_pred             HHHHHHhhccccchHHHHHHHHHHH--HHHHhcchhHHHHHHHHH
Confidence            99999987  777788899999999  999999999999999875

>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A

Probab=99.05  E-value=4.6e-11  Score=79.53  Aligned_cols=34  Identities=38%  Similarity=1.083  Sum_probs=28.3

Q ss_pred             ccccccccccCceecccCcHhHHHhHHhcCC--------CCCC
Q 016262           92 CMICQALLFECSKCTPCSHVYCKACISRFKD--------CPLC  126 (392)
Q Consensus        92 C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~~--------CP~C  126 (392)
                      |+||+++|. +|++++|||+||..||.++|.        ||.|
T Consensus         1 CpiC~~~~~-~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFK-DPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-S-SEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhC-CccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            899999999 999999999999999998853        8876

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.96  E-value=4.2e-09  Score=106.67  Aligned_cols=148  Identities=18%  Similarity=0.122  Sum_probs=129.1

Q ss_pred             hcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcC
Q 016262          234 LGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRH  313 (392)
Q Consensus       234 L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~  313 (392)
                      +..+...|...|++..|++.++.+.+.+.+..+.   -+..++..+++++.++..++++.+|+..|+++|+|++...+..
T Consensus       202 ~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~---~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  202 LRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGL---KHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCc---cCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            3335557778899999999999998887776662   2556778888999999999999999999999999999988877


Q ss_pred             CCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh--hcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          314 SNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL--TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       314 ~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l--~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      ..      .+|..|++|+.++...|++++|..++++|++|.+++  ..+++.+..+..+..  ++....++..++.|||.
T Consensus       279 h~------~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~--~~~~~~~~Eea~~l~q~  350 (508)
T KOG1840|consen  279 HP------AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAA--ILQSMNEYEEAKKLLQK  350 (508)
T ss_pred             CH------HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHH--HHHHhcchhHHHHHHHH
Confidence            65      679999999999999999999999999999999998  888888888888888  88888889999988886


Q ss_pred             C
Q 016262          392 A  392 (392)
Q Consensus       392 ~  392 (392)
                      |
T Consensus       351 a  351 (508)
T KOG1840|consen  351 A  351 (508)
T ss_pred             H
Confidence            4

>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=98.85  E-value=2.2e-08  Score=75.95  Aligned_cols=77  Identities=18%  Similarity=0.314  Sum_probs=66.5

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          273 HTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       273 ~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      ..+...++++|.++..+|++++|+.+|++++++ .+....      ...+++.++.++|.++..+|++++|+.+|+++++
T Consensus         2 ~~~a~~~~~la~~~~~~~~~~~A~~~~~~al~~-~~~~~~------~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    2 PDTANAYNNLARVYRELGRYDEALDYYEKALDI-EEQLGD------DHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-HHHTTT------HHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-HHHHCC------CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            457788999999999999999999999999999 444432      2236899999999999999999999999999999


Q ss_pred             HHHH
Q 016262          353 RLES  356 (392)
Q Consensus       353 ile~  356 (392)
                      |.++
T Consensus        75 i~~k   78 (78)
T PF13424_consen   75 IFEK   78 (78)
T ss_dssp             HHHH
T ss_pred             hhcC
Confidence            9874

...

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.83  E-value=3.5e-09  Score=103.64  Aligned_cols=63  Identities=30%  Similarity=0.730  Sum_probs=55.5

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC----CCCCCCcCCcc--cchhhHHHHHHHHHHhhhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK----DCPLCGADIEK--IEADTTLQDVVDRFIEGHA  151 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~--~~~n~~l~~~~~~~~~~~~  151 (392)
                      ..+.|+||+++|. .|++++|||+||..||..|+    .||.|+..+..  +..|..|.++|+.|....+
T Consensus        25 ~~l~C~IC~d~~~-~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~~iVe~~~~~R~   93 (397)
T TIGR00599        25 TSLRCHICKDFFD-VPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSEIVESFKNLRP   93 (397)
T ss_pred             cccCCCcCchhhh-CccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccchHHHHHHHHHHHhhH
Confidence            5689999999988 99999999999999999874    49999998876  8899999999999875443

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]

Probab=98.80  E-value=2.5e-09  Score=99.57  Aligned_cols=61  Identities=30%  Similarity=0.729  Sum_probs=54.4

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC----CCCCCCcCCcc--cchhhHHHHHHHHHHhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK----DCPLCGADIEK--IEADTTLQDVVDRFIEG  149 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~--~~~n~~l~~~~~~~~~~  149 (392)
                      ..|.|.||.+||. .|+++||+|+||..||..+.    .||.|...++-  +..|+.|.++|..|...
T Consensus        22 ~lLRC~IC~eyf~-ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~~~~   88 (442)
T KOG0287|consen   22 DLLRCGICFEYFN-IPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIVKSLNFA   88 (442)
T ss_pred             HHHHHhHHHHHhc-CceeccccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHHHHHHHH
Confidence            4589999999999 99999999999999999884    59999998886  89999999999887643

>smart00504 Ubox Modified RING finger domain

Probab=98.79  E-value=4.5e-09  Score=76.60  Aligned_cols=56  Identities=14%  Similarity=0.344  Sum_probs=48.8

Q ss_pred             ceeccccccccccCceecccCcHhHHHhHHhcC----CCCCCCcCCcc--cchhhHHHHHHHH
Q 016262           89 PLSCMICQALLFECSKCTPCSHVYCKACISRFK----DCPLCGADIEK--IEADTTLQDVVDR  145 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~--~~~n~~l~~~~~~  145 (392)
                      ++.|+||.+++. +|++++|||+||+.||..|+    .||.|+..+..  +.+|..+++.++.
T Consensus         1 ~~~Cpi~~~~~~-~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~~i~~   62 (63)
T smart00504        1 EFLCPISLEVMK-DPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKSAIQE   62 (63)
T ss_pred             CcCCcCCCCcCC-CCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHHHHHh
Confidence            478999999988 89999999999999999884    59999998865  8888888877753

Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.

>KOG4367 consensus Predicted Zn-finger protein [Function unknown]

Probab=98.78  E-value=5.5e-09  Score=100.18  Aligned_cols=32  Identities=31%  Similarity=0.697  Sum_probs=28.9

Q ss_pred             cCceeccccccccccCceecccCcHhHHHhHHh
Q 016262           87 IGPLSCMICQALLFECSKCTPCSHVYCKACISR  119 (392)
Q Consensus        87 ~~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~  119 (392)
                      .+++.|+||..+++ +|++++|+|+.|..|...
T Consensus         2 eeelkc~vc~~f~~-epiil~c~h~lc~~ca~~   33 (699)
T KOG4367|consen    2 EEELKCPVCGSFYR-EPIILPCSHNLCQACARN   33 (699)
T ss_pred             cccccCceehhhcc-CceEeecccHHHHHHHHh
Confidence            36799999999999 999999999999999743

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.72  E-value=7.8e-09  Score=90.74  Aligned_cols=44  Identities=32%  Similarity=0.915  Sum_probs=39.3

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC--------------------CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK--------------------DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~--------------------~CP~C~~~~~~  132 (392)
                      +++.|+||++.+. +|++++|||.||+.||..|.                    .||.|+..+..
T Consensus        17 ~~~~CpICld~~~-dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         17 GDFDCNICLDQVR-DPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             CccCCccCCCcCC-CcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            4689999999988 99999999999999999872                    49999998875

>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]

Probab=98.70  E-value=8.9e-09  Score=94.61  Aligned_cols=44  Identities=30%  Similarity=0.843  Sum_probs=39.5

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      ...+|.+|++... +|..+||||.||+.||..|-    +||+||..+..
T Consensus       238 a~~kC~LCLe~~~-~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~p  285 (293)
T KOG0317|consen  238 ATRKCSLCLENRS-NPSATPCGHIFCWSCILEWCSEKAECPLCREKFQP  285 (293)
T ss_pred             CCCceEEEecCCC-CCCcCcCcchHHHHHHHHHHccccCCCcccccCCC
Confidence            4589999999977 99999999999999999993    59999987765

>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis

Probab=98.65  E-value=1.7e-08  Score=75.91  Aligned_cols=61  Identities=16%  Similarity=0.365  Sum_probs=50.3

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcCCcc--cchhhHHHHHHHHHHhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGADIEK--IEADTTLQDVVDRFIEG  149 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~--~~~n~~l~~~~~~~~~~  149 (392)
                      +.|.|||+..++. +|+++++||+|++.+|..|.     .||.|+..+..  +.+|..|++.|+.|...
T Consensus         3 ~~f~CpIt~~lM~-dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~~~~   70 (73)
T PF04564_consen    3 DEFLCPITGELMR-DPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEEWCAE   70 (73)
T ss_dssp             GGGB-TTTSSB-S-SEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHHHHHH
T ss_pred             cccCCcCcCcHhh-CceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHHHHHH
Confidence            5699999999999 99999999999999999993     39999998887  99999999999999864

Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=98.63  E-value=1.4e-07  Score=91.01  Aligned_cols=129  Identities=16%  Similarity=0.207  Sum_probs=108.2

Q ss_pred             hHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHH
Q 016262          248 DAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSL  327 (392)
Q Consensus       248 h~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl  327 (392)
                      ..|+.+|++.+++.+.+++...     .-....+||+.|+-+|+++.|+-++++-|.|.++-.++..+        ....
T Consensus       172 ~~Av~fy~eNL~l~~~lgDr~a-----qGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAae--------RRA~  238 (639)
T KOG1130|consen  172 ENAVKFYMENLELSEKLGDRLA-----QGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAE--------RRAH  238 (639)
T ss_pred             HHHHHHHHHHHHHHHHhhhHHh-----hcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHH--------HHhh
Confidence            4567777777777777766333     34578899999999999999999999999999987766554        4456


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          328 AKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       328 ~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      +|+|..+..+|+++-|+++|..++.+-.++..+...|..-..++.  .|..++++++||.|++.
T Consensus       239 sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgN--tytll~e~~kAI~Yh~r  300 (639)
T KOG1130|consen  239 SNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGN--TYTLLKEVQKAITYHQR  300 (639)
T ss_pred             cccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhh--HHHHHHHHHHHHHHHHH
Confidence            899999999999999999999999999999777777777777887  89999999999999974

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

Probab=98.62  E-value=4.2e-08  Score=98.55  Aligned_cols=135  Identities=19%  Similarity=0.334  Sum_probs=107.7

Q ss_pred             HHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          225 ELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLN  304 (392)
Q Consensus       225 ~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~  304 (392)
                      ++|+.|...+.+++.+.+.+|....|+.+|+.+++...           .++...++|+.++.++|+|++|+..|.++|.
T Consensus       348 ~l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p-----------~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr  416 (966)
T KOG4626|consen  348 RLCPNHADAMNNLGNIYREQGKIEEATRLYLKALEVFP-----------EFAAAHNNLASIYKQQGNLDDAIMCYKEALR  416 (966)
T ss_pred             HhCCccHHHHHHHHHHHHHhccchHHHHHHHHHHhhCh-----------hhhhhhhhHHHHHHhcccHHHHHHHHHHHHh
Confidence            48999999999999999888888999999987766543           3566889999999999999999999999987


Q ss_pred             HHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhc
Q 016262          305 VRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLN  384 (392)
Q Consensus       305 i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~  384 (392)
                      |.=              ..|.+++|+|.++..+|+.+.|+..|++||.+      .|.-|....++++  .+.+-++...
T Consensus       417 I~P--------------~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~------nPt~AeAhsNLas--i~kDsGni~~  474 (966)
T KOG4626|consen  417 IKP--------------TFADALSNMGNTYKEMGDVSAAIQCYTRAIQI------NPTFAEAHSNLAS--IYKDSGNIPE  474 (966)
T ss_pred             cCc--------------hHHHHHHhcchHHHHhhhHHHHHHHHHHHHhc------CcHHHHHHhhHHH--HhhccCCcHH
Confidence            632              24788899999999999999999999888844      4555555666666  6666666666


Q ss_pred             cccchhcC
Q 016262          385 QLPKFRSA  392 (392)
Q Consensus       385 ~l~~~~~~  392 (392)
                      ||..|++|
T Consensus       475 AI~sY~~a  482 (966)
T KOG4626|consen  475 AIQSYRTA  482 (966)
T ss_pred             HHHHHHHH
Confidence            66666653

>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.59  E-value=1.9e-08  Score=89.88  Aligned_cols=44  Identities=32%  Similarity=0.850  Sum_probs=39.7

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-------CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-------DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-------~CP~C~~~~~~  132 (392)
                      ..|.|.||++... +|+++.|||.|||-||.+|.       .||.|+..+..
T Consensus        46 ~~FdCNICLd~ak-dPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~   96 (230)
T KOG0823|consen   46 GFFDCNICLDLAK-DPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI   96 (230)
T ss_pred             CceeeeeeccccC-CCEEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence            4699999999988 99999999999999999993       49999988775

>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.58  E-value=7e-08  Score=82.60  Aligned_cols=47  Identities=36%  Similarity=0.804  Sum_probs=38.1

Q ss_pred             ccCceeccccccccccC-ceecccCcHhHHHhHHhc----CCCCCCCcCCcc
Q 016262           86 KIGPLSCMICQALLFEC-SKCTPCSHVYCKACISRF----KDCPLCGADIEK  132 (392)
Q Consensus        86 ~~~~~~C~iC~~~~~~~-p~~~~C~h~fC~~Ci~~~----~~CP~C~~~~~~  132 (392)
                      +...+.||||++-+... |+.+.|||.||+.||...    ..||+|++.++.
T Consensus       128 ~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~  179 (187)
T KOG0320|consen  128 KEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH  179 (187)
T ss_pred             cccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence            33569999999987743 577999999999999877    359999986553

>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.57  E-value=1.5e-07  Score=89.86  Aligned_cols=61  Identities=28%  Similarity=0.704  Sum_probs=52.4

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC----CCCCCCcCCcccchhhHHHHHHHHHHhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK----DCPLCGADIEKIEADTTLQDVVDRFIEG  149 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~~~~n~~l~~~~~~~~~~  149 (392)
                      +.+.|+||+++|. .|++++|+|+||..|+..+|    .||.|+.....+.+|..+.+++..+...
T Consensus        12 ~~~~C~iC~~~~~-~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~~~~~~~~n~~l~~~~~~~~~~   76 (386)
T KOG2177|consen   12 EELTCPICLEYFR-EPVLLPCGHNFCRACLTRSWEGPLSCPVCRPPSRNLRPNVLLANLVERLRQL   76 (386)
T ss_pred             ccccChhhHHHhh-cCccccccchHhHHHHHHhcCCCcCCcccCCchhccCccHHHHHHHHHHHhc
Confidence            6799999999999 77999999999999999876    5999996223377899999999998754

>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B

Probab=98.54  E-value=3.4e-08  Score=70.34  Aligned_cols=54  Identities=28%  Similarity=0.713  Sum_probs=29.6

Q ss_pred             ceeccccccccccCce-ecccCcHhHHHhHHhc--CCCCCCCcCCcc--cchhhHHHHHH
Q 016262           89 PLSCMICQALLFECSK-CTPCSHVYCKACISRF--KDCPLCGADIEK--IEADTTLQDVV  143 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~-~~~C~h~fC~~Ci~~~--~~CP~C~~~~~~--~~~n~~l~~~~  143 (392)
                      .+.|++|.+++. .|+ +..|.|.||+.||.+.  ..||.|+.+...  +..|+.|.+|+
T Consensus         7 lLrCs~C~~~l~-~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~qD~~~NrqLd~~i   65 (65)
T PF14835_consen    7 LLRCSICFDILK-EPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQDIQINRQLDSMI   65 (65)
T ss_dssp             TTS-SSS-S--S-S-B---SSS--B-TTTGGGGTTTB-SSS--B-S-SS----HHHHHHH
T ss_pred             hcCCcHHHHHhc-CCceeccCccHHHHHHhHHhcCCCCCCcCChHHHHHHHhhhhhhccC
Confidence            578999999999 887 4789999999999887  459999987743  88999888775

>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A

Probab=98.52  E-value=3.2e-08  Score=64.84  Aligned_cols=34  Identities=44%  Similarity=1.163  Sum_probs=28.4

Q ss_pred             ccccccccccCc-eecccCcHhHHHhHHhc----CCCCCC
Q 016262           92 CMICQALLFECS-KCTPCSHVYCKACISRF----KDCPLC  126 (392)
Q Consensus        92 C~iC~~~~~~~p-~~~~C~h~fC~~Ci~~~----~~CP~C  126 (392)
                      |+||++.+. +| +.++|||+||+.||.+|    ..||.|
T Consensus         1 C~iC~~~~~-~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELR-DPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-S-SEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCccc-CcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            899999999 67 78999999999999988    358876

>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A

Probab=98.42  E-value=7.8e-08  Score=66.69  Aligned_cols=43  Identities=35%  Similarity=0.830  Sum_probs=36.8

Q ss_pred             ceeccccccccccCceecccCcH-hHHHhHHhc----CCCCCCCcCCcc
Q 016262           89 PLSCMICQALLFECSKCTPCSHV-YCKACISRF----KDCPLCGADIEK  132 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~~C~h~-fC~~Ci~~~----~~CP~C~~~~~~  132 (392)
                      +..|.||++... +++.+||||. ||..|+.+|    ..||.||.++..
T Consensus         2 ~~~C~iC~~~~~-~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~   49 (50)
T PF13920_consen    2 DEECPICFENPR-DVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES   49 (50)
T ss_dssp             HSB-TTTSSSBS-SEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred             cCCCccCCccCC-ceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence            468999999988 8999999999 999999999    579999998753

...

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=98.41  E-value=2.9e-06  Score=82.04  Aligned_cols=145  Identities=18%  Similarity=0.154  Sum_probs=121.2

Q ss_pred             HhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q 016262          231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAV  310 (392)
Q Consensus       231 ~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~  310 (392)
                      |.-+..+|..++.+|++..++...++.+++.++.+++-.     ...+..+||+.+.-+|+++.|+.+|..++.+..++.
T Consensus       195 GRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAa-----eRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg  269 (639)
T KOG1130|consen  195 GRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAA-----ERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELG  269 (639)
T ss_pred             cchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHH-----HHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhc
Confidence            556677888888999999999999999999999987433     346789999999999999999999999999988877


Q ss_pred             hcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchh
Q 016262          311 KRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFR  390 (392)
Q Consensus       311 ~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~  390 (392)
                      ++..+        |.+--.||.+|..+..+++||.|+++-++|-++|+..-.....-+.++.  .+.-|++..+||.|-.
T Consensus       270 ~r~vE--------AQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgn--a~~alg~h~kAl~fae  339 (639)
T KOG1130|consen  270 NRTVE--------AQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGN--AFNALGEHRKALYFAE  339 (639)
T ss_pred             chhHH--------HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHH--HHHhhhhHHHHHHHHH
Confidence            66554        5555678899999999999999999999999999777677666666666  7778888888887654

>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

Probab=98.39  E-value=1.4e-07  Score=86.25  Aligned_cols=58  Identities=26%  Similarity=0.630  Sum_probs=50.4

Q ss_pred             ceeccccccccccCceecccCcHhHHHhHHhcC----CCCCCCcCCcc--cchhhHHHHHHHHHH
Q 016262           89 PLSCMICQALLFECSKCTPCSHVYCKACISRFK----DCPLCGADIEK--IEADTTLQDVVDRFI  147 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~--~~~n~~l~~~~~~~~  147 (392)
                      .+.|-||..+|. .|..++|||+||..||.++.    .||.|+....-  +..+..+.++++.|.
T Consensus        25 ~lrC~IC~~~i~-ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~~s~~~ei~es~~   88 (391)
T COG5432          25 MLRCRICDCRIS-IPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRGSSGSREINESHA   88 (391)
T ss_pred             HHHhhhhhheee-cceecccccchhHHHHHHHhcCCCCCccccccHHhhhcccchhHHHHHHhhh
Confidence            489999999999 99999999999999999884    49999998765  777888888877664

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.36  E-value=1.3e-07  Score=86.57  Aligned_cols=50  Identities=26%  Similarity=0.735  Sum_probs=40.2

Q ss_pred             CceeccccccccccCc-------eecccCcHhHHHhHHhcC----CCCCCCcCCcccchhh
Q 016262           88 GPLSCMICQALLFECS-------KCTPCSHVYCKACISRFK----DCPLCGADIEKIEADT  137 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p-------~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~~~~n~  137 (392)
                      .+..|+||++.+.+++       ++++|+|.||..||.+|.    .||+||..+..+.+++
T Consensus       173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v~~~r  233 (238)
T PHA02929        173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISVIKSR  233 (238)
T ss_pred             CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEEeeee
Confidence            4579999999877443       567899999999999994    5999999887755443

>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=98.36  E-value=3.4e-07  Score=69.37  Aligned_cols=69  Identities=23%  Similarity=0.231  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh-hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          322 DVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL-TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       322 dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l-~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +++..+.++|.++..+|++++|+.+|++++++.+.+ ..++..+.+..+++.  ++..++++..|+.+|++|
T Consensus         3 ~~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~--~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    3 DTANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGE--CYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH--HHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            688999999999999999999999999999996667 566677889999999  999999999999999975

...

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.31  E-value=4.9e-07  Score=60.88  Aligned_cols=38  Identities=32%  Similarity=0.981  Sum_probs=33.0

Q ss_pred             ecccccccc--ccCceecccCcHhHHHhHHhcC----CCCCCCc
Q 016262           91 SCMICQALL--FECSKCTPCSHVYCKACISRFK----DCPLCGA  128 (392)
Q Consensus        91 ~C~iC~~~~--~~~p~~~~C~h~fC~~Ci~~~~----~CP~C~~  128 (392)
                      .|++|...+  ...+++++|||+||..|+..+.    .||.|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            489999988  3379999999999999999887    6999974

>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A

Probab=98.30  E-value=1.6e-07  Score=63.30  Aligned_cols=37  Identities=35%  Similarity=0.912  Sum_probs=31.4

Q ss_pred             eccccccccc--cCceecccCcHhHHHhHHhc----CCCCCCC
Q 016262           91 SCMICQALLF--ECSKCTPCSHVYCKACISRF----KDCPLCG  127 (392)
Q Consensus        91 ~C~iC~~~~~--~~p~~~~C~h~fC~~Ci~~~----~~CP~C~  127 (392)
                      .|+||++.+.  +.++.++|+|.||..||.+|    ..||.||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            5999999984  36888999999999999999    3599996

...

>PHA02926 zinc finger-like protein; Provisional

Probab=98.27  E-value=3.5e-07  Score=81.27  Aligned_cols=51  Identities=24%  Similarity=0.752  Sum_probs=40.1

Q ss_pred             CceeccccccccccC--------ceecccCcHhHHHhHHhcC----------CCCCCCcCCcccchhhH
Q 016262           88 GPLSCMICQALLFEC--------SKCTPCSHVYCKACISRFK----------DCPLCGADIEKIEADTT  138 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~--------p~~~~C~h~fC~~Ci~~~~----------~CP~C~~~~~~~~~n~~  138 (392)
                      .+..|+||++...+.        ++..+|+|+||..||..|.          .||.||..+..+.+..+
T Consensus       169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSrf  237 (242)
T PHA02926        169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSKF  237 (242)
T ss_pred             CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeeccccc
Confidence            468999999986522        4567999999999999994          29999998877555443

>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.27  E-value=3.3e-07  Score=60.63  Aligned_cols=34  Identities=35%  Similarity=1.061  Sum_probs=29.9

Q ss_pred             ccccccccccCce-ecccCcHhHHHhHHhcC------CCCCC
Q 016262           92 CMICQALLFECSK-CTPCSHVYCKACISRFK------DCPLC  126 (392)
Q Consensus        92 C~iC~~~~~~~p~-~~~C~h~fC~~Ci~~~~------~CP~C  126 (392)
                      |+||++.+. .++ +++|||.||..||..|+      .||.|
T Consensus         1 C~iC~~~~~-~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFE-DPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCS-SEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCcccc-CCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999988 666 99999999999998884      38877

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....

>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]

Probab=98.25  E-value=4.2e-07  Score=85.21  Aligned_cols=63  Identities=38%  Similarity=0.887  Sum_probs=54.2

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhc----CCCCCCCcCCcc------cchhhHHHHHHHHHHhhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEK------IEADTTLQDVVDRFIEGH  150 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~----~~CP~C~~~~~~------~~~n~~l~~~~~~~~~~~  150 (392)
                      ....|.+|.+||.|.-.+..|.|+||+.||..+    ..||.|...+..      +..+..|+.+|.++..+.
T Consensus        14 ~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKLVPgl   86 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKLVPGL   86 (331)
T ss_pred             cceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccccccCCcchHHHHHHHHHcchH
Confidence            458999999999977788889999999999887    459999987765      888999999999886544

>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.11  E-value=1.1e-06  Score=80.09  Aligned_cols=44  Identities=32%  Similarity=0.942  Sum_probs=38.2

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHh-c----CC-CCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISR-F----KD-CPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~-~----~~-CP~C~~~~~~  132 (392)
                      .++.|+||++... .|..++|||.||+.||.. |    .. ||+||+.+..
T Consensus       214 ~d~kC~lC~e~~~-~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p  263 (271)
T COG5574         214 ADYKCFLCLEEPE-VPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYP  263 (271)
T ss_pred             cccceeeeecccC-CcccccccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence            5799999999988 999999999999999998 5    23 9999986543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.07  E-value=1.7e-05  Score=75.57  Aligned_cols=133  Identities=14%  Similarity=0.138  Sum_probs=100.4

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhH
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLD  322 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~d  322 (392)
                      ..+++.+|...|..+.+...++..     .......+.+.+.++... ++++|+..|++++.+......        ...
T Consensus        47 ~~~~~~~A~~ay~kAa~~~~~~~~-----~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~--------~~~  112 (282)
T PF14938_consen   47 LAKDWEKAAEAYEKAADCYEKLGD-----KFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGR--------FSQ  112 (282)
T ss_dssp             HTT-CHHHHHHHHHHHHHHHHTT------HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT---------HHH
T ss_pred             HHhccchhHHHHHHHHHHHHHcCC-----HHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCc--------HHH
Confidence            566778888888888888877655     334456677788887665 999999999999998876322        224


Q ss_pred             HHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          323 VAVSLAKVADVDRSI-GNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       323 la~sl~~l~~v~~~l-g~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      .|..+.++|.++... |++++|+.+|++|+++++..............++.  ++-.+++|.+|+.+|++
T Consensus       113 aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~--l~~~l~~y~~A~~~~e~  180 (282)
T PF14938_consen  113 AAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAAD--LYARLGRYEEAIEIYEE  180 (282)
T ss_dssp             HHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH--HHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHH--HHHHhCCHHHHHHHHHH
Confidence            588899999999999 99999999999999999998533344455666666  88899999999999875

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

Probab=98.06  E-value=3.7e-05  Score=77.93  Aligned_cols=115  Identities=21%  Similarity=0.321  Sum_probs=91.7

Q ss_pred             cchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHH
Q 016262          245 GDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVA  324 (392)
Q Consensus       245 gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla  324 (392)
                      |+..+++.+|..++..           ...-+.+.++||+++..+|.++.|..+|.++|++.-              +.|
T Consensus       334 G~V~ea~~cYnkaL~l-----------~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p--------------~~a  388 (966)
T KOG4626|consen  334 GSVTEAVDCYNKALRL-----------CPNHADAMNNLGNIYREQGKIEEATRLYLKALEVFP--------------EFA  388 (966)
T ss_pred             cchHHHHHHHHHHHHh-----------CCccHHHHHHHHHHHHHhccchHHHHHHHHHHhhCh--------------hhh
Confidence            4445666666655433           222346789999999999999999999999887643              357


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          325 VSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       325 ~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ...+|||.++.++|++++|+..|++++.      ..|.-|..+.+++.  +|..+++-+.||..|..|
T Consensus       389 aa~nNLa~i~kqqgnl~~Ai~~Ykealr------I~P~fAda~~NmGn--t~ke~g~v~~A~q~y~rA  448 (966)
T KOG4626|consen  389 AAHNNLASIYKQQGNLDDAIMCYKEALR------IKPTFADALSNMGN--TYKEMGDVSAAIQCYTRA  448 (966)
T ss_pred             hhhhhHHHHHHhcccHHHHHHHHHHHHh------cCchHHHHHHhcch--HHHHhhhHHHHHHHHHHH
Confidence            7889999999999999999999999984      46777788889998  999999888888887654

>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

Probab=98.04  E-value=3.2e-06  Score=56.38  Aligned_cols=39  Identities=38%  Similarity=1.001  Sum_probs=31.0

Q ss_pred             eccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcC
Q 016262           91 SCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGAD  129 (392)
Q Consensus        91 ~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~  129 (392)
                      .|+||.+.+.+...+.+|+|.||..|+..|.     .||.|+..
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~   44 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP   44 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence            4899999986344455599999999998773     49999875

>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A

Probab=98.01  E-value=1.5e-06  Score=57.82  Aligned_cols=27  Identities=37%  Similarity=1.111  Sum_probs=18.5

Q ss_pred             ccccccccccC----ceecccCcHhHHHhHHhc
Q 016262           92 CMICQALLFEC----SKCTPCSHVYCKACISRF  120 (392)
Q Consensus        92 C~iC~~~~~~~----p~~~~C~h~fC~~Ci~~~  120 (392)
                      ||||.+ +. .    |++++|||+||+.||.++
T Consensus         1 CpIc~e-~~-~~~n~P~~L~CGH~~c~~cl~~l   31 (43)
T PF13445_consen    1 CPICKE-FS-TEENPPMVLPCGHVFCKDCLQKL   31 (43)
T ss_dssp             -TTT------TTSS-EEE-SSS-EEEHHHHHHH
T ss_pred             CCcccc-cc-CCCCCCEEEeCccHHHHHHHHHH
Confidence            899999 55 5    999999999999999876

>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.01  E-value=1.6e-06  Score=85.78  Aligned_cols=43  Identities=30%  Similarity=0.814  Sum_probs=37.8

Q ss_pred             ceeccccccccccCceecccCcHhHHHhHHhcC---------CCCCCCcCCcc
Q 016262           89 PLSCMICQALLFECSKCTPCSHVYCKACISRFK---------DCPLCGADIEK  132 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~---------~CP~C~~~~~~  132 (392)
                      +..||||+.... -|+.+.|||.||..||..+|         .||+|+..+..
T Consensus       186 ~~~CPICL~~~~-~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPS-VPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCC-cccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            678999999977 77888899999999998875         39999988876

>smart00184 RING Ring finger

Probab=97.99  E-value=3.6e-06  Score=54.16  Aligned_cols=34  Identities=38%  Similarity=1.115  Sum_probs=29.7

Q ss_pred             ccccccccccCceecccCcHhHHHhHHhcC-----CCCCC
Q 016262           92 CMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLC  126 (392)
Q Consensus        92 C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C  126 (392)
                      |+||++... .++.++|+|.||..|+..|.     .||.|
T Consensus         1 C~iC~~~~~-~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELK-DPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCC-CcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            789999966 99999999999999999874     38876

E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)

>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.94  E-value=1.7e-06  Score=81.75  Aligned_cols=60  Identities=23%  Similarity=0.629  Sum_probs=47.8

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhc-----CCCCCCCcCCcc---cchhhHHHHHHHHHH
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRF-----KDCPLCGADIEK---IEADTTLQDVVDRFI  147 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~-----~~CP~C~~~~~~---~~~n~~l~~~~~~~~  147 (392)
                      .++.|+||+++|.....+..|+|.||..||...     ..||.||+.+.+   +.++..+-.|+..+.
T Consensus        42 ~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp~fdaLis~i~  109 (381)
T KOG0311|consen   42 IQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDPNFDALISKIY  109 (381)
T ss_pred             hhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCccHHHHHHHHh
Confidence            479999999999967777789999999999654     469999998776   666665556666554

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.89  E-value=1e-05  Score=76.42  Aligned_cols=44  Identities=25%  Similarity=0.664  Sum_probs=34.1

Q ss_pred             Cceecccccc--ccccCc---eecccCcHhHHHhHHhcC-----CCCCCCcCCcc
Q 016262           88 GPLSCMICQA--LLFECS---KCTPCSHVYCKACISRFK-----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~--~~~~~p---~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~  132 (392)
                      ++..||+|+.  ++. +.   .+.+|||+||..|+..+|     .||.|+..+..
T Consensus         2 d~~~CP~Ck~~~y~n-p~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk   55 (309)
T TIGR00570         2 DDQGCPRCKTTKYRN-PSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRK   55 (309)
T ss_pred             CCCCCCcCCCCCccC-cccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence            3468999999  444 32   233799999999999975     49999988776

All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=97.79  E-value=8.7e-05  Score=74.56  Aligned_cols=101  Identities=19%  Similarity=0.293  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..++.+|.+.+..+.+.+|+.+|+.+|...++...+.+       -..-.++|||.+++.++.+.+|+.+|++++     
T Consensus       415 lv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~-------~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL-----  482 (611)
T KOG1173|consen  415 LVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKI-------FWEPTLNNLGHAYRKLNKYEEAIDYYQKAL-----  482 (611)
T ss_pred             hhhhhhhheeehHhhhHHHHHHHHHHHHHhhhcccccc-------chhHHHHhHHHHHHHHhhHHHHHHHHHHHH-----
Confidence            46789999999999999999999999977776554433       235568999999999999999999999988     


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                       ...|.++...--++-  +++-+++.++|+++|.+|
T Consensus       483 -~l~~k~~~~~asig~--iy~llgnld~Aid~fhKa  515 (611)
T KOG1173|consen  483 -LLSPKDASTHASIGY--IYHLLGNLDKAIDHFHKA  515 (611)
T ss_pred             -HcCCCchhHHHHHHH--HHHHhcChHHHHHHHHHH
Confidence             556677777777777  888999999999998764

>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=97.74  E-value=0.00011  Score=77.55  Aligned_cols=101  Identities=14%  Similarity=0.035  Sum_probs=64.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+..+|.++..+|++++|+..|++++++...       .......+...+......+...|++++|+..|++++++   
T Consensus       468 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~-------~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l---  537 (615)
T TIGR00990       468 DVYNYYGELLLDQNKFDEAIEKFDTAIELEKE-------TKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALII---  537 (615)
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcCCc-------cccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc---
Confidence            35667788888888888888888888865322       11111122333334444555567777777777777643   


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                         +|+.......++.  ++..++++.+|+.+|++|
T Consensus       538 ---~p~~~~a~~~la~--~~~~~g~~~eAi~~~e~A  568 (615)
T TIGR00990       538 ---DPECDIAVATMAQ--LLLQQGDVDEALKLFERA  568 (615)
T ss_pred             ---CCCcHHHHHHHHH--HHHHccCHHHHHHHHHHH
Confidence               5566555556666  777788888888887764

>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=97.70  E-value=8.9e-05  Score=78.39  Aligned_cols=122  Identities=17%  Similarity=0.215  Sum_probs=86.4

Q ss_pred             ccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 016262          238 GDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVP  317 (392)
Q Consensus       238 C~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~  317 (392)
                      +.+....|++..|+.+++++.+.    .+...       ..+..+|.++..+|++++|+..|++++++.       +.  
T Consensus       372 a~~~~~~g~~~eA~~~~~~al~~----~p~~~-------~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-------P~--  431 (615)
T TIGR00990       372 ASMNLELGDPDKAEEDFDKALKL----NSEDP-------DIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-------PD--  431 (615)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh----CCCCH-------HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-------cc--
Confidence            33444566777777777766433    22222       356778888888999999999998887652       22  


Q ss_pred             chhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          318 SQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       318 ~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                           ....+.++|.++..+|++++|+..|++++.      ..|..+.+...++.  ++..++++.+|+.+|++|
T Consensus       432 -----~~~~~~~la~~~~~~g~~~eA~~~~~~al~------~~P~~~~~~~~lg~--~~~~~g~~~~A~~~~~~A  493 (615)
T TIGR00990       432 -----FIFSHIQLGVTQYKEGSIASSMATFRRCKK------NFPEAPDVYNYYGE--LLLDQNKFDEAIEKFDTA  493 (615)
T ss_pred             -----CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH------hCCCChHHHHHHHH--HHHHccCHHHHHHHHHHH
Confidence                 134456788888889999988888888874      35666777777777  777888888888888764

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=97.68  E-value=0.00012  Score=71.36  Aligned_cols=41  Identities=22%  Similarity=0.648  Sum_probs=34.2

Q ss_pred             CceeccccccccccCc---eecccCcHhHHHhHHhcCC--CCCCCc
Q 016262           88 GPLSCMICQALLFECS---KCTPCSHVYCKACISRFKD--CPLCGA  128 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p---~~~~C~h~fC~~Ci~~~~~--CP~C~~  128 (392)
                      +.-+||||++-+-...   +++.|.|+|=..|+..||.  ||.||.
T Consensus       174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~  219 (493)
T KOG0804|consen  174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRY  219 (493)
T ss_pred             cCCCcchhHhhcCccccceeeeecccccchHHHhhcccCcChhhhh
Confidence            3458999999876443   6889999999999999974  999986

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.67  E-value=0.00064  Score=59.33  Aligned_cols=114  Identities=18%  Similarity=0.237  Sum_probs=84.4

Q ss_pred             cccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCC
Q 016262          235 GMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHS  314 (392)
Q Consensus       235 ~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~  314 (392)
                      ...+..+...|++..|+..++.+.....   .     ......++.++|.++...|++++|+.+|++++.+.       +
T Consensus        39 ~~~g~~~~~~g~~~~A~~~~~~al~l~~---~-----~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-------~  103 (168)
T CHL00033         39 YRDGMSAQSEGEYAEALQNYYEAMRLEI---D-----PYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-------P  103 (168)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhccc---c-----chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------c
Confidence            3444555567888888888887755421   1     11234578999999999999999999999999762       2


Q ss_pred             CCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh-hcCCCc
Q 016262          315 NVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL-TLKPEE  363 (392)
Q Consensus       315 ~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l-~~~~~~  363 (392)
                      ........++..+.++|.+...+|+++.|+..|++++.+++.. ...|.+
T Consensus       104 ~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~  153 (168)
T CHL00033        104 FLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGN  153 (168)
T ss_pred             CcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCccc
Confidence            2233344666677777777779999999999999999999998 666543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.63  E-value=0.00052  Score=65.36  Aligned_cols=98  Identities=20%  Similarity=0.338  Sum_probs=77.8

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHhhcCCCCCchhh
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYG-GDLQAARSYYVRSLNVRRDAVKRHSNVPSQVL  321 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~-g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~  321 (392)
                      ..++...|+.+++.+.+...+.+.     ....+..+.+++.++... |++++|+.+|++++++.+...        ...
T Consensus        86 k~~~~~~Ai~~~~~A~~~y~~~G~-----~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~--------~~~  152 (282)
T PF14938_consen   86 KKGDPDEAIECYEKAIEIYREAGR-----FSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG--------SPH  152 (282)
T ss_dssp             HHTTHHHHHHHHHHHHHHHHHCT------HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT---------HH
T ss_pred             HhhCHHHHHHHHHHHHHHHHhcCc-----HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC--------Chh
Confidence            455678899999999999888765     455678899999999998 999999999999999987732        112


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          322 DVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       322 dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      .....+.+++.++..+|++++|+..|++....
T Consensus       153 ~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~  184 (282)
T PF14938_consen  153 SAAECLLKAADLYARLGRYEEAIEIYEEVAKK  184 (282)
T ss_dssp             HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            44667889999999999999999999987654

>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.63  E-value=3.4e-05  Score=75.95  Aligned_cols=63  Identities=29%  Similarity=0.841  Sum_probs=52.0

Q ss_pred             cCceeccccccccccCceecccCcHhHHHhHHhc----CCCCCCCcCCcc-------cchhhHHHHHHHHHHhhh
Q 016262           87 IGPLSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEK-------IEADTTLQDVVDRFIEGH  150 (392)
Q Consensus        87 ~~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~----~~CP~C~~~~~~-------~~~n~~l~~~~~~~~~~~  150 (392)
                      -.+|.|.||...|. +|+++||||+||..||.+.    ..||.|+..+..       ..+|+.+..++..|....
T Consensus        82 ~sef~c~vc~~~l~-~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~~~~~~~~~~~r~~~~li~~F~~~~  155 (398)
T KOG4159|consen   82 RSEFECCVCSRALY-PPVVTPCGHSFCLECLDRSLDQETECPLCRDELVELPALEQALSLNRLLCKLITKFLEGS  155 (398)
T ss_pred             cchhhhhhhHhhcC-CCccccccccccHHHHHHHhccCCCCcccccccccchHHHHHHHHHHHHHHHHHHhhhhh
Confidence            35799999999999 9999999999999998776    359999998875       334777778888887554

>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

Probab=97.53  E-value=5.2e-05  Score=66.05  Aligned_cols=54  Identities=28%  Similarity=0.612  Sum_probs=41.9

Q ss_pred             ceeccccccccccCceecccCcHhHHHhHHhcC----CCCCCCcCCcc-cchhhHHHHHH
Q 016262           89 PLSCMICQALLFECSKCTPCSHVYCKACISRFK----DCPLCGADIEK-IEADTTLQDVV  143 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~-~~~n~~l~~~~  143 (392)
                      +|.|.||...+. .|+++.|||+||..|...-.    .|-.|++.... +.....++.|+
T Consensus       196 PF~C~iCKkdy~-spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~f~V~~d~~kmL  254 (259)
T COG5152         196 PFLCGICKKDYE-SPVVTECGHSFCSLCAIRKYQKGDECGVCGKATYGRFWVVSDLQKML  254 (259)
T ss_pred             ceeehhchhhcc-chhhhhcchhHHHHHHHHHhccCCcceecchhhccceeHHhhHHHHH
Confidence            689999999988 99999999999999975442    49999887665 44444444444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.49  E-value=0.00092  Score=58.35  Aligned_cols=70  Identities=16%  Similarity=0.215  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          273 HTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       273 ~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      ......+..++.++...|++++|+..|.+++.+..     .+      .+.+.++.++|.++..+|++++|+..|++++.
T Consensus        32 ~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~-----~~------~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         32 EKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEI-----DP------YDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccc-----cc------hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33567788999999999999999999999998731     11      13466889999999999999999999999997


Q ss_pred             H
Q 016262          353 R  353 (392)
Q Consensus       353 i  353 (392)
                      +
T Consensus       101 ~  101 (168)
T CHL00033        101 R  101 (168)
T ss_pred             h
Confidence            6

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=97.46  E-value=0.001  Score=67.12  Aligned_cols=144  Identities=22%  Similarity=0.295  Sum_probs=100.8

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCch
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDL  269 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~  269 (392)
                      +|+-++-+|++=|...+..+-       .       +||.-.-++.-+|.+.++.+++.+|..+++..++....+.....
T Consensus       387 gmey~~t~n~kLAe~Ff~~A~-------a-------i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~  452 (611)
T KOG1173|consen  387 GMEYMRTNNLKLAEKFFKQAL-------A-------IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKI  452 (611)
T ss_pred             HHHHHHhccHHHHHHHHHHHH-------h-------cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhcccccc
Confidence            455555566666655554221       1       22222234455666666788889999999999877766665444


Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 016262          270 EIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQE  349 (392)
Q Consensus       270 e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~  349 (392)
                      .|.    -.+++||-++..++.+++|+.+|+++|.+...      .        +....-+|.++..+|+++.|+++|.+
T Consensus       453 ~w~----p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k------~--------~~~~asig~iy~llgnld~Aid~fhK  514 (611)
T KOG1173|consen  453 FWE----PTLNNLGHAYRKLNKYEEAIDYYQKALLLSPK------D--------ASTHASIGYIYHLLGNLDKAIDHFHK  514 (611)
T ss_pred             chh----HHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCC------c--------hhHHHHHHHHHHHhcChHHHHHHHHH
Confidence            443    46899999999999999999999999865332      1        56678899999999999999999999


Q ss_pred             HHHHHHHhhcCCCchhHHHhhc
Q 016262          350 AIKRLESLTLKPEEAGLEQRCW  371 (392)
Q Consensus       350 al~ile~l~~~~~~a~l~~~~~  371 (392)
                      |+      ...|.+......+.
T Consensus       515 aL------~l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  515 AL------ALKPDNIFISELLK  530 (611)
T ss_pred             HH------hcCCccHHHHHHHH
Confidence            88      44555544333333

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=97.45  E-value=0.00058  Score=61.07  Aligned_cols=94  Identities=18%  Similarity=0.193  Sum_probs=51.1

Q ss_pred             HhHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCC
Q 016262          186 LVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLP  265 (392)
Q Consensus       186 l~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~  265 (392)
                      ....+.-.+..|++++|...+.....       ..+..       ...+..++..+...|++..++.+++.+.+..    
T Consensus        34 ~~~la~~~~~~~~~~~A~~~~~~~l~-------~~p~~-------~~~~~~la~~~~~~~~~~~A~~~~~~al~~~----   95 (234)
T TIGR02521        34 RVQLALGYLEQGDLEVAKENLDKALE-------HDPDD-------YLAYLALALYYQQLGELEKAEDSFRRALTLN----   95 (234)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH-------hCccc-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC----
Confidence            34445556788899988888763321       11111       1222334444445666666666666554331    


Q ss_pred             CCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          266 MDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLN  304 (392)
Q Consensus       266 ~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~  304 (392)
                      +...       ....+++.++...|++++|+.+|++++.
T Consensus        96 ~~~~-------~~~~~~~~~~~~~g~~~~A~~~~~~~~~  127 (234)
T TIGR02521        96 PNNG-------DVLNNYGTFLCQQGKYEQAMQQFEQAIE  127 (234)
T ss_pred             CCCH-------HHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            1111       2445566666666666666666666654

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.

>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=97.41  E-value=0.00076  Score=49.35  Aligned_cols=64  Identities=19%  Similarity=0.397  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHH
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIG-NEDVAVDGFQEAIKR  353 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg-~~~~A~~~~~~al~i  353 (392)
                      +..+..+|.++...|++++|+.+|.+++++-       +.       -+..+.++|.++..+| ++++|+..|++++++
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-------p~-------~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-------PN-------NAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-------TT-------HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-------CC-------CHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            4578899999999999999999999999862       22       2557889999999999 799999999999975

...

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=97.37  E-value=6.7e-05  Score=77.99  Aligned_cols=44  Identities=30%  Similarity=0.775  Sum_probs=38.2

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhc-----CCCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRF-----KDCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~-----~~CP~C~~~~~~  132 (392)
                      +.+.||+|..-.. +.+++.|+|.||..|+...     ..||.|+..|..
T Consensus       642 ~~LkCs~Cn~R~K-d~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  642 ELLKCSVCNTRWK-DAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA  690 (698)
T ss_pred             hceeCCCccCchh-hHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            3699999998877 8999999999999999876     359999987764

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.31  E-value=0.0021  Score=56.31  Aligned_cols=115  Identities=21%  Similarity=0.286  Sum_probs=83.0

Q ss_pred             hcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcC
Q 016262          234 LGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRH  313 (392)
Q Consensus       234 L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~  313 (392)
                      +...+..+...|++.+|+.+++++......-        ......+.++|.++...|++++|+..|.+++.+.       
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~--------~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-------  102 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDP--------NDRSYILYNMGIIYASNGEHDKALEYYHQALELN-------  102 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhcc--------chHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------
Confidence            3444455557888999999998776543211        1123578899999999999999999999988752       


Q ss_pred             CCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh-hcCCCc
Q 016262          314 SNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL-TLKPEE  363 (392)
Q Consensus       314 ~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l-~~~~~~  363 (392)
                      +........++..+..++.....+|+.+.|+..|+++++++++. ...|.+
T Consensus       103 p~~~~~~~~lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~p~~  153 (172)
T PRK02603        103 PKQPSALNNIAVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLAPNN  153 (172)
T ss_pred             cccHHHHHHHHHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhCchh
Confidence            23333334556666666666677788999999999999999998 666664

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=97.31  E-value=0.00052  Score=44.73  Aligned_cols=40  Identities=28%  Similarity=0.381  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh--hcCCC
Q 016262          323 VAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL--TLKPE  362 (392)
Q Consensus       323 la~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l--~~~~~  362 (392)
                      ++.++++||.++..+|++++|+.++++++++.+.+  ..||+
T Consensus         1 ta~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~G~~Hpd   42 (42)
T PF13374_consen    1 TASALNNLANAYRAQGRYEEALELLEEALEIRERLLGPDHPD   42 (42)
T ss_dssp             -HHHHHHHHHHHHHCT-HHHHHHHHHHHHHHH----------
T ss_pred             CHHHHHHHHHHHHhhhhcchhhHHHHHHHHHHHHHhcccccC
Confidence            36789999999999999999999999999999998  55553

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.31  E-value=0.00056  Score=58.36  Aligned_cols=91  Identities=11%  Similarity=-0.004  Sum_probs=72.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhc
Q 016262          280 NKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTL  359 (392)
Q Consensus       280 ~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~  359 (392)
                      ...|.+....|++++|+.+|.+++.+       .+.       -...+.++|.++..+|++++|+..|++++      ..
T Consensus        28 ~~~g~~~~~~g~~~~A~~~~~~al~~-------~P~-------~~~a~~~lg~~~~~~g~~~~A~~~y~~Al------~l   87 (144)
T PRK15359         28 YASGYASWQEGDYSRAVIDFSWLVMA-------QPW-------SWRAHIALAGTWMMLKEYTTAINFYGHAL------ML   87 (144)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc-------CCC-------cHHHHHHHHHHHHHHhhHHHHHHHHHHHH------hc
Confidence            35688888899999999999887644       222       25567888999999999999999999888      45


Q ss_pred             CCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          360 KPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       360 ~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .|..+.....++.  ++..++++..|+..|++|
T Consensus        88 ~p~~~~a~~~lg~--~l~~~g~~~eAi~~~~~A  118 (144)
T PRK15359         88 DASHPEPVYQTGV--CLKMMGEPGLAREAFQTA  118 (144)
T ss_pred             CCCCcHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            7888888888888  888889999988888764

>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.19  E-value=0.00019  Score=66.68  Aligned_cols=48  Identities=29%  Similarity=0.690  Sum_probs=39.9

Q ss_pred             eeccccccccccCceecccCcHhHHHhHHhc-----CCCCCCCcCCcc-cchhhH
Q 016262           90 LSCMICQALLFECSKCTPCSHVYCKACISRF-----KDCPLCGADIEK-IEADTT  138 (392)
Q Consensus        90 ~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~-----~~CP~C~~~~~~-~~~n~~  138 (392)
                      -.|+||+..-. .|+.++|+|.||..||...     ..|++||.++.. +..+..
T Consensus         8 ~eC~IC~nt~n-~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~~ps   61 (324)
T KOG0824|consen    8 KECLICYNTGN-CPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDFEPS   61 (324)
T ss_pred             CcceeeeccCC-cCccccccchhhhhhhcchhhcCCCCCceecCCCCcchhcchh
Confidence            56999999977 8999999999999999765     249999999987 444433

>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=97.12  E-value=0.00018  Score=53.97  Aligned_cols=37  Identities=38%  Similarity=0.928  Sum_probs=28.7

Q ss_pred             ecccccccccc------------CceecccCcHhHHHhHHhcC----CCCCCC
Q 016262           91 SCMICQALLFE------------CSKCTPCSHVYCKACISRFK----DCPLCG  127 (392)
Q Consensus        91 ~C~iC~~~~~~------------~p~~~~C~h~fC~~Ci~~~~----~CP~C~  127 (392)
                      .|+||++.|.+            ..+..+|||.|...||.+|.    .||+||
T Consensus        21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            49999999832            23455899999999999994    599997

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.12  E-value=0.0062  Score=53.36  Aligned_cols=69  Identities=20%  Similarity=0.248  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          274 TLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       274 ~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      .-......+|.++...|++++|+.+|++++++....     .      +.+..+.++|.++..+|++++|+..|++++.+
T Consensus        33 ~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~-----~------~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  101 (172)
T PRK02603         33 KEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDP-----N------DRSYILYNMGIIYASNGEHDKALEYYHQALEL  101 (172)
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcc-----c------hHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345577899999999999999999999998864321     1      23566789999999999999999999999875

>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=97.11  E-value=0.00058  Score=63.23  Aligned_cols=60  Identities=27%  Similarity=0.620  Sum_probs=47.8

Q ss_pred             ceeccccccccccCceec-ccCcHhHHHhHHhc-----CCCCCCCc---CCcccchhhHHHHHHHHHHhh
Q 016262           89 PLSCMICQALLFECSKCT-PCSHVYCKACISRF-----KDCPLCGA---DIEKIEADTTLQDVVDRFIEG  149 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~-~C~h~fC~~Ci~~~-----~~CP~C~~---~~~~~~~n~~l~~~~~~~~~~  149 (392)
                      .|.|++|..+++ .|+-+ .|+|.||..||...     +.||.|..   .+..+.++...+..|+.+.+.
T Consensus       274 ~LkCplc~~Llr-np~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~pD~dk~~EvE~~lkk  342 (427)
T COG5222         274 SLKCPLCHCLLR-NPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPDIDKKLEVEKALKK  342 (427)
T ss_pred             cccCcchhhhhh-CcccCccccchHHHHHHhhhhhhccccCCCcccccchhhccCccHHHHHHHHHHHHH
Confidence            599999999999 55555 78999999999854     56999976   333488888888888887763

>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.04  E-value=0.0003  Score=65.29  Aligned_cols=50  Identities=24%  Similarity=0.751  Sum_probs=41.2

Q ss_pred             ceeccccccccccCceecccCcHhHHHhHHhcC----CCCCCCcCCcc-cchhhHH
Q 016262           89 PLSCMICQALLFECSKCTPCSHVYCKACISRFK----DCPLCGADIEK-IEADTTL  139 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~-~~~n~~l  139 (392)
                      ++.|.||..+|. .|+++.|+|.||..|.....    .|++|.+.+.. +.+..-|
T Consensus       241 Pf~c~icr~~f~-~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~~akeL  295 (313)
T KOG1813|consen  241 PFKCFICRKYFY-RPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFNVAKEL  295 (313)
T ss_pred             Cccccccccccc-cchhhcCCceeehhhhccccccCCcceecccccccccchHHHH
Confidence            688999999999 99999999999999986553    49999998877 4444433

>KOG0825 consensus PHD Zn-finger protein [General function prediction only]

Probab=96.92  E-value=0.00026  Score=73.21  Aligned_cols=44  Identities=16%  Similarity=0.497  Sum_probs=35.9

Q ss_pred             ceeccccccccccC--ceecccCcHhHHHhHHhcC----CCCCCCcCCcc
Q 016262           89 PLSCMICQALLFEC--SKCTPCSHVYCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        89 ~~~C~iC~~~~~~~--p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      .-+|++|+.-+.+.  ..-.+|+|.||..||..|.    .||.||..|..
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~  172 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGE  172 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence            56899999987753  3345799999999999993    59999998776

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=96.92  E-value=0.0036  Score=71.12  Aligned_cols=134  Identities=17%  Similarity=0.193  Sum_probs=86.2

Q ss_pred             cccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH-------H--
Q 016262          239 DCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRD-------A--  309 (392)
Q Consensus       239 ~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~-------~--  309 (392)
                      ......|++.+|+.+++++...    .+..       ...+..++.++...|++++|+..|++++++.-.       +  
T Consensus       359 ~~~~~~g~~~eA~~~~~~Al~~----~P~~-------~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~  427 (1157)
T PRK11447        359 DAALKANNLAQAERLYQQARQV----DNTD-------SYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLAN  427 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh----CCCC-------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            3444567778888887766544    2222       245678999999999999999999999974211       0  


Q ss_pred             -hhc-CCCCCchhh------------HH-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhh
Q 016262          310 -VKR-HSNVPSQVL------------DV-----AVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRC  370 (392)
Q Consensus       310 -~~~-~~~~~~~~~------------dl-----a~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~  370 (392)
                       ... ..+.....+            ++     ...+..++.++...|++++|+..|+++++      ..|++..+...+
T Consensus       428 l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~------~~P~~~~~~~~L  501 (1157)
T PRK11447        428 LYRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLA------LDPGSVWLTYRL  501 (1157)
T ss_pred             HHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHH------hCCCCHHHHHHH
Confidence             000 000000000            00     12234567788888999999999988874      467777777677


Q ss_pred             cchhHHHHHHhhhccccchhc
Q 016262          371 WNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       371 ~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      +.  ++..++++.+|+..|++
T Consensus       502 A~--~~~~~G~~~~A~~~l~~  520 (1157)
T PRK11447        502 AQ--DLRQAGQRSQADALMRR  520 (1157)
T ss_pred             HH--HHHHcCCHHHHHHHHHH
Confidence            66  77777777777777664

>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.90  E-value=0.00041  Score=66.79  Aligned_cols=43  Identities=33%  Similarity=0.700  Sum_probs=36.9

Q ss_pred             eecccccccccc--CceecccCcHhHHHhHHhcC-----CCCCCCcCCcc
Q 016262           90 LSCMICQALLFE--CSKCTPCSHVYCKACISRFK-----DCPLCGADIEK  132 (392)
Q Consensus        90 ~~C~iC~~~~~~--~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~  132 (392)
                      ..|.||++.+.+  .-+.|||.|.|=..||..|.     .||.|+..+..
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence            499999999874  36789999999999999993     39999987665

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=96.88  E-value=0.003  Score=69.98  Aligned_cols=114  Identities=12%  Similarity=0.046  Sum_probs=78.0

Q ss_pred             cchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHH
Q 016262          245 GDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVA  324 (392)
Q Consensus       245 gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla  324 (392)
                      |++..|+..++++.+.    .+.        .....+++.++..+|++++|+..|++++++       .+.+       +
T Consensus       590 Gr~~eAl~~~~~AL~l----~P~--------~~a~~~LA~~l~~lG~~deA~~~l~~AL~l-------~Pd~-------~  643 (987)
T PRK09782        590 GQPELALNDLTRSLNI----APS--------ANAYVARATIYRQRHNVPAAVSDLRAALEL-------EPNN-------S  643 (987)
T ss_pred             CCHHHHHHHHHHHHHh----CCC--------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-------CCCC-------H
Confidence            5666666665554322    111        134567788888888888888888776654       2332       3


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          325 VSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       325 ~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ..+.++|.++..+|++++|+..|++++      ...|.++.+...++.  .+..++++..++.+|++|
T Consensus       644 ~a~~nLG~aL~~~G~~eeAi~~l~~AL------~l~P~~~~a~~nLA~--al~~lGd~~eA~~~l~~A  703 (987)
T PRK09782        644 NYQAALGYALWDSGDIAQSREMLERAH------KGLPDDPALIRQLAY--VNQRLDDMAATQHYARLV  703 (987)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHH------HhCCCCHHHHHHHHH--HHHHCCCHHHHHHHHHHH
Confidence            456777778888888888888777776      456777777777777  778888888888777764

>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.80  E-value=0.0009  Score=61.54  Aligned_cols=46  Identities=30%  Similarity=0.719  Sum_probs=36.0

Q ss_pred             cCceeccccccccccCceecccCcHhHHHhHHhc------CCCCCCCcCCcc
Q 016262           87 IGPLSCMICQALLFECSKCTPCSHVYCKACISRF------KDCPLCGADIEK  132 (392)
Q Consensus        87 ~~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~------~~CP~C~~~~~~  132 (392)
                      .....|++|.+....+-+..+|+|.||..||...      +.||.|+.....
T Consensus       237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~  288 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP  288 (298)
T ss_pred             cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence            3568999999998844445569999999999764      359999987654

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=96.78  E-value=0.0029  Score=64.96  Aligned_cols=91  Identities=13%  Similarity=0.209  Sum_probs=59.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      ++--||.++..+++++.|.-+|++|++|       .+.+       .+.+..+|.++..+|+.++|+.+|++|+      
T Consensus       491 AwYGlG~vy~Kqek~e~Ae~~fqkA~~I-------NP~n-------svi~~~~g~~~~~~k~~d~AL~~~~~A~------  550 (638)
T KOG1126|consen  491 AWYGLGTVYLKQEKLEFAEFHFQKAVEI-------NPSN-------SVILCHIGRIQHQLKRKDKALQLYEKAI------  550 (638)
T ss_pred             HHHhhhhheeccchhhHHHHHHHhhhcC-------Cccc-------hhHHhhhhHHHHHhhhhhHHHHHHHHHH------
Confidence            4455677777777777777777776654       2221       2345677888888888888888888877      


Q ss_pred             hcCCCchhHHHhhcchhHHHHHHhhhccccchh
Q 016262          358 TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFR  390 (392)
Q Consensus       358 ~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~  390 (392)
                      ..+|.+.--.-..+.  ++-.+++|.++|.-++
T Consensus       551 ~ld~kn~l~~~~~~~--il~~~~~~~eal~~LE  581 (638)
T KOG1126|consen  551 HLDPKNPLCKYHRAS--ILFSLGRYVEALQELE  581 (638)
T ss_pred             hcCCCCchhHHHHHH--HHHhhcchHHHHHHHH
Confidence            455555444444444  7777888877775544

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=96.78  E-value=0.012  Score=57.94  Aligned_cols=59  Identities=20%  Similarity=0.054  Sum_probs=31.2

Q ss_pred             cccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          235 GMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLN  304 (392)
Q Consensus       235 ~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~  304 (392)
                      ..++..+...|++..|+.+++...+.    ..       .-......++.++...|++++|+..|.+.++
T Consensus       111 ~~La~~~~~~g~~~~A~~~~~~~l~~----~~-------~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  169 (389)
T PRK11788        111 QELGQDYLKAGLLDRAEELFLQLVDE----GD-------FAEGALQQLLEIYQQEKDWQKAIDVAERLEK  169 (389)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHcC----Cc-------chHHHHHHHHHHHHHhchHHHHHHHHHHHHH
Confidence            33444444556666666665554321    11       1123455666666666777777666665543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=96.74  E-value=0.0039  Score=39.65  Aligned_cols=32  Identities=16%  Similarity=0.321  Sum_probs=27.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          326 SLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       326 sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      ++.+||.++..+|++++|+++|++++.+-+..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l~~~~   32 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALALARDP   32 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHhcccc
Confidence            47899999999999999999999999776543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=96.73  E-value=0.0093  Score=63.66  Aligned_cols=94  Identities=16%  Similarity=0.081  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      .....++.++...|++++|+..|++++++       .+.+       .....+++.++..+|++++|+..|++++.    
T Consensus       285 ~a~~~lg~~l~~~g~~~eA~~~l~~al~l-------~P~~-------~~a~~~La~~l~~~G~~~eA~~~l~~al~----  346 (656)
T PRK15174        285 RIVTLYADALIRTGQNEKAIPLLQQSLAT-------HPDL-------PYVRAMYARALRQVGQYTAASDEFVQLAR----  346 (656)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh-------CCCC-------HHHHHHHHHHHHHCCCHHHHHHHHHHHHH----
Confidence            45677788888888888888888887754       2221       33456788899999999999888877664    


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                        .+|..+.+...++.  .+..++++..|+.+|++|
T Consensus       347 --~~P~~~~~~~~~a~--al~~~G~~deA~~~l~~a  378 (656)
T PRK15174        347 --EKGVTSKWNRYAAA--ALLQAGKTSEAESVFEHY  378 (656)
T ss_pred             --hCccchHHHHHHHH--HHHHCCCHHHHHHHHHHH
Confidence              45665544444444  667788888888888763

>PRK11189 lipoprotein NlpI; Provisional

Probab=96.72  E-value=0.006  Score=58.48  Aligned_cols=61  Identities=15%  Similarity=0.082  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      ..+..+|.++...|++++|+..|++++++       .+.       -...+.++|.++..+|++++|+..|++++
T Consensus        99 ~a~~~lg~~~~~~g~~~~A~~~~~~Al~l-------~P~-------~~~a~~~lg~~l~~~g~~~eA~~~~~~al  159 (296)
T PRK11189         99 DAYNYLGIYLTQAGNFDAAYEAFDSVLEL-------DPT-------YNYAYLNRGIALYYGGRYELAQDDLLAFY  159 (296)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh-------CCC-------CHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            34455555555555555555555554433       111       12334555555555666666666555555

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=96.71  E-value=0.0078  Score=53.65  Aligned_cols=97  Identities=16%  Similarity=0.116  Sum_probs=65.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE  355 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile  355 (392)
                      ......++.++...|++++|+.+|++++++.       +..       ...+.+++.++..+|++++|+..|++++..  
T Consensus        65 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-------~~~-------~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--  128 (234)
T TIGR02521        65 YLAYLALALYYQQLGELEKAEDSFRRALTLN-------PNN-------GDVLNNYGTFLCQQGKYEQAMQQFEQAIED--  128 (234)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-------CCC-------HHHHHHHHHHHHHcccHHHHHHHHHHHHhc--
Confidence            4566677778878888888888888777541       111       234567788888888888888888887752  


Q ss_pred             HhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          356 SLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       356 ~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                        ...+....+...++.  ++..++++..++.+|+++
T Consensus       129 --~~~~~~~~~~~~l~~--~~~~~g~~~~A~~~~~~~  161 (234)
T TIGR02521       129 --PLYPQPARSLENAGL--CALKAGDFDKAEKYLTRA  161 (234)
T ss_pred             --cccccchHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence              122334444555555  677778888888887653

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.

>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=96.63  E-value=0.0077  Score=44.68  Aligned_cols=91  Identities=20%  Similarity=0.278  Sum_probs=64.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhh
Q 016262          279 LNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLT  358 (392)
Q Consensus       279 l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~  358 (392)
                      +..++.++...|++++|+..|++++++.       +..       ...+..+|.++..+|++++|+..|++++.+     
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-------~~~-------~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-----   63 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-------PDN-------ADAYYNLAAAYYKLGKYEEALEDYEKALEL-----   63 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-------Ccc-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-----
Confidence            4567888888899999999888877642       111       145667888889999999999988887754     


Q ss_pred             cCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          359 LKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       359 ~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                       .|....+...++.  .+..++++..++.+++.
T Consensus        64 -~~~~~~~~~~~~~--~~~~~~~~~~a~~~~~~   93 (100)
T cd00189          64 -DPDNAKAYYNLGL--AYYKLGKYEEALEAYEK   93 (100)
T ss_pred             -CCcchhHHHHHHH--HHHHHHhHHHHHHHHHH
Confidence             3333344455555  66677777887777754

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.60  E-value=0.0052  Score=57.76  Aligned_cols=95  Identities=16%  Similarity=0.256  Sum_probs=62.4

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH---------HH-HhhcCCCCCc--------hhh--HHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVR---------RD-AVKRHSNVPS--------QVL--DVAVSLAKVA  331 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~---------~~-~~~~~~~~~~--------~~~--dla~sl~~l~  331 (392)
                      ...+++.++.-|+=...-++|++|+..|.+++++-         |. ++-+..+-..        ..+  .-..++..||
T Consensus        77 ~~~~AE~LK~eGN~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG  156 (304)
T KOG0553|consen   77 DKALAESLKNEGNKLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLG  156 (304)
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            45677888888888888899999999999998753         11 1111110000        001  1234455678


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcc
Q 016262          332 DVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       332 ~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~  372 (392)
                      .++..+|++++|++.|+++|      +.+|.+..+...+..
T Consensus       157 ~A~~~~gk~~~A~~aykKaL------eldP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  157 LAYLALGKYEEAIEAYKKAL------ELDPDNESYKSNLKI  191 (304)
T ss_pred             HHHHccCcHHHHHHHHHhhh------ccCCCcHHHHHHHHH
Confidence            88888888888888888877      667777766655544

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=96.59  E-value=0.014  Score=49.61  Aligned_cols=104  Identities=18%  Similarity=0.134  Sum_probs=75.6

Q ss_pred             ccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 016262          238 GDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVP  317 (392)
Q Consensus       238 C~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~  317 (392)
                      +......|++.+|+.+++...    .+.+..       ...+..+|.+...+|++++|+..|++++++       .+.+ 
T Consensus        31 g~~~~~~g~~~~A~~~~~~al----~~~P~~-------~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l-------~p~~-   91 (144)
T PRK15359         31 GYASWQEGDYSRAVIDFSWLV----MAQPWS-------WRAHIALAGTWMMLKEYTTAINFYGHALML-------DASH-   91 (144)
T ss_pred             HHHHHHcCCHHHHHHHHHHHH----HcCCCc-------HHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-------CCCC-
Confidence            334447888888888877653    333333       346788999999999999999999998864       2322 


Q ss_pred             chhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcc
Q 016262          318 SQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       318 ~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~  372 (392)
                            +..+.++|.++..+|++++|+..|+++++      ..|.++....+++.
T Consensus        92 ------~~a~~~lg~~l~~~g~~~eAi~~~~~Al~------~~p~~~~~~~~~~~  134 (144)
T PRK15359         92 ------PEPVYQTGVCLKMMGEPGLAREAFQTAIK------MSYADASWSEIRQN  134 (144)
T ss_pred             ------cHHHHHHHHHHHHcCCHHHHHHHHHHHHH------hCCCChHHHHHHHH
Confidence                  55678899999999999999999999984      45555544444333

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=96.58  E-value=0.0024  Score=72.58  Aligned_cols=130  Identities=18%  Similarity=0.142  Sum_probs=85.6

Q ss_pred             ccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCC
Q 016262          236 MLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSN  315 (392)
Q Consensus       236 ~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~  315 (392)
                      .++......|++..|+..++...+.    .+...       .....++.++...|++++|+..|++.++.       .+.
T Consensus       608 ~La~~~~~~g~~~~A~~~y~~al~~----~P~~~-------~a~~~la~~~~~~g~~~eA~~~l~~ll~~-------~p~  669 (1157)
T PRK11447        608 TLADWAQQRGDYAAARAAYQRVLTR----EPGNA-------DARLGLIEVDIAQGDLAAARAQLAKLPAT-------AND  669 (1157)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh----CCCCH-------HHHHHHHHHHHHCCCHHHHHHHHHHHhcc-------CCC
Confidence            3445555778888888888766543    23222       35678888888889999999888865542       222


Q ss_pred             CCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          316 VPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       316 ~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .       ...+..+|.++..+|++++|+..|++++.+...-......+.+...++.  ++...++..+|+.+|++|
T Consensus       670 ~-------~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~--~~~~~G~~~~A~~~y~~A  737 (1157)
T PRK11447        670 S-------LNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAAR--FEAQTGQPQQALETYKDA  737 (1157)
T ss_pred             C-------hHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            1       3345567888888999999999888877543222111123344444555  777788888888888875

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=96.57  E-value=0.0058  Score=60.22  Aligned_cols=91  Identities=19%  Similarity=0.171  Sum_probs=59.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhc
Q 016262          280 NKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTL  359 (392)
Q Consensus       280 ~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~  359 (392)
                      ...+.-....|++++|+..|.++|++       .+.+       +..+.++|.++..+|++++|+..+++++.      .
T Consensus         6 ~~~a~~a~~~~~~~~Ai~~~~~Al~~-------~P~~-------~~a~~~~a~~~~~~g~~~eAl~~~~~Al~------l   65 (356)
T PLN03088          6 EDKAKEAFVDDDFALAVDLYTQAIDL-------DPNN-------AELYADRAQANIKLGNFTEAVADANKAIE------L   65 (356)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh-------CCCC-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHH------h
Confidence            34456666677888888887777753       2221       33456677777777777777777777764      3


Q ss_pred             CCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          360 KPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       360 ~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .|..+....+++.  ++..+++|..|+.+|++|
T Consensus        66 ~P~~~~a~~~lg~--~~~~lg~~~eA~~~~~~a   96 (356)
T PLN03088         66 DPSLAKAYLRKGT--ACMKLEEYQTAKAALEKG   96 (356)
T ss_pred             CcCCHHHHHHHHH--HHHHhCCHHHHHHHHHHH
Confidence            5556666666666  677777777777777653

>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=96.50  E-value=0.0029  Score=46.19  Aligned_cols=61  Identities=16%  Similarity=0.129  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHH-hhhccccchhcC
Q 016262          324 AVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQK-NHLNQLPKFRSA  392 (392)
Q Consensus       324 a~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~-~~~~~l~~~~~~  392 (392)
                      +..+..+|.++..+|++++|+..|++++++      +|.++.+..+++.  .+..++ ++.+++.+|++|
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~------~p~~~~~~~~~g~--~~~~~~~~~~~A~~~~~~a   64 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIEL------DPNNAEAYYNLGL--AYMKLGKDYEEAIEDFEKA   64 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHH------STTHHHHHHHHHH--HHHHTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc------CCCCHHHHHHHHH--HHHHhCccHHHHHHHHHHH
Confidence            567888999999999999999999999954      6888888989998  888888 799999998874

...

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=96.47  E-value=0.0079  Score=38.23  Aligned_cols=31  Identities=35%  Similarity=0.628  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRD  308 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~  308 (392)
                      ++.+||.++..+|++++|+.+|+++|.+.++
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l~~~   31 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALALARD   31 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHhccc
Confidence            4689999999999999999999999987765

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.45  E-value=0.0077  Score=43.41  Aligned_cols=59  Identities=15%  Similarity=0.221  Sum_probs=46.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          281 KIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       281 ~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      .++..+...|++++|+..|++.++       ..+.       -...+..+|.++..+|++++|+..|++++++
T Consensus         2 ~~a~~~~~~g~~~~A~~~~~~~l~-------~~P~-------~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    2 ALARALYQQGDYDEAIAAFEQALK-------QDPD-------NPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHHCTHHHHHHHHHHHHHC-------CSTT-------HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             hHHHHHHHcCCHHHHHHHHHHHHH-------HCCC-------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            357778888999988888887663       3333       3667788999999999999999999998854

>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.45  E-value=0.0013  Score=68.53  Aligned_cols=43  Identities=28%  Similarity=0.768  Sum_probs=37.7

Q ss_pred             CceeccccccccccC----ceecccCcHhHHHhHHhcC----CCCCCCcCC
Q 016262           88 GPLSCMICQALLFEC----SKCTPCSHVYCKACISRFK----DCPLCGADI  130 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~----p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~  130 (392)
                      ....|+||.+.+...    |..++|+|.|+..|+..|.    .||.||..+
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~  340 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL  340 (543)
T ss_pred             cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence            468999999999943    8999999999999999994    599999843

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=96.43  E-value=0.0096  Score=49.42  Aligned_cols=92  Identities=10%  Similarity=0.020  Sum_probs=50.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      ....++..+...|++++|+..|++.+.+       .+.+       ...+.++|.++..+|++++|+..|++++++    
T Consensus        19 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~-------~p~~-------~~~~~~la~~~~~~~~~~~A~~~~~~~~~~----   80 (135)
T TIGR02552        19 QIYALAYNLYQQGRYDEALKLFQLLAAY-------DPYN-------SRYWLGLAACCQMLKEYEEAIDAYALAAAL----   80 (135)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHh-------CCCc-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc----
Confidence            3455666666666666666666554432       1111       233445566666666666666666655532    


Q ss_pred             hcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          358 TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       358 ~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                        .|.+......++.  .+..++++.+++++|+.
T Consensus        81 --~p~~~~~~~~la~--~~~~~g~~~~A~~~~~~  110 (135)
T TIGR02552        81 --DPDDPRPYFHAAE--CLLALGEPESALKALDL  110 (135)
T ss_pred             --CCCChHHHHHHHH--HHHHcCCHHHHHHHHHH
Confidence              3455555555555  55566666666666554

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

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

Probab=96.33  E-value=0.026  Score=61.03  Aligned_cols=58  Identities=19%  Similarity=0.123  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          326 SLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       326 sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .+.+++.++..+|+ .+|+.+|+++++      ..|.+..+...++.  ++..++++.+|+.+|++|
T Consensus       806 ~~~~l~~~~~~~~~-~~A~~~~~~~~~------~~~~~~~~~~~~~~--~~~~~g~~~~A~~~~~~a  863 (899)
T TIGR02917       806 VLNNLAWLYLELKD-PRALEYAEKALK------LAPNIPAILDTLGW--LLVEKGEADRALPLLRKA  863 (899)
T ss_pred             HHHHHHHHHHhcCc-HHHHHHHHHHHh------hCCCCcHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            44555555556665 555555555543      34555666666666  677778888888887764

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.

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=96.30  E-value=0.013  Score=52.88  Aligned_cols=93  Identities=16%  Similarity=0.169  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHH-HHhcCCH--HHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADV-DRSIGNE--DVAVDGFQEAIKR  353 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v-~~~lg~~--~~A~~~~~~al~i  353 (392)
                      ..+..+|.++...|++++|+..|++++++.       +.+       +..+..+|.+ +...|++  .+|+..+++++  
T Consensus        74 ~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-------P~~-------~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al--  137 (198)
T PRK10370         74 EQWALLGEYYLWRNDYDNALLAYRQALQLR-------GEN-------AELYAALATVLYYQAGQHMTPQTREMIDKAL--  137 (198)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-------CCC-------HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH--
Confidence            467888999999999999999999888642       211       3334445554 2444542  44444444433  


Q ss_pred             HHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          354 LESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       354 le~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                          ..+|.+...+.+++.  .+..++++.+|+.+|++
T Consensus       138 ----~~dP~~~~al~~LA~--~~~~~g~~~~Ai~~~~~  169 (198)
T PRK10370        138 ----ALDANEVTALMLLAS--DAFMQADYAQAIELWQK  169 (198)
T ss_pred             ----HhCCCChhHHHHHHH--HHHHcCCHHHHHHHHHH
Confidence                555566556666666  55566666666666654

>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.23  E-value=0.002  Score=59.99  Aligned_cols=42  Identities=26%  Similarity=0.856  Sum_probs=35.8

Q ss_pred             eecccccccccc--CceecccCcHhHHHhHHhcC-----CCCCCCcCCc
Q 016262           90 LSCMICQALLFE--CSKCTPCSHVYCKACISRFK-----DCPLCGADIE  131 (392)
Q Consensus        90 ~~C~iC~~~~~~--~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~  131 (392)
                      ..|.||+.-+..  .-+++||.|.|-..|+..|.     .||.||..+.
T Consensus       324 veCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         324 VECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             ceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            689999997763  36789999999999999994     5999998764

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.18  E-value=0.024  Score=51.55  Aligned_cols=90  Identities=14%  Similarity=0.181  Sum_probs=44.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhc
Q 016262          280 NKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTL  359 (392)
Q Consensus       280 ~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~  359 (392)
                      -.++--|...|++..|+..++++|++-       +..       ..+..-++.++..+|..+.|-+.|++|+      ..
T Consensus        39 lqLal~YL~~gd~~~A~~nlekAL~~D-------Ps~-------~~a~~~~A~~Yq~~Ge~~~A~e~YrkAl------sl   98 (250)
T COG3063          39 LQLALGYLQQGDYAQAKKNLEKALEHD-------PSY-------YLAHLVRAHYYQKLGENDLADESYRKAL------SL   98 (250)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-------ccc-------HHHHHHHHHHHHHcCChhhHHHHHHHHH------hc
Confidence            334444455566666666555555431       110       1112224555555555555555555555      44


Q ss_pred             CCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          360 KPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       360 ~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      +|.+..++|+.+.  .+=-.+++..++.+|.+
T Consensus        99 ~p~~GdVLNNYG~--FLC~qg~~~eA~q~F~~  128 (250)
T COG3063          99 APNNGDVLNNYGA--FLCAQGRPEEAMQQFER  128 (250)
T ss_pred             CCCccchhhhhhH--HHHhCCChHHHHHHHHH
Confidence            5555555555555  44444444444444443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.17  E-value=0.018  Score=56.39  Aligned_cols=111  Identities=11%  Similarity=0.059  Sum_probs=83.1

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhh-HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          274 TLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVL-DVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       274 ~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~-dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      ..+...+.-|+.++..|+|..|+..|++++...........+....+- .....+.|++.++..++++.+|+..-+++| 
T Consensus       206 ~~A~~~ke~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvL-  284 (397)
T KOG0543|consen  206 EAADRKKERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVL-  284 (397)
T ss_pred             HHHHHHHHhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHH-
Confidence            345667788999999999999999999999876532222211111111 334456789999999999998888776665 


Q ss_pred             HHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          353 RLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       353 ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                           ..+|.+...+-+.+.  .+--+.+|..|++.||+|
T Consensus       285 -----e~~~~N~KALyRrG~--A~l~~~e~~~A~~df~ka  317 (397)
T KOG0543|consen  285 -----ELDPNNVKALYRRGQ--ALLALGEYDLARDDFQKA  317 (397)
T ss_pred             -----hcCCCchhHHHHHHH--HHHhhccHHHHHHHHHHH
Confidence                 778888888888888  888888999888888865

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]

Probab=96.15  E-value=0.0034  Score=62.53  Aligned_cols=66  Identities=18%  Similarity=0.432  Sum_probs=48.9

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCceeccccccccccCceecccCcHhHHHhHHhc--------
Q 016262           49 NSAKPQAEHDGDKAKSDSMDSASIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISRF--------  120 (392)
Q Consensus        49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~--------  120 (392)
                      ..++|++.+-.+.+++-..+                 ..+...|.+|.+.-. +++...|-|.||+.||.++        
T Consensus       513 Q~aDHP~LVl~S~~~n~~~e-----------------nk~~~~C~lc~d~ae-d~i~s~ChH~FCrlCi~eyv~~f~~~~  574 (791)
T KOG1002|consen  513 QAADHPDLVLYSANANLPDE-----------------NKGEVECGLCHDPAE-DYIESSCHHKFCRLCIKEYVESFMENN  574 (791)
T ss_pred             HhccCcceeeehhhcCCCcc-----------------ccCceeecccCChhh-hhHhhhhhHHHHHHHHHHHHHhhhccc
Confidence            35678888777644322111                 114678999999977 9999999999999999766        


Q ss_pred             -CCCCCCCcCCcc
Q 016262          121 -KDCPLCGADIEK  132 (392)
Q Consensus       121 -~~CP~C~~~~~~  132 (392)
                       ..||.|...+..
T Consensus       575 nvtCP~C~i~Lsi  587 (791)
T KOG1002|consen  575 NVTCPVCHIGLSI  587 (791)
T ss_pred             CCCCccccccccc
Confidence             249999876654

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

Probab=96.12  E-value=0.021  Score=61.82  Aligned_cols=31  Identities=23%  Similarity=0.168  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          275 LSVSLNKIGDLKYYGGDLQAARSYYVRSLNV  305 (392)
Q Consensus       275 l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i  305 (392)
                      ....+..+|..+...|++++|+..|++++++
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  154 (899)
T TIGR02917       124 AAELLALRGLAYLGLGQLELAQKSYEQALAI  154 (899)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3456677888888889999999988887653

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.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.08  E-value=0.039  Score=55.20  Aligned_cols=71  Identities=13%  Similarity=0.119  Sum_probs=59.2

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      .........++|..+..+|++++|+..|+++|++.       +.+.    +...++.|+|.++..+|++++|+..|++|+
T Consensus        71 dP~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~-------Pd~a----eA~~A~yNLAcaya~LGr~dEAla~LrrAL  139 (453)
T PLN03098         71 DVKTAEDAVNLGLSLFSKGRVKDALAQFETALELN-------PNPD----EAQAAYYNKACCHAYREEGKKAADCLRTAL  139 (453)
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-------CCch----HHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44456788999999999999999999999998773       2221    223568999999999999999999999999


Q ss_pred             HH
Q 016262          352 KR  353 (392)
Q Consensus       352 ~i  353 (392)
                      ++
T Consensus       140 el  141 (453)
T PLN03098        140 RD  141 (453)
T ss_pred             Hh
Confidence            97

>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]

Probab=96.07  E-value=0.0037  Score=62.23  Aligned_cols=44  Identities=30%  Similarity=0.773  Sum_probs=37.9

Q ss_pred             CceeccccccccccCcee-cccCcHhHHHhHHhcC----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKC-TPCSHVYCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~-~~C~h~fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      ..+.|++|..++. +|+. +.|||.||..|+..|.    .||.|+.....
T Consensus        20 ~~l~C~~C~~vl~-~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~   68 (391)
T KOG0297|consen   20 ENLLCPICMSVLR-DPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQ   68 (391)
T ss_pred             ccccCcccccccc-CCCCCCCCCCcccccccchhhccCcCCcccccccch
Confidence            5699999999999 7777 5999999999999884    59999877665

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=96.03  E-value=0.017  Score=37.28  Aligned_cols=38  Identities=16%  Similarity=0.237  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcC
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRH  313 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~  313 (392)
                      ..++++|+.++..+|++++|+.++++++++++...+.+
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~G~~   39 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALEIRERLLGPD   39 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHHHH-------
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHHHHHHHhccc
Confidence            46789999999999999999999999999999876553

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=96.00  E-value=0.066  Score=48.96  Aligned_cols=176  Identities=13%  Similarity=-0.019  Sum_probs=107.7

Q ss_pred             hHhHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhC
Q 016262          185 FLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKL  264 (392)
Q Consensus       185 cl~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L  264 (392)
                      -++..+...+..|++++|...+....       ...+.+.    .....+..++......|++..|+..++...+...  
T Consensus        35 ~~~~~g~~~~~~~~~~~A~~~~~~~~-------~~~p~~~----~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p--  101 (235)
T TIGR03302        35 ELYEEAKEALDSGDYTEAIKYFEALE-------SRYPFSP----YAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHP--  101 (235)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH-------HhCCCch----hHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCc--
Confidence            45666666788999999988876321       1122211    1112333445555577888889988887754332  


Q ss_pred             CCCchHHHHHHHHHHHHHHHHHHhc--------CCHHHHHHHHHHHHHHHHHHhhcCCCCCchh---hHH-------HHH
Q 016262          265 PMDDLEIIHTLSVSLNKIGDLKYYG--------GDLQAARSYYVRSLNVRRDAVKRHSNVPSQV---LDV-------AVS  326 (392)
Q Consensus       265 ~~~~~e~~~~l~~~l~~lg~l~~~~--------g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~---~dl-------a~s  326 (392)
                        ....+    ...+..+|.++...        |++++|+..|++.+..       .+.+....   ..+       ...
T Consensus       102 --~~~~~----~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-------~p~~~~~~~a~~~~~~~~~~~~~~  168 (235)
T TIGR03302       102 --NHPDA----DYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR-------YPNSEYAPDAKKRMDYLRNRLAGK  168 (235)
T ss_pred             --CCCch----HHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH-------CCCChhHHHHHHHHHHHHHHHHHH
Confidence              22211    23456667776654        5666777777666543       33322110   011       111


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          327 LAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       327 l~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      .-.+|.++...|++.+|+..|+++++..   ...|..+.....++.  .+..++++.++++++++
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~a~~~l~~--~~~~lg~~~~A~~~~~~  228 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENY---PDTPATEEALARLVE--AYLKLGLKDLAQDAAAV  228 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHC---CCCcchHHHHHHHHH--HHHHcCCHHHHHHHHHH
Confidence            1256888999999999999999877443   224555566777777  88889999999988764

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).

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

Probab=95.95  E-value=0.064  Score=53.17  Aligned_cols=104  Identities=18%  Similarity=0.266  Sum_probs=63.3

Q ss_pred             ccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 016262          238 GDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVP  317 (392)
Q Consensus       238 C~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~  317 (392)
                      |.+-+..|++.+|...|.+++      ..     .....+++-+||..+..+|++++|+.+|-+.-.|.+..        
T Consensus       497 gn~~f~ngd~dka~~~ykeal------~n-----dasc~ealfniglt~e~~~~ldeald~f~klh~il~nn--------  557 (840)
T KOG2003|consen  497 GNIAFANGDLDKAAEFYKEAL------NN-----DASCTEALFNIGLTAEALGNLDEALDCFLKLHAILLNN--------  557 (840)
T ss_pred             CceeeecCcHHHHHHHHHHHH------cC-----chHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHHHHhh--------
Confidence            334445666666655555442      22     12234678889999999999999999888877666542        


Q ss_pred             chhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcc
Q 016262          318 SQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       318 ~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~  372 (392)
                            +..|-.++.+|+.+.+-..|++.|-|+-      .+-|.++.++..++.
T Consensus       558 ------~evl~qianiye~led~aqaie~~~q~~------slip~dp~ilskl~d  600 (840)
T KOG2003|consen  558 ------AEVLVQIANIYELLEDPAQAIELLMQAN------SLIPNDPAILSKLAD  600 (840)
T ss_pred             ------HHHHHHHHHHHHHhhCHHHHHHHHHHhc------ccCCCCHHHHHHHHH
Confidence                  3445556666666666666666555543      333444444545444

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.95  E-value=0.19  Score=48.73  Aligned_cols=110  Identities=19%  Similarity=0.208  Sum_probs=80.7

Q ss_pred             ccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHH
Q 016262          244 MGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDV  323 (392)
Q Consensus       244 ~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dl  323 (392)
                      +.|+.++.-+...+.+....+.-..-. ...-..++-.+...+..+|++-.|.++.+++.++.-...++...        
T Consensus       175 l~D~~Kal~f~~kA~~lv~s~~l~d~~-~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~--------  245 (518)
T KOG1941|consen  175 LKDYEKALFFPCKAAELVNSYGLKDWS-LKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQ--------  245 (518)
T ss_pred             HHhhhHHhhhhHhHHHHHHhcCcCchh-HHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHH--------
Confidence            345566666666666666665532211 22234456677777777888889999999999988776665554        


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCC
Q 016262          324 AVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPE  362 (392)
Q Consensus       324 a~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~  362 (392)
                      +..+--+|+||+..|+.+.|...|++|+.+...+.++-.
T Consensus       246 arc~~~~aDIyR~~gd~e~af~rYe~Am~~m~~~gdrmg  284 (518)
T KOG1941|consen  246 ARCLLCFADIYRSRGDLERAFRRYEQAMGTMASLGDRMG  284 (518)
T ss_pred             HHHHHHHHHHHHhcccHhHHHHHHHHHHHHHhhhhhhHH
Confidence            777888999999999999999999999999988854433

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=95.94  E-value=0.031  Score=62.11  Aligned_cols=108  Identities=13%  Similarity=0.082  Sum_probs=79.2

Q ss_pred             hcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcC
Q 016262          234 LGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRH  313 (392)
Q Consensus       234 L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~  313 (392)
                      +..++.++...|++.+|+..++.....    .+...       ....++|.++...|++++|+..|++++++       .
T Consensus       612 ~~~LA~~l~~lG~~deA~~~l~~AL~l----~Pd~~-------~a~~nLG~aL~~~G~~eeAi~~l~~AL~l-------~  673 (987)
T PRK09782        612 YVARATIYRQRHNVPAAVSDLRAALEL----EPNNS-------NYQAALGYALWDSGDIAQSREMLERAHKG-------L  673 (987)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh----CCCCH-------HHHHHHHHHHHHCCCHHHHHHHHHHHHHh-------C
Confidence            344555666788888888877765433    34333       46788999999999999999999988764       3


Q ss_pred             CCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcc
Q 016262          314 SNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       314 ~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~  372 (392)
                      +.+       +..+.++|.++..+|++++|+..|+++++      ..|+.+.+....+.
T Consensus       674 P~~-------~~a~~nLA~al~~lGd~~eA~~~l~~Al~------l~P~~a~i~~~~g~  719 (987)
T PRK09782        674 PDD-------PALIRQLAYVNQRLDDMAATQHYARLVID------DIDNQALITPLTPE  719 (987)
T ss_pred             CCC-------HHHHHHHHHHHHHCCCHHHHHHHHHHHHh------cCCCCchhhhhhhH
Confidence            332       45678999999999999999999999984      44666655555554

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=95.93  E-value=0.06  Score=53.04  Aligned_cols=86  Identities=23%  Similarity=0.251  Sum_probs=51.4

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhH
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLD  322 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~d  322 (392)
                      ..+++..|+.++++..+..    +.       .......++.++...|++++|+..|+++++.-       +.      .
T Consensus       192 ~~~~~~~A~~~~~~al~~~----p~-------~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-------p~------~  247 (389)
T PRK11788        192 ARGDLDAARALLKKALAAD----PQ-------CVRASILLGDLALAQGDYAAAIEALERVEEQD-------PE------Y  247 (389)
T ss_pred             hCCCHHHHHHHHHHHHhHC----cC-------CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-------hh------h
Confidence            4566666666666554321    11       12345567888888888888888888776531       11      1


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          323 VAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       323 la~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      ....+..++.++..+|++++|+..++++++
T Consensus       248 ~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~  277 (389)
T PRK11788        248 LSEVLPKLMECYQALGDEAEGLEFLRRALE  277 (389)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            233345566666677777777766666554

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=95.91  E-value=0.064  Score=42.84  Aligned_cols=98  Identities=10%  Similarity=0.031  Sum_probs=61.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      ..-.++......|++++|+..|.+.+..       .+...    .....+-++|.++...|+++.|+..|++++...   
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~-------~~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---   69 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKK-------YPKST----YAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKY---   69 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH-------CCCcc----ccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHC---
Confidence            3456677777788888888888877643       12111    113445668888888888888888888877422   


Q ss_pred             hcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          358 TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       358 ~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      ..++........++.  .+..++++.+++.+|++
T Consensus        70 p~~~~~~~~~~~~~~--~~~~~~~~~~A~~~~~~  101 (119)
T TIGR02795        70 PKSPKAPDALLKLGM--SLQELGDKEKAKATLQQ  101 (119)
T ss_pred             CCCCcccHHHHHHHH--HHHHhCChHHHHHHHHH
Confidence            222223344445555  56667777777776654

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.

>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

Probab=95.90  E-value=0.003  Score=60.39  Aligned_cols=45  Identities=27%  Similarity=0.746  Sum_probs=37.5

Q ss_pred             ccCceeccccccccccCc------------eecccCcHhHHHhHHhcC----CCCCCCcCC
Q 016262           86 KIGPLSCMICQALLFECS------------KCTPCSHVYCKACISRFK----DCPLCGADI  130 (392)
Q Consensus        86 ~~~~~~C~iC~~~~~~~p------------~~~~C~h~fC~~Ci~~~~----~CP~C~~~~  130 (392)
                      .+++..|.||.+-+..++            +.+||||.|-..|+.-|.    .||.||.++
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            446789999999855444            899999999999998884    499999884

>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.88  E-value=0.0042  Score=60.17  Aligned_cols=46  Identities=26%  Similarity=0.704  Sum_probs=36.9

Q ss_pred             cCceeccccccccccCc-------eecccCcHhHHHhHHhcC-----------CCCCCCcCCcc
Q 016262           87 IGPLSCMICQALLFECS-------KCTPCSHVYCKACISRFK-----------DCPLCGADIEK  132 (392)
Q Consensus        87 ~~~~~C~iC~~~~~~~p-------~~~~C~h~fC~~Ci~~~~-----------~CP~C~~~~~~  132 (392)
                      ..+..|.||++...+.+       ...+|.|.||..||..|.           .||.||.....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~  222 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF  222 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence            45789999999977444       125699999999999994           39999987765

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=95.83  E-value=0.11  Score=42.79  Aligned_cols=64  Identities=23%  Similarity=0.238  Sum_probs=48.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          279 LNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       279 l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      .-+++..+..+|+.++|+.+|+++++.     .-...      +....+-.+|.++..+|++++|+..+++++.-
T Consensus         4 ~~~~A~a~d~~G~~~~Ai~~Y~~Al~~-----gL~~~------~~~~a~i~lastlr~LG~~deA~~~L~~~~~~   67 (120)
T PF12688_consen    4 LYELAWAHDSLGREEEAIPLYRRALAA-----GLSGA------DRRRALIQLASTLRNLGRYDEALALLEEALEE   67 (120)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc-----CCCch------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            345677788889999999999998862     11111      22445668899999999999999999888753

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=95.82  E-value=0.047  Score=47.02  Aligned_cols=84  Identities=13%  Similarity=0.004  Sum_probs=50.0

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      .+....-+-+||-+...+|++++|+..|..++.+.       +++       ....-++|.++-.+|+.+.|...|+.++
T Consensus        65 Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-------~dd-------p~~~~~ag~c~L~lG~~~~A~~aF~~Ai  130 (157)
T PRK15363         65 DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-------IDA-------PQAPWAAAECYLACDNVCYAIKALKAVV  130 (157)
T ss_pred             CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-------CCC-------chHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34444556666666666666666666666655432       111       3345667777777777777777777777


Q ss_pred             HHHHHhhcCCCchhHHHhhcc
Q 016262          352 KRLESLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       352 ~ile~l~~~~~~a~l~~~~~~  372 (392)
                      .+..   .+|+.+.+.++...
T Consensus       131 ~~~~---~~~~~~~l~~~A~~  148 (157)
T PRK15363        131 RICG---EVSEHQILRQRAEK  148 (157)
T ss_pred             HHhc---cChhHHHHHHHHHH
Confidence            6652   44555555555444

>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C

Probab=95.78  E-value=0.0045  Score=43.90  Aligned_cols=36  Identities=25%  Similarity=0.501  Sum_probs=25.7

Q ss_pred             ceeccccccccccCcee-cccCcHhHHHhHHhcC------CCCC
Q 016262           89 PLSCMICQALLFECSKC-TPCSHVYCKACISRFK------DCPL  125 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~-~~C~h~fC~~Ci~~~~------~CP~  125 (392)
                      .+.|||.+..|. +|+. ..|+|+|.+..|.++.      .||.
T Consensus        11 ~~~CPiT~~~~~-~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPFE-DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB-S-SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChhh-CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            589999999999 6655 6999999999999985      2888

>PRK12370 invasion protein regulator; Provisional

Probab=95.77  E-value=0.075  Score=55.59  Aligned_cols=60  Identities=10%  Similarity=-0.009  Sum_probs=38.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      .+..+|.++...|++++|+..|++++++       .+.+       +..+..+|.++..+|++++|+..|++++
T Consensus       340 a~~~lg~~~~~~g~~~~A~~~~~~Al~l-------~P~~-------~~a~~~lg~~l~~~G~~~eAi~~~~~Al  399 (553)
T PRK12370        340 ALGLLGLINTIHSEYIVGSLLFKQANLL-------SPIS-------ADIKYYYGWNLFMAGQLEEALQTINECL  399 (553)
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh-------CCCC-------HHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            4456677777778888888888877754       2221       3344556666666677776666666655

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

Probab=95.76  E-value=0.045  Score=54.22  Aligned_cols=100  Identities=16%  Similarity=0.168  Sum_probs=61.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHH--------
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGF--------  347 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~--------  347 (392)
                      .+.+-.|..+|..+.+-..|+..|.++..+.       +..       -..|++|+++|.+.|+...|..++        
T Consensus       558 ~evl~qianiye~led~aqaie~~~q~~sli-------p~d-------p~ilskl~dlydqegdksqafq~~ydsyryfp  623 (840)
T KOG2003|consen  558 AEVLVQIANIYELLEDPAQAIELLMQANSLI-------PND-------PAILSKLADLYDQEGDKSQAFQCHYDSYRYFP  623 (840)
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHhcccC-------CCC-------HHHHHHHHHHhhcccchhhhhhhhhhcccccC
Confidence            4566777888877788888888777765321       111       112444555555555544444322        


Q ss_pred             -------------------HHHHHHHHHh-hcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          348 -------------------QEAIKRLESL-TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       348 -------------------~~al~ile~l-~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                                         ++++..++.- -..|....|.-.+.+  .+..-++|++++++|++
T Consensus       624 ~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmias--c~rrsgnyqka~d~yk~  685 (840)
T KOG2003|consen  624 CNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIAS--CFRRSGNYQKAFDLYKD  685 (840)
T ss_pred             cchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHH--HHHhcccHHHHHHHHHH
Confidence                               3344444443 445666666667777  88999999999999975

>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.76  E-value=0.0046  Score=59.24  Aligned_cols=43  Identities=30%  Similarity=0.821  Sum_probs=36.9

Q ss_pred             ceeccccccccccCceecccCcHh-HHHhHHhc----CCCCCCCcCCcc
Q 016262           89 PLSCMICQALLFECSKCTPCSHVY-CKACISRF----KDCPLCGADIEK  132 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~~C~h~f-C~~Ci~~~----~~CP~C~~~~~~  132 (392)
                      ...|-||+.-.+ +-+++||.|.. |..|....    ..||.||+++..
T Consensus       290 gkeCVIClse~r-dt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  290 GKECVICLSESR-DTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE  337 (349)
T ss_pred             CCeeEEEecCCc-ceEEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence            468999999999 99999999976 99997655    459999998765

>PRK04841 transcriptional regulator MalT; Provisional

Probab=95.74  E-value=0.077  Score=58.61  Aligned_cols=109  Identities=15%  Similarity=0.092  Sum_probs=76.9

Q ss_pred             ccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 016262          238 GDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVP  317 (392)
Q Consensus       238 C~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~  317 (392)
                      +......|++..+..+++++.......+...     .....+..++.++...|++++|..++++++++.+.......   
T Consensus       498 g~~~~~~G~~~~A~~~~~~al~~~~~~g~~~-----~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~---  569 (903)
T PRK04841        498 GEVHHCKGELARALAMMQQTEQMARQHDVYH-----YALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQL---  569 (903)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhhcchH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccc---
Confidence            3344457777777777777776666554322     23346788899999999999999999999988766431110   


Q ss_pred             chhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          318 SQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       318 ~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                         ...+.....++.++...|++++|...+++++.+.+..
T Consensus       570 ---~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~  606 (903)
T PRK04841        570 ---PMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNY  606 (903)
T ss_pred             ---cHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhcc
Confidence               1112334567888888899999999999999887754

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=95.72  E-value=0.048  Score=58.35  Aligned_cols=126  Identities=13%  Similarity=-0.008  Sum_probs=61.6

Q ss_pred             hhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhc
Q 016262          233 VLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKR  312 (392)
Q Consensus       233 ~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~  312 (392)
                      .+.+++++-...|.+.++..+++..    -++.+.+...+.       +.+.+...++.+++|+..++++       +..
T Consensus        88 ~~~~La~i~~~~g~~~ea~~~l~~~----~~~~Pd~~~a~~-------~~a~~L~~~~~~eeA~~~~~~~-------l~~  149 (694)
T PRK15179         88 FQVLVARALEAAHRSDEGLAVWRGI----HQRFPDSSEAFI-------LMLRGVKRQQGIEAGRAEIELY-------FSG  149 (694)
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHH----HhhCCCcHHHHH-------HHHHHHHHhccHHHHHHHHHHH-------hhc
Confidence            3334444433445555554444333    334444444433       3333443444444444444433       334


Q ss_pred             CCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          313 HSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       313 ~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      .+++       +..+..+|.++..+|++++|++.|++++.      .+|+.+..+-.++.  .+.-+++...|...|++
T Consensus       150 ~p~~-------~~~~~~~a~~l~~~g~~~~A~~~y~~~~~------~~p~~~~~~~~~a~--~l~~~G~~~~A~~~~~~  213 (694)
T PRK15179        150 GSSS-------AREILLEAKSWDEIGQSEQADACFERLSR------QHPEFENGYVGWAQ--SLTRRGALWRARDVLQA  213 (694)
T ss_pred             CCCC-------HHHHHHHHHHHHHhcchHHHHHHHHHHHh------cCCCcHHHHHHHHH--HHHHcCCHHHHHHHHHH
Confidence            4432       44556666677777777777777776663      44444444444444  44444454444444443

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=95.68  E-value=0.29  Score=44.73  Aligned_cols=135  Identities=16%  Similarity=0.112  Sum_probs=84.0

Q ss_pred             hHhHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhC
Q 016262          185 FLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKL  264 (392)
Q Consensus       185 cl~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L  264 (392)
                      -.++.++.-+++|++..|+.-+...-+|       .+..........       ..+...|++..|-..|+.+..+    
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~-------DPs~~~a~~~~A-------~~Yq~~Ge~~~A~e~YrkAlsl----   98 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEH-------DPSYYLAHLVRA-------HYYQKLGENDLADESYRKALSL----   98 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-------CcccHHHHHHHH-------HHHHHcCChhhHHHHHHHHHhc----
Confidence            3677888899999999999888644332       111111111001       1233566665555555544332    


Q ss_pred             CCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHH
Q 016262          265 PMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAV  344 (392)
Q Consensus       265 ~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~  344 (392)
                      .+.+-       ..+||-|.+.-.+|++++|..+|+++++.        +.-    ...+.++.|+|.+-.+.|+...|.
T Consensus        99 ~p~~G-------dVLNNYG~FLC~qg~~~eA~q~F~~Al~~--------P~Y----~~~s~t~eN~G~Cal~~gq~~~A~  159 (250)
T COG3063          99 APNNG-------DVLNNYGAFLCAQGRPEEAMQQFERALAD--------PAY----GEPSDTLENLGLCALKAGQFDQAE  159 (250)
T ss_pred             CCCcc-------chhhhhhHHHHhCCChHHHHHHHHHHHhC--------CCC----CCcchhhhhhHHHHhhcCCchhHH
Confidence            22222       46788888888888888888888877631        110    123667788888888888888888


Q ss_pred             HHHHHHHHHHHH
Q 016262          345 DGFQEAIKRLES  356 (392)
Q Consensus       345 ~~~~~al~ile~  356 (392)
                      .+|++++++..+
T Consensus       160 ~~l~raL~~dp~  171 (250)
T COG3063         160 EYLKRALELDPQ  171 (250)
T ss_pred             HHHHHHHHhCcC
Confidence            888888766544

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=95.65  E-value=0.012  Score=44.83  Aligned_cols=83  Identities=17%  Similarity=0.221  Sum_probs=56.1

Q ss_pred             cCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHH
Q 016262          289 GGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQ  368 (392)
Q Consensus       289 ~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~  368 (392)
                      .|+++.|+.+|++.++....       ..    + ...+-++|.++..+|++++|+..+++ +      ...+.+....-
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~-------~~----~-~~~~~~la~~~~~~~~y~~A~~~~~~-~------~~~~~~~~~~~   62 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPT-------NP----N-SAYLYNLAQCYFQQGKYEEAIELLQK-L------KLDPSNPDIHY   62 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCG-------TH----H-HHHHHHHHHHHHHTTHHHHHHHHHHC-H------THHHCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCC-------Ch----h-HHHHHHHHHHHHHCCCHHHHHHHHHH-h------CCCCCCHHHHH
Confidence            57888888888887765432       00    1 22344589999999999999998888 2      22223334444


Q ss_pred             hhcchhHHHHHHhhhccccchhcC
Q 016262          369 RCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       369 ~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .++.  .+-.|+++.+||+.|+.|
T Consensus        63 l~a~--~~~~l~~y~eAi~~l~~~   84 (84)
T PF12895_consen   63 LLAR--CLLKLGKYEEAIKALEKA   84 (84)
T ss_dssp             HHHH--HHHHTT-HHHHHHHHHHH
T ss_pred             HHHH--HHHHhCCHHHHHHHHhcC
Confidence            5555  788999999999998764

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=95.64  E-value=0.076  Score=52.34  Aligned_cols=99  Identities=9%  Similarity=0.133  Sum_probs=72.7

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhH
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLD  322 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~d  322 (392)
                      ..|++..|+.+++++.+.    .....       ..+.+++.++..+|++++|+..+++++++.       +.       
T Consensus        14 ~~~~~~~Ai~~~~~Al~~----~P~~~-------~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-------P~-------   68 (356)
T PLN03088         14 VDDDFALAVDLYTQAIDL----DPNNA-------ELYADRAQANIKLGNFTEAVADANKAIELD-------PS-------   68 (356)
T ss_pred             HcCCHHHHHHHHHHHHHh----CCCCH-------HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------cC-------
Confidence            677888888888777543    23222       356788999999999999999999988762       21       


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcc
Q 016262          323 VAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       323 la~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~  372 (392)
                      .+..+.++|.++..+|++++|+..|+++++      ..|.+..+...+..
T Consensus        69 ~~~a~~~lg~~~~~lg~~~eA~~~~~~al~------l~P~~~~~~~~l~~  112 (356)
T PLN03088         69 LAKAYLRKGTACMKLEEYQTAKAALEKGAS------LAPGDSRFTKLIKE  112 (356)
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHH------hCCCCHHHHHHHHH
Confidence            245577889999999999999999999884      34454444444433

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.62  E-value=0.11  Score=53.22  Aligned_cols=73  Identities=14%  Similarity=0.116  Sum_probs=56.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC-CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          279 LNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV-PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       279 l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~-~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      +-|..-++...|+|.+|+..+++++.+-++.+.....+ -....+|+.-.-.++.|+..+|+-++|...|...+
T Consensus       178 ~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i  251 (652)
T KOG2376|consen  178 LYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDII  251 (652)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            44555666677999999999999999988876655444 33344777777788999999999999999887754

>PRK04841 transcriptional regulator MalT; Provisional

Probab=95.61  E-value=0.087  Score=58.20  Aligned_cols=137  Identities=15%  Similarity=0.041  Sum_probs=90.7

Q ss_pred             cccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCc
Q 016262          239 DCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPS  318 (392)
Q Consensus       239 ~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~  318 (392)
                      ..+...|++..+..+.+++...   +....   ..........++.++...|++++|...|++++...+.....      
T Consensus       460 ~~~~~~g~~~~A~~~~~~al~~---~~~~~---~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~------  527 (903)
T PRK04841        460 QVAINDGDPEEAERLAELALAE---LPLTW---YYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVY------  527 (903)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhc---CCCcc---HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcch------
Confidence            3444567777777777666543   22211   12233456789999999999999999999999876653211      


Q ss_pred             hhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhc--CCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          319 QVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTL--KPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       319 ~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~--~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                        ...+..+.+++.++...|++..|...+++++.+.+....  .+....+...++.  ++...+++..++.++++
T Consensus       528 --~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~--~~~~~G~~~~A~~~~~~  598 (903)
T PRK04841        528 --HYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQ--LLWEWARLDEAEQCARK  598 (903)
T ss_pred             --HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHH--HHHHhcCHHHHHHHHHH
Confidence              123557788999999999999999999999999887622  2222233333333  44555666666655544

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=95.60  E-value=0.059  Score=57.60  Aligned_cols=92  Identities=14%  Similarity=0.104  Sum_probs=66.3

Q ss_pred             HHHHHHHHHHhcCCHHH----HHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          278 SLNKIGDLKYYGGDLQA----ARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~----A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      ....++.++...|++++    |+..|+++++       ..+.       -+..+..+|.++..+|++++|+..|+++++ 
T Consensus       248 ~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~-------l~P~-------~~~a~~~lg~~l~~~g~~~eA~~~l~~al~-  312 (656)
T PRK15174        248 LRRSLGLAYYQSGRSREAKLQAAEHWRHALQ-------FNSD-------NVRIVTLYADALIRTGQNEKAIPLLQQSLA-  312 (656)
T ss_pred             HHHHHHHHHHHcCCchhhHHHHHHHHHHHHh-------hCCC-------CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-
Confidence            44567777777777765    4455554443       2332       245677889999999999999999998885 


Q ss_pred             HHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          354 LESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       354 le~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                           ..|........++.  ++..++++..++..|++
T Consensus       313 -----l~P~~~~a~~~La~--~l~~~G~~~eA~~~l~~  343 (656)
T PRK15174        313 -----THPDLPYVRAMYAR--ALRQVGQYTAASDEFVQ  343 (656)
T ss_pred             -----hCCCCHHHHHHHHH--HHHHCCCHHHHHHHHHH
Confidence                 46777777777777  77788888888887765

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

Probab=95.54  E-value=0.048  Score=51.51  Aligned_cols=108  Identities=13%  Similarity=0.052  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH-------HHhhcCC--CCCchhhHHHH-----------HHHHHHHHHHh
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRR-------DAVKRHS--NVPSQVLDVAV-----------SLAKVADVDRS  336 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~-------~~~~~~~--~~~~~~~dla~-----------sl~~l~~v~~~  336 (392)
                      ..+..++.++...|+.++|+..|+++|+..-       ..+--..  ........+..           .+..+|.++..
T Consensus       147 ~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~  226 (280)
T PF13429_consen  147 RFWLALAEIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQ  226 (280)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcc
Confidence            4567788999999999999999999997531       1110000  00000001111           12336788888


Q ss_pred             cCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          337 IGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       337 lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +|++++|+..|++++      ..+|.+..++..++.  ++.-.+....|+.++++|
T Consensus       227 lg~~~~Al~~~~~~~------~~~p~d~~~~~~~a~--~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  227 LGRYEEALEYLEKAL------KLNPDDPLWLLAYAD--ALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HT-HHHHHHHHHHHH------HHSTT-HHHHHHHHH--HHT---------------
T ss_pred             ccccccccccccccc------ccccccccccccccc--cccccccccccccccccc
Confidence            899988888888866      667888888877777  899999999999998875

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.46  E-value=0.15  Score=48.22  Aligned_cols=34  Identities=18%  Similarity=0.182  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNV  305 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i  305 (392)
                      ....+.++..||..+..+|++++|+..|.++|++
T Consensus       145 Dp~yskay~RLG~A~~~~gk~~~A~~aykKaLel  178 (304)
T KOG0553|consen  145 DPHYSKAYGRLGLAYLALGKYEEAIEAYKKALEL  178 (304)
T ss_pred             ChHHHHHHHHHHHHHHccCcHHHHHHHHHhhhcc
Confidence            3445567777788888888888888877777654

>PRK11189 lipoprotein NlpI; Provisional

Probab=95.43  E-value=0.056  Score=51.79  Aligned_cols=92  Identities=21%  Similarity=0.229  Sum_probs=59.8

Q ss_pred             ccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCC
Q 016262          236 MLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSN  315 (392)
Q Consensus       236 ~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~  315 (392)
                      .+|..+..+|++..|+..++.+.+.    .+       .-...+.++|.++...|++++|+..|++++++       .+.
T Consensus       103 ~lg~~~~~~g~~~~A~~~~~~Al~l----~P-------~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~-------~P~  164 (296)
T PRK11189        103 YLGIYLTQAGNFDAAYEAFDSVLEL----DP-------TYNYAYLNRGIALYYGGRYELAQDDLLAFYQD-------DPN  164 (296)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh----CC-------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-------CCC
Confidence            3444555666677666666555432    22       12457889999999999999999999998753       333


Q ss_pred             CCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          316 VPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       316 ~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      +.       ...-++ .+....+++++|+..|++++..
T Consensus       165 ~~-------~~~~~~-~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        165 DP-------YRALWL-YLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             CH-------HHHHHH-HHHHccCCHHHHHHHHHHHHhh
Confidence            22       111122 2344568899999999886644

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=95.42  E-value=0.13  Score=44.38  Aligned_cols=62  Identities=6%  Similarity=-0.076  Sum_probs=49.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      .+-.++...+..|++++|...|+-...+-       +       ..+.-.-+||.+...+|++++|+..|..++.+
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-------p-------~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L   98 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIYD-------A-------WSFDYWFRLGECCQAQKHWGEAIYAYGRAAQI   98 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-------c-------ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            46677888889999999999998776541       1       12445567899999999999999999999843

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.21  E-value=0.061  Score=54.76  Aligned_cols=117  Identities=14%  Similarity=0.053  Sum_probs=63.9

Q ss_pred             HHHHHHHHHHhCCC-CchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH-------Hhhc--CCCCCc----
Q 016262          253 YFADSVEFLMKLPM-DDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRD-------AVKR--HSNVPS----  318 (392)
Q Consensus       253 ~~e~~~~~~~~L~~-~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~-------~~~~--~~~~~~----  318 (392)
                      +.+..++...++.. .+.+       ...-||.|++..|++++|++.|+.+|.+.=.       +...  ...+..    
T Consensus       413 i~~~fLeaa~~~~~~~Dpd-------vQ~~LGVLy~ls~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIs  485 (579)
T KOG1125|consen  413 IQELFLEAARQLPTKIDPD-------VQSGLGVLYNLSGEFDRAVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAIS  485 (579)
T ss_pred             HHHHHHHHHHhCCCCCChh-------HHhhhHHHHhcchHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHH
Confidence            33344555555553 2333       3467899999999999999999999975311       0000  000000    


Q ss_pred             -------hhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHh
Q 016262          319 -------QVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKN  381 (392)
Q Consensus       319 -------~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~  381 (392)
                             .+...+.+..|||..+.++|.|++|+.+|-.||.|.++-..+.+...-     +..+|.-|+.
T Consensus       486 AY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~-----se~iw~tLR~  550 (579)
T KOG1125|consen  486 AYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMA-----SENIWQTLRL  550 (579)
T ss_pred             HHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcc-----hHHHHHHHHH
Confidence                   000122233456666777777777777777777666655554443222     3445555553

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.19  E-value=0.054  Score=33.47  Aligned_cols=31  Identities=16%  Similarity=0.217  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 016262          324 AVSLAKVADVDRSIGNEDVAVDGFQEAIKRL  354 (392)
Q Consensus       324 a~sl~~l~~v~~~lg~~~~A~~~~~~al~il  354 (392)
                      |..+.++|.++..+|++++|+..|++++++-
T Consensus         1 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    1 AEAYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            4567889999999999999999999999863

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 ....

>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.11  E-value=0.0034  Score=43.18  Aligned_cols=42  Identities=38%  Similarity=0.740  Sum_probs=34.3

Q ss_pred             eeccccccccccCceecccCcH-hHHHhHHhcC-----CCCCCCcCCcc
Q 016262           90 LSCMICQALLFECSKCTPCSHV-YCKACISRFK-----DCPLCGADIEK  132 (392)
Q Consensus        90 ~~C~iC~~~~~~~p~~~~C~h~-fC~~Ci~~~~-----~CP~C~~~~~~  132 (392)
                      -.|.||.+-.. +.+...|||. +|..|-.+.|     .||.||.++..
T Consensus         8 dECTICye~pv-dsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d   55 (62)
T KOG4172|consen    8 DECTICYEHPV-DSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD   55 (62)
T ss_pred             cceeeeccCcc-hHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence            57999999988 8999999994 5899976654     39999987654

>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=95.10  E-value=0.037  Score=40.83  Aligned_cols=86  Identities=19%  Similarity=0.345  Sum_probs=60.0

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhH
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLD  322 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~d  322 (392)
                      ..|++..++.+++...+.    .....       .....++.++...+++++|+..|++++.+.       +..      
T Consensus        12 ~~~~~~~A~~~~~~~~~~----~~~~~-------~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-------~~~------   67 (100)
T cd00189          12 KLGDYDEALEYYEKALEL----DPDNA-------DAYYNLAAAYYKLGKYEEALEDYEKALELD-------PDN------   67 (100)
T ss_pred             HHhcHHHHHHHHHHHHhc----CCccH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-------Ccc------
Confidence            456667777776655332    22111       456788888888899999999888877642       111      


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          323 VAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       323 la~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                       ...+..++.++..+|++++|...+++++.+
T Consensus        68 -~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          68 -AKAYYNLGLAYYKLGKYEEALEAYEKALEL   97 (100)
T ss_pred             -hhHHHHHHHHHHHHHhHHHHHHHHHHHHcc
Confidence             145667788899999999999999887753

>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger

Probab=95.10  E-value=0.018  Score=43.96  Aligned_cols=42  Identities=26%  Similarity=0.629  Sum_probs=29.7

Q ss_pred             eeccccccccccCc-eecccCcHhHHHhHHhcC-------CCCCCCcCCc
Q 016262           90 LSCMICQALLFECS-KCTPCSHVYCKACISRFK-------DCPLCGADIE  131 (392)
Q Consensus        90 ~~C~iC~~~~~~~p-~~~~C~h~fC~~Ci~~~~-------~CP~C~~~~~  131 (392)
                      -.||.|.---.+.| +.-.|+|.|-..||.+|.       .||+||+...
T Consensus        33 g~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   33 GCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             cCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            34666665433334 344699999999999993       3999998653

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=95.08  E-value=0.13  Score=42.52  Aligned_cols=92  Identities=13%  Similarity=0.055  Sum_probs=65.5

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV  316 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~  316 (392)
                      ++......|++.+|...++....    +.+...       .....++.++...|++++|+..|++++++       .+. 
T Consensus        23 ~a~~~~~~~~~~~A~~~~~~~~~----~~p~~~-------~~~~~la~~~~~~~~~~~A~~~~~~~~~~-------~p~-   83 (135)
T TIGR02552        23 LAYNLYQQGRYDEALKLFQLLAA----YDPYNS-------RYWLGLAACCQMLKEYEEAIDAYALAAAL-------DPD-   83 (135)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHH----hCCCcH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHhc-------CCC-
Confidence            33444467777777777655433    233222       45678888998889999999999887764       222 


Q ss_pred             CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          317 PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       317 ~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                            ....+.++|.++..+|++++|+..|++++++
T Consensus        84 ------~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        84 ------DPRPYFHAAECLLALGEPESALKALDLAIEI  114 (135)
T ss_pred             ------ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                  1445677899999999999999999888754

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=95.05  E-value=0.0095  Score=41.37  Aligned_cols=42  Identities=31%  Similarity=0.912  Sum_probs=33.3

Q ss_pred             eeccccccccccCceecccCcHhHHHhHH--hcCCCCCCCcCCcc
Q 016262           90 LSCMICQALLFECSKCTPCSHVYCKACIS--RFKDCPLCGADIEK  132 (392)
Q Consensus        90 ~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~--~~~~CP~C~~~~~~  132 (392)
                      ..|-.|...-. ..++++|||..|..|..  ++..||.|..++..
T Consensus         8 ~~~~~~~~~~~-~~~~~pCgH~I~~~~f~~~rYngCPfC~~~~~~   51 (55)
T PF14447_consen    8 QPCVFCGFVGT-KGTVLPCGHLICDNCFPGERYNGCPFCGTPFEF   51 (55)
T ss_pred             eeEEEcccccc-ccccccccceeeccccChhhccCCCCCCCcccC
Confidence            45667777645 78999999999999975  45789999987653

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=94.96  E-value=0.067  Score=57.23  Aligned_cols=95  Identities=2%  Similarity=-0.188  Sum_probs=79.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE  355 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile  355 (392)
                      ......|+.+...+|.+++|...++.+++.       .+.+       +..+.+++.+..+++++++|+..+++++    
T Consensus        86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~~-------~Pd~-------~~a~~~~a~~L~~~~~~eeA~~~~~~~l----  147 (694)
T PRK15179         86 ELFQVLVARALEAAHRSDEGLAVWRGIHQR-------FPDS-------SEAFILMLRGVKRQQGIEAGRAEIELYF----  147 (694)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHhh-------CCCc-------HHHHHHHHHHHHHhccHHHHHHHHHHHh----
Confidence            467789999999999999999888876654       4443       4455667788899999999998888766    


Q ss_pred             HhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          356 SLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       356 ~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                        ...|+++..+..++.  .+..+++|.+|+.+|+++
T Consensus       148 --~~~p~~~~~~~~~a~--~l~~~g~~~~A~~~y~~~  180 (694)
T PRK15179        148 --SGGSSSAREILLEAK--SWDEIGQSEQADACFERL  180 (694)
T ss_pred             --hcCCCCHHHHHHHHH--HHHHhcchHHHHHHHHHH
Confidence              778999999999999  999999999999999874

>PRK12370 invasion protein regulator; Provisional

Probab=94.95  E-value=0.073  Score=55.69  Aligned_cols=81  Identities=12%  Similarity=0.058  Sum_probs=56.5

Q ss_pred             CCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHh
Q 016262          290 GDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQR  369 (392)
Q Consensus       290 g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~  369 (392)
                      +++++|+..+++++++       ++.+       +..+..+|.++..+|++++|+..|+++++      ..|..+.....
T Consensus       318 ~~~~~A~~~~~~Al~l-------dP~~-------~~a~~~lg~~~~~~g~~~~A~~~~~~Al~------l~P~~~~a~~~  377 (553)
T PRK12370        318 NAMIKAKEHAIKATEL-------DHNN-------PQALGLLGLINTIHSEYIVGSLLFKQANL------LSPISADIKYY  377 (553)
T ss_pred             hHHHHHHHHHHHHHhc-------CCCC-------HHHHHHHHHHHHHccCHHHHHHHHHHHHH------hCCCCHHHHHH
Confidence            4466666666665543       4442       44566788999999999999999998874      46666666666


Q ss_pred             hcchhHHHHHHhhhccccchhcC
Q 016262          370 CWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       370 ~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ++.  ++..++++.+|+..|++|
T Consensus       378 lg~--~l~~~G~~~eAi~~~~~A  398 (553)
T PRK12370        378 YGW--NLFMAGQLEEALQTINEC  398 (553)
T ss_pred             HHH--HHHHCCCHHHHHHHHHHH
Confidence            666  666777777777776653

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=94.94  E-value=0.15  Score=46.55  Aligned_cols=130  Identities=15%  Similarity=0.103  Sum_probs=74.8

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV  316 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~  316 (392)
                      .+..+...|++..|+..+++.....    +..    .........++.++...|++++|+..|++.++..       +.+
T Consensus        39 ~g~~~~~~~~~~~A~~~~~~~~~~~----p~~----~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~-------p~~  103 (235)
T TIGR03302        39 EAKEALDSGDYTEAIKYFEALESRY----PFS----PYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH-------PNH  103 (235)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC----CCc----hhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-------cCC
Confidence            3444446777777777776553321    111    1223466888999999999999999999887532       222


Q ss_pred             CchhhHHHHHHHHHHHHHHhc--------CCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhh---------------cch
Q 016262          317 PSQVLDVAVSLAKVADVDRSI--------GNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRC---------------WNS  373 (392)
Q Consensus       317 ~~~~~dla~sl~~l~~v~~~l--------g~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~---------------~~~  373 (392)
                      .    ++...+..+|.++..+        |++++|+..|++++.      .+|........+               ...
T Consensus       104 ~----~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~------~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a  173 (235)
T TIGR03302       104 P----DADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIR------RYPNSEYAPDAKKRMDYLRNRLAGKELYVA  173 (235)
T ss_pred             C----chHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHH------HCCCChhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2    2233455556555544        666677776666653      333332111110               111


Q ss_pred             hHHHHHHhhhccccchhc
Q 016262          374 STTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       374 ~~~~~l~~~~~~l~~~~~  391 (392)
                      +.+...+++..|+.+|+.
T Consensus       174 ~~~~~~g~~~~A~~~~~~  191 (235)
T TIGR03302       174 RFYLKRGAYVAAINRFET  191 (235)
T ss_pred             HHHHHcCChHHHHHHHHH
Confidence            245566777777777764

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).

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.89  E-value=0.23  Score=48.21  Aligned_cols=75  Identities=16%  Similarity=0.134  Sum_probs=58.8

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHH-----HHHHHHH
Q 016262          275 LSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDV-----AVDGFQE  349 (392)
Q Consensus       275 l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~-----A~~~~~~  349 (392)
                      -+..+.-+++||...|+++.|-..|++++.++..+.++..+        ...|..++..+..+.-..+     |+++-++
T Consensus       245 ~arc~~~~aDIyR~~gd~e~af~rYe~Am~~m~~~gdrmgq--------v~al~g~Akc~~~~r~~~k~~~Crale~n~r  316 (518)
T KOG1941|consen  245 QARCLLCFADIYRSRGDLERAFRRYEQAMGTMASLGDRMGQ--------VEALDGAAKCLETLRLQNKICNCRALEFNTR  316 (518)
T ss_pred             HHHHHHHHHHHHHhcccHhHHHHHHHHHHHHHhhhhhhHHH--------HHHHHHHHHHHHHHHHhhcccccchhHHHHH
Confidence            34566778999999999999999999999999998777665        4445555555555544444     9999999


Q ss_pred             HHHHHHHh
Q 016262          350 AIKRLESL  357 (392)
Q Consensus       350 al~ile~l  357 (392)
                      .+++-.++
T Consensus       317 ~levA~~I  324 (518)
T KOG1941|consen  317 LLEVASSI  324 (518)
T ss_pred             HHHHHHHh
Confidence            99988887

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.88  E-value=0.025  Score=57.44  Aligned_cols=95  Identities=19%  Similarity=0.233  Sum_probs=70.6

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV  316 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~  316 (392)
                      +|.++...|++.++++.|+.++...    +.+       ...+|+||.....-.+.++|++.|.++|+++       +.=
T Consensus       436 LGVLy~ls~efdraiDcf~~AL~v~----Pnd-------~~lWNRLGAtLAN~~~s~EAIsAY~rALqLq-------P~y  497 (579)
T KOG1125|consen  436 LGVLYNLSGEFDRAVDCFEAALQVK----PND-------YLLWNRLGATLANGNRSEEAISAYNRALQLQ-------PGY  497 (579)
T ss_pred             hHHHHhcchHHHHHHHHHHHHHhcC----Cch-------HHHHHHhhHHhcCCcccHHHHHHHHHHHhcC-------CCe
Confidence            3446667778889999888765432    212       2468999999988899999999999999864       222


Q ss_pred             CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 016262          317 PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQE  349 (392)
Q Consensus       317 ~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~  349 (392)
                      +-..+.++.+--|+|.-....+++=.|+..-+.
T Consensus       498 VR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~k  530 (579)
T KOG1125|consen  498 VRVRYNLGISCMNLGAYKEAVKHLLEALSMQRK  530 (579)
T ss_pred             eeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhc
Confidence            223347888889999888888888888887665

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=94.86  E-value=0.28  Score=39.01  Aligned_cols=92  Identities=18%  Similarity=0.240  Sum_probs=64.5

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhH
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLD  322 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~d  322 (392)
                      ..|++.+|+.+++......    +..    .........++.++...|+++.|+.+|++.+..       .+.+.    .
T Consensus        14 ~~~~~~~A~~~~~~~~~~~----~~~----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-------~p~~~----~   74 (119)
T TIGR02795        14 KAGDYADAIQAFQAFLKKY----PKS----TYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKK-------YPKSP----K   74 (119)
T ss_pred             HcCCHHHHHHHHHHHHHHC----CCc----cccHHHHHHHHHHHHhhccHHHHHHHHHHHHHH-------CCCCC----c
Confidence            5677777887776664321    111    112345677999999999999999999987743       22211    2


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          323 VAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       323 la~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      ...++..+|.++..+|++++|+..|+++++.
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        75 APDALLKLGMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             ccHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            2456788899999999999999999887754

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.

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=94.79  E-value=0.29  Score=46.13  Aligned_cols=66  Identities=23%  Similarity=0.324  Sum_probs=52.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      .+.-++|.+++..|++++|+..|++.++.       .+.+.    .....+-++|.++..+|+.++|+..|++.++.
T Consensus       181 ~A~y~LG~~y~~~g~~~~A~~~f~~vv~~-------yP~s~----~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        181 NANYWLGQLNYNKGKKDDAAYYFASVVKN-------YPKSP----KAADAMFKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH-------CCCCc----chhHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            46789999999999999999998876643       23322    23566788899999999999999999887643

>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]

Probab=94.72  E-value=0.014  Score=56.42  Aligned_cols=42  Identities=31%  Similarity=0.847  Sum_probs=36.7

Q ss_pred             eeccccccccccCceecccCcHhHHHhHHhcC------CCCCCCcCCcc
Q 016262           90 LSCMICQALLFECSKCTPCSHVYCKACISRFK------DCPLCGADIEK  132 (392)
Q Consensus        90 ~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~------~CP~C~~~~~~  132 (392)
                      -.|.||-+-=. +..+-||||..|..|+..|.      .||.||..+..
T Consensus       370 eLCKICaendK-dvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  370 ELCKICAENDK-DVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             HHHHHhhccCC-CcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            46999999855 89999999999999999994      39999998876

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=94.71  E-value=0.027  Score=40.48  Aligned_cols=55  Identities=18%  Similarity=0.137  Sum_probs=46.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          330 VADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       330 l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +|.++...|++++|+..|++++      ...|.+......++.  ++..++++.+++.+|+++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l------~~~P~~~~a~~~lg~--~~~~~g~~~~A~~~~~~a   57 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQAL------KQDPDNPEAWYLLGR--ILYQQGRYDEALAYYERA   57 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHH------CCSTTHHHHHHHHHH--HHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH------HHCCCCHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            5677888899999888888876      777999999999999  999999999999999863

>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.68  E-value=0.16  Score=48.60  Aligned_cols=57  Identities=23%  Similarity=0.627  Sum_probs=44.6

Q ss_pred             eecccccccccc-----CceecccCcHhHHHhHHhc-----CCCCCCCcCCcc-------cchhhHHHHHHHHH
Q 016262           90 LSCMICQALLFE-----CSKCTPCSHVYCKACISRF-----KDCPLCGADIEK-------IEADTTLQDVVDRF  146 (392)
Q Consensus        90 ~~C~iC~~~~~~-----~p~~~~C~h~fC~~Ci~~~-----~~CP~C~~~~~~-------~~~n~~l~~~~~~~  146 (392)
                      +.|-||-+.+..     .|+.+.|||+||..|+...     +.||.||.+...       +..|+.+...+...
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~~   77 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNFALLQAIEHM   77 (296)
T ss_pred             CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhHHHHHHHHHH
Confidence            567788776553     4899999999999999876     359999998432       77788887777766

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=94.65  E-value=0.14  Score=52.89  Aligned_cols=90  Identities=22%  Similarity=0.175  Sum_probs=58.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      +.+--+|.++.++|+.++|+.+|++|+.+       ++.++-..       -+.+.++..++++.+|+.       .||+
T Consensus       524 vi~~~~g~~~~~~k~~d~AL~~~~~A~~l-------d~kn~l~~-------~~~~~il~~~~~~~eal~-------~LEe  582 (638)
T KOG1126|consen  524 VILCHIGRIQHQLKRKDKALQLYEKAIHL-------DPKNPLCK-------YHRASILFSLGRYVEALQ-------ELEE  582 (638)
T ss_pred             hHHhhhhHHHHHhhhhhHHHHHHHHHHhc-------CCCCchhH-------HHHHHHHHhhcchHHHHH-------HHHH
Confidence            34455677787777777777777776543       33333222       234566777777776665       4555


Q ss_pred             h-hcCCCchhHHHhhcchhHHHHHHhhhccccch
Q 016262          357 L-TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKF  389 (392)
Q Consensus       357 l-~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~  389 (392)
                      | ..-|.++...-+++.  ++..+++...||.-|
T Consensus       583 Lk~~vP~es~v~~llgk--i~k~~~~~~~Al~~f  614 (638)
T KOG1126|consen  583 LKELVPQESSVFALLGK--IYKRLGNTDLALLHF  614 (638)
T ss_pred             HHHhCcchHHHHHHHHH--HHHHHccchHHHHhh
Confidence            5 667888888878888  777888777776544

>PF12862 Apc5: Anaphase-promoting complex subunit 5

Probab=94.37  E-value=0.29  Score=38.29  Aligned_cols=70  Identities=20%  Similarity=0.245  Sum_probs=53.5

Q ss_pred             hcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCC
Q 016262          288 YGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPE  362 (392)
Q Consensus       288 ~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~  362 (392)
                      ..|++.+|++.+.+..+..........     ...+...+-+++.+...+|+.++|+..+++++.+-++..+...
T Consensus        10 ~~~dy~~A~d~L~~~fD~~~~~~~~~~-----~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~Are~~D~~~   79 (94)
T PF12862_consen   10 RSGDYSEALDALHRYFDYAKQSNNSSS-----NSGLAYALLNLAELHRRFGHYEEALQALEEAIRLARENGDRRC   79 (94)
T ss_pred             HcCCHHHHHHHHHHHHHHHhhcccchh-----hHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHCCHHH
Confidence            358899999988888877655332221     2245666778999999999999999999999999999855433

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=94.37  E-value=0.18  Score=45.34  Aligned_cols=97  Identities=16%  Similarity=0.215  Sum_probs=66.9

Q ss_pred             hhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHH-HHhcCC--HHHHHHHHHHHHHHHHH
Q 016262          232 AVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDL-KYYGGD--LQAARSYYVRSLNVRRD  308 (392)
Q Consensus       232 ~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l-~~~~g~--l~~A~~~~e~aL~i~~~  308 (392)
                      +.+..+|..+..+|++..|+..++.+..    +.+...+       .+..++.+ +...|+  .++|+..+++++     
T Consensus        74 ~~w~~Lg~~~~~~g~~~~A~~a~~~Al~----l~P~~~~-------~~~~lA~aL~~~~g~~~~~~A~~~l~~al-----  137 (198)
T PRK10370         74 EQWALLGEYYLWRNDYDNALLAYRQALQ----LRGENAE-------LYAALATVLYYQAGQHMTPQTREMIDKAL-----  137 (198)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHH----hCCCCHH-------HHHHHHHHHHHhcCCCCcHHHHHHHHHHH-----
Confidence            4455566677688899999888876643    4444443       44566664 455565  366666666555     


Q ss_pred             HhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          309 AVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       309 ~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                        ..++.+       ...+..+|.++..+|++++|+.+|++++++
T Consensus       138 --~~dP~~-------~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        138 --ALDANE-------VTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             --HhCCCC-------hhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence              445543       456788999999999999999999998744

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=94.32  E-value=0.12  Score=31.81  Aligned_cols=30  Identities=13%  Similarity=0.282  Sum_probs=27.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 016262          325 VSLAKVADVDRSIGNEDVAVDGFQEAIKRL  354 (392)
Q Consensus       325 ~sl~~l~~v~~~lg~~~~A~~~~~~al~il  354 (392)
                      ..+..+|.++..+|++++|+.+|++++++-
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~~   31 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALELN   31 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            456788999999999999999999999874

...

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=94.19  E-value=0.16  Score=42.98  Aligned_cols=95  Identities=14%  Similarity=0.111  Sum_probs=65.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      ..-.++.++...|++++|+..|++.+...       +..  ....+  ..-+++.++..+|++++|+..+++       +
T Consensus        50 A~l~lA~~~~~~g~~~~A~~~l~~~~~~~-------~d~--~l~~~--a~l~LA~~~~~~~~~d~Al~~L~~-------~  111 (145)
T PF09976_consen   50 AALQLAKAAYEQGDYDEAKAALEKALANA-------PDP--ELKPL--ARLRLARILLQQGQYDEALATLQQ-------I  111 (145)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhC-------CCH--HHHHH--HHHHHHHHHHHcCCHHHHHHHHHh-------c
Confidence            44557888888999999999999877532       110  11122  234678899999999988887644       3


Q ss_pred             hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          358 TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       358 ~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ...+-.+.....++.  ++-..+++.+|+..|++|
T Consensus       112 ~~~~~~~~~~~~~Gd--i~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  112 PDEAFKALAAELLGD--IYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             cCcchHHHHHHHHHH--HHHHCCCHHHHHHHHHHh
Confidence            333334444555555  888899999999999876

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.17  E-value=0.14  Score=31.37  Aligned_cols=29  Identities=17%  Similarity=0.263  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          325 VSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       325 ~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      ..+-.+|.++..+|++++|+..|++++++
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            45678999999999999999999999976

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=94.13  E-value=0.41  Score=42.88  Aligned_cols=70  Identities=20%  Similarity=0.228  Sum_probs=47.8

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          273 HTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       273 ~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      ..-+..++.-|+-.+.-|+|++|.+.|..+|++.-..-..         .-+..+.|-|.....|+.++.|+..-.+||
T Consensus        92 ~~kad~lK~EGN~~F~ngdyeeA~skY~~Ale~cp~~~~e---------~rsIly~Nraaa~iKl~k~e~aI~dcsKai  161 (271)
T KOG4234|consen   92 IEKADSLKKEGNELFKNGDYEEANSKYQEALESCPSTSTE---------ERSILYSNRAAALIKLRKWESAIEDCSKAI  161 (271)
T ss_pred             HHHHHHHHHHHHHhhhcccHHHHHHHHHHHHHhCccccHH---------HHHHHHhhhHHHHHHhhhHHHHHHHHHhhH
Confidence            4556678888999999999999999999999875432211         113345556666666666666666555555

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=94.11  E-value=0.59  Score=35.35  Aligned_cols=83  Identities=16%  Similarity=0.235  Sum_probs=54.5

Q ss_pred             ccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHH
Q 016262          244 MGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDV  323 (392)
Q Consensus       244 ~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dl  323 (392)
                      .|++..|+.+++...+....    .    . -...+-.++..+...|++++|+..+++ +.+...             . 
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~----~----~-~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-------------~-   57 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPT----N----P-NSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-------------N-   57 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCG----T----H-HHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-------------H-
T ss_pred             CccHHHHHHHHHHHHHHCCC----C----h-hHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-------------C-
Confidence            45667788887766544332    1    0 122455589999999999999999987 222111             1 


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 016262          324 AVSLAKVADVDRSIGNEDVAVDGFQEA  350 (392)
Q Consensus       324 a~sl~~l~~v~~~lg~~~~A~~~~~~a  350 (392)
                      ....--+|.++..+|++++|+..|+++
T Consensus        58 ~~~~~l~a~~~~~l~~y~eAi~~l~~~   84 (84)
T PF12895_consen   58 PDIHYLLARCLLKLGKYEEAIKALEKA   84 (84)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHhcC
Confidence            112224489999999999999999875

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=94.07  E-value=0.31  Score=45.89  Aligned_cols=95  Identities=9%  Similarity=0.012  Sum_probs=65.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcC
Q 016262          281 KIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLK  360 (392)
Q Consensus       281 ~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~  360 (392)
                      ..-.+....|++++|+..|++.++       ..+...    .....+-|+|.++..+|++++|+..|+..++..   ..+
T Consensus       148 ~A~~l~~~~~~y~~Ai~af~~fl~-------~yP~s~----~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~y---P~s  213 (263)
T PRK10803        148 AAIALVQDKSRQDDAIVAFQNFVK-------KYPDST----YQPNANYWLGQLNYNKGKKDDAAYYFASVVKNY---PKS  213 (263)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH-------HCcCCc----chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---CCC
Confidence            333444445788888877766554       344432    234567899999999999999999988876433   344


Q ss_pred             CCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          361 PEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       361 ~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      +.....+..++.  .+..++++.+++.+|++
T Consensus       214 ~~~~dAl~klg~--~~~~~g~~~~A~~~~~~  242 (263)
T PRK10803        214 PKAADAMFKVGV--IMQDKGDTAKAKAVYQQ  242 (263)
T ss_pred             cchhHHHHHHHH--HHHHcCCHHHHHHHHHH
Confidence            555556666666  67778888888888864

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.97  E-value=0.16  Score=31.22  Aligned_cols=30  Identities=27%  Similarity=0.507  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVR  306 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~  306 (392)
                      ..+.++|.++..+|++++|+..|+++|++.
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            467899999999999999999999999863

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 ....

>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.76  E-value=0.037  Score=53.82  Aligned_cols=50  Identities=28%  Similarity=0.693  Sum_probs=37.5

Q ss_pred             eecccccccccc----CceecccCcHhHHHhHHhc------CCCCCCCcCCcc--cchhhHH
Q 016262           90 LSCMICQALLFE----CSKCTPCSHVYCKACISRF------KDCPLCGADIEK--IEADTTL  139 (392)
Q Consensus        90 ~~C~iC~~~~~~----~p~~~~C~h~fC~~Ci~~~------~~CP~C~~~~~~--~~~n~~l  139 (392)
                      ..||||++-+..    ..+.+.|||.|-..||++|      +.||.|......  +.+...+
T Consensus         5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e~al   66 (463)
T KOG1645|consen    5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPEYAL   66 (463)
T ss_pred             ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHHHHH
Confidence            579999997663    2567889999999999999      359999865544  4444333

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=93.70  E-value=0.48  Score=40.04  Aligned_cols=89  Identities=18%  Similarity=0.213  Sum_probs=59.6

Q ss_pred             ccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCch
Q 016262          240 CCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQ  319 (392)
Q Consensus       240 ~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~  319 (392)
                      .....|++.+|...++......     ....+.   ....-.|+.++...|++++|+..+++..           ...  
T Consensus        57 ~~~~~g~~~~A~~~l~~~~~~~-----~d~~l~---~~a~l~LA~~~~~~~~~d~Al~~L~~~~-----------~~~--  115 (145)
T PF09976_consen   57 AAYEQGDYDEAKAALEKALANA-----PDPELK---PLARLRLARILLQQGQYDEALATLQQIP-----------DEA--  115 (145)
T ss_pred             HHHHCCCHHHHHHHHHHHHhhC-----CCHHHH---HHHHHHHHHHHHHcCCHHHHHHHHHhcc-----------Ccc--
Confidence            3346778888887777654421     112222   2345578899999999999998875410           101  


Q ss_pred             hhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          320 VLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       320 ~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                       + -......+|+++..+|+.++|+..|++|+
T Consensus       116 -~-~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen  116 -F-KALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             -h-HHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence             1 13344568999999999999999999875

>PF10952 DUF2753: Protein of unknown function (DUF2753); InterPro: IPR020206 This entry represents a group of uncharacterised proteins

Probab=93.68  E-value=1.8  Score=35.67  Aligned_cols=105  Identities=17%  Similarity=0.163  Sum_probs=70.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC-CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          279 LNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV-PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       279 l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~-~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      ...+++...+.+++-.++-.|+++|.+.++........ ...++--+.+--||+..|+.+|+-+-.+.|++-|-+....|
T Consensus         4 htllAd~a~~~~~~l~si~hYQqAls~se~~~~~~~~el~dll~i~VisCHNLA~FWR~~gd~~yELkYLqlASE~VltL   83 (140)
T PF10952_consen    4 HTLLADQAFKEADPLRSILHYQQALSLSEEIDESNEIELEDLLTISVISCHNLADFWRSQGDSDYELKYLQLASEKVLTL   83 (140)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcccccccHHHHHHHHHHHHhhHHHHHHHcCChHHHHHHHHHHHHHHHHh
Confidence            34567777778889999999999999998874333222 22223334566799999999999999999999888877777


Q ss_pred             -hc--CCCchhHHHhhc--chhHHHHHHhhh
Q 016262          358 -TL--KPEEAGLEQRCW--NSSTTNFQKNHL  383 (392)
Q Consensus       358 -~~--~~~~a~l~~~~~--~~~~~~~l~~~~  383 (392)
                       ..  +++-..+-..++  ...+++|++++.
T Consensus        84 iPQCp~~~C~afi~sLGCCk~ALl~F~KRHP  114 (140)
T PF10952_consen   84 IPQCPNTECEAFIDSLGCCKKALLDFMKRHP  114 (140)
T ss_pred             ccCCCCcchHHHHHhhhccHHHHHHHHHhCC
Confidence             11  122222222332  123677777653

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=93.56  E-value=0.26  Score=35.95  Aligned_cols=56  Identities=14%  Similarity=0.167  Sum_probs=44.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          283 GDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       283 g~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      ..++...+++++|+..+++++.+       .+.+       ...+...|.++..+|++++|+..|+++++
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~-------~p~~-------~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALEL-------DPDD-------PELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHh-------Cccc-------chhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            45677889999999998888766       3332       33455678999999999999999999884

>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.49  E-value=0.068  Score=49.26  Aligned_cols=45  Identities=22%  Similarity=0.614  Sum_probs=35.3

Q ss_pred             Cceecccccccccc---------CceecccCcHhHHHhHHhcC------CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFE---------CSKCTPCSHVYCKACISRFK------DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~---------~p~~~~C~h~fC~~Ci~~~~------~CP~C~~~~~~  132 (392)
                      ++..|.||-.-+..         ....+.|+|+|=..||..|.      .||.|+..+..
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence            35678888876542         34578999999999999993      49999987764

>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.43  E-value=0.042  Score=52.38  Aligned_cols=51  Identities=27%  Similarity=0.567  Sum_probs=39.8

Q ss_pred             CCCCCCccCceeccccccccccCceecccCcHhHHHhHHhc----CCCCCCCcCCc
Q 016262           80 YDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIE  131 (392)
Q Consensus        80 ~~~~~~~~~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~----~~CP~C~~~~~  131 (392)
                      ++.+-...++..||||-.-.. ..+..||+|.-|+.||.++    +.|=.|+..+.
T Consensus       413 ~~~~lp~sEd~lCpICyA~pi-~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~  467 (489)
T KOG4692|consen  413 FNKDLPDSEDNLCPICYAGPI-NAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI  467 (489)
T ss_pred             hcCCCCCcccccCcceecccc-hhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence            333444557889999999877 8899999999999999987    34777776544

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=93.35  E-value=0.68  Score=46.38  Aligned_cols=121  Identities=14%  Similarity=0.140  Sum_probs=78.5

Q ss_pred             cchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH----------------
Q 016262          245 GDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRD----------------  308 (392)
Q Consensus       245 gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~----------------  308 (392)
                      ++|.+|+.+|+.++..           .+....++.-||-=+..+.+-.+|+..|..|++|-..                
T Consensus       344 ~eHEKAv~YFkRALkL-----------Np~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRAWYGLGQaYeim~  412 (559)
T KOG1155|consen  344 SEHEKAVMYFKRALKL-----------NPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPRDYRAWYGLGQAYEIMK  412 (559)
T ss_pred             HhHHHHHHHHHHHHhc-----------CcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCchhHHHHhhhhHHHHHhc
Confidence            4456677777665432           3334457788888888888999999999999986321                


Q ss_pred             -----------HhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHH
Q 016262          309 -----------AVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTN  377 (392)
Q Consensus       309 -----------~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~  377 (392)
                                 +..-.+..       ...+.-||+.|.++++.++|+.-|..|+..      ..-+...+..++.  ++.
T Consensus       413 Mh~YaLyYfqkA~~~kPnD-------sRlw~aLG~CY~kl~~~~eAiKCykrai~~------~dte~~~l~~Lak--Lye  477 (559)
T KOG1155|consen  413 MHFYALYYFQKALELKPND-------SRLWVALGECYEKLNRLEEAIKCYKRAILL------GDTEGSALVRLAK--LYE  477 (559)
T ss_pred             chHHHHHHHHHHHhcCCCc-------hHHHHHHHHHHHHhccHHHHHHHHHHHHhc------cccchHHHHHHHH--HHH
Confidence                       11112221       223445788888899988888888887732      1123345556666  777


Q ss_pred             HHHhhhccccchhc
Q 016262          378 FQKNHLNQLPKFRS  391 (392)
Q Consensus       378 ~l~~~~~~l~~~~~  391 (392)
                      .|+++.+|-.||.+
T Consensus       478 ~l~d~~eAa~~yek  491 (559)
T KOG1155|consen  478 ELKDLNEAAQYYEK  491 (559)
T ss_pred             HHHhHHHHHHHHHH
Confidence            77777777666653

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.33  E-value=1.2  Score=41.01  Aligned_cols=18  Identities=17%  Similarity=0.316  Sum_probs=9.9

Q ss_pred             HHHHHHHHHHHHHHHHHh
Q 016262          340 EDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       340 ~~~A~~~~~~al~ile~l  357 (392)
                      +..-++.|.++++|++++
T Consensus       163 yaa~leqY~~Ai~iyeqv  180 (288)
T KOG1586|consen  163 YAAQLEQYSKAIDIYEQV  180 (288)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            444455555555555555

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

Probab=93.31  E-value=0.84  Score=49.45  Aligned_cols=101  Identities=16%  Similarity=0.148  Sum_probs=68.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      +.-.++.++. +++.-.++.+|..++.+.......-+         ...|+|+|.....+|++.+|...|.+|+..+...
T Consensus       416 a~l~laql~e-~~d~~~sL~~~~~A~d~L~~~~~~ip---------~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~  485 (1018)
T KOG2002|consen  416 AWLELAQLLE-QTDPWASLDAYGNALDILESKGKQIP---------PEVLNNVASLHFRLGNIEKALEHFKSALGKLLEV  485 (1018)
T ss_pred             HHHHHHHHHH-hcChHHHHHHHHHHHHHHHHcCCCCC---------HHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhh
Confidence            3444455543 35566669999999988877554422         5679999999999999999999999999997765


Q ss_pred             -hcCC---CchhHHHhhcchhHHHHHHhhhccccchh
Q 016262          358 -TLKP---EEAGLEQRCWNSSTTNFQKNHLNQLPKFR  390 (392)
Q Consensus       358 -~~~~---~~a~l~~~~~~~~~~~~l~~~~~~l~~~~  390 (392)
                       +.+.   -+-.+..+++.  ++.-++++..|-.+|.
T Consensus       486 ~n~de~~~~~lt~~YNlar--l~E~l~~~~~A~e~Yk  520 (1018)
T KOG2002|consen  486 ANKDEGKSTNLTLKYNLAR--LLEELHDTEVAEEMYK  520 (1018)
T ss_pred             cCccccccchhHHHHHHHH--HHHhhhhhhHHHHHHH
Confidence             2211   12223555555  5666655555555553

>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.24  E-value=0.013  Score=54.54  Aligned_cols=41  Identities=32%  Similarity=0.704  Sum_probs=35.7

Q ss_pred             ceeccccccccccCceecccCc-HhHHHhHHhcCCCCCCCcCC
Q 016262           89 PLSCMICQALLFECSKCTPCSH-VYCKACISRFKDCPLCGADI  130 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~~C~h-~fC~~Ci~~~~~CP~C~~~~  130 (392)
                      ...|.||.+..+ +=+.++||| .-|..|=.++..||.||+.+
T Consensus       300 ~~LC~ICmDaP~-DCvfLeCGHmVtCt~CGkrm~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAPR-DCVFLECGHMVTCTKCGKRMNECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCCc-ceEEeecCcEEeehhhccccccCchHHHHH
Confidence            467999999988 889999999 45999988888999999744

>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=93.22  E-value=0.059  Score=49.16  Aligned_cols=58  Identities=26%  Similarity=0.623  Sum_probs=40.9

Q ss_pred             eeccccccccccC-ceecccCcHhHHHhHHhc-C-CCCCCCcCCcccchhhHHHHHHHHHH
Q 016262           90 LSCMICQALLFEC-SKCTPCSHVYCKACISRF-K-DCPLCGADIEKIEADTTLQDVVDRFI  147 (392)
Q Consensus        90 ~~C~iC~~~~~~~-p~~~~C~h~fC~~Ci~~~-~-~CP~C~~~~~~~~~n~~l~~~~~~~~  147 (392)
                      ..|..|......+ =+++.|+|.||..|.... . .||+|+.++..+..|..|..-+..++
T Consensus         4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~~C~lCkk~ir~i~l~~slp~~ik~~F   64 (233)
T KOG4739|consen    4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPDVCPLCKKSIRIIQLNRSLPTDIKSYF   64 (233)
T ss_pred             EEeccccccCCCCceeeeechhhhhhhhcccCCccccccccceeeeeecccccchhHHHHc
Confidence            5677776653322 357789999999998755 3 69999999877666655555555554

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.20  E-value=0.54  Score=39.28  Aligned_cols=62  Identities=21%  Similarity=0.244  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      .+..-|.....-|+++.|+..|.++|.+.-+              -+..++|-+..++.+|+-++|++-+++++++
T Consensus        45 ~LEl~~valaE~g~Ld~AlE~F~qal~l~P~--------------raSayNNRAQa~RLq~~~e~ALdDLn~AleL  106 (175)
T KOG4555|consen   45 ELELKAIALAEAGDLDGALELFGQALCLAPE--------------RASAYNNRAQALRLQGDDEEALDDLNKALEL  106 (175)
T ss_pred             HHHHHHHHHHhccchHHHHHHHHHHHHhccc--------------chHhhccHHHHHHHcCChHHHHHHHHHHHHh
Confidence            3344455555668888888888888765411              1344555555555555555555555555543

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.96  E-value=0.3  Score=29.77  Aligned_cols=29  Identities=21%  Similarity=0.414  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNV  305 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i  305 (392)
                      ..+..+|.++..+|++++|+..|++++++
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            46788999999999999999999999876

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 ....

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

Probab=92.78  E-value=0.33  Score=45.81  Aligned_cols=63  Identities=19%  Similarity=0.234  Sum_probs=30.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          279 LNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE  355 (392)
Q Consensus       279 l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile  355 (392)
                      ...++.++..+|+.++|+.+|++++..       .+.+       ...+..+|+++...|+.++|...+++++..++
T Consensus       217 ~~~la~~~~~lg~~~~Al~~~~~~~~~-------~p~d-------~~~~~~~a~~l~~~g~~~~A~~~~~~~~~~l~  279 (280)
T PF13429_consen  217 WDALAAAYLQLGRYEEALEYLEKALKL-------NPDD-------PLWLLAYADALEQAGRKDEALRLRRQALRLLR  279 (280)
T ss_dssp             CHHHHHHHHHHT-HHHHHHHHHHHHHH-------STT--------HHHHHHHHHHHT--------------------
T ss_pred             HHHHHHHhccccccccccccccccccc-------cccc-------cccccccccccccccccccccccccccccccC
Confidence            356688888888888999888886643       3332       34566889999999999999999999987765

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=92.68  E-value=0.52  Score=47.80  Aligned_cols=93  Identities=24%  Similarity=0.267  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH--H----------hhcCCCCCchhhHHHHHHHHHHHHHHhcCCHH
Q 016262          274 TLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRD--A----------VKRHSNVPSQVLDVAVSLAKVADVDRSIGNED  341 (392)
Q Consensus       274 ~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~--~----------~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~  341 (392)
                      .|+..+..+|..+...++++.++.+|+++|...|.  .          ..........-.+++...-.-|.-....|++.
T Consensus       296 lIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~  375 (539)
T KOG0548|consen  296 LIAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYP  375 (539)
T ss_pred             HHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHH
Confidence            37788888999999999999999999999985542  1          10000000111134444444577778889999


Q ss_pred             HHHHHHHHHHHHHHHhhcCCCchhHHHhhcc
Q 016262          342 VAVDGFQEAIKRLESLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       342 ~A~~~~~~al~ile~l~~~~~~a~l~~~~~~  372 (392)
                      +|+.+|.+||+.      .|+++.+-.+++.
T Consensus       376 ~Av~~YteAIkr------~P~Da~lYsNRAa  400 (539)
T KOG0548|consen  376 EAVKHYTEAIKR------DPEDARLYSNRAA  400 (539)
T ss_pred             HHHHHHHHHHhc------CCchhHHHHHHHH
Confidence            999999997743      3555544444433

>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=92.59  E-value=0.75  Score=40.49  Aligned_cols=74  Identities=11%  Similarity=0.113  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh-hcCCCchhHHHhhcc
Q 016262          295 ARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL-TLKPEEAGLEQRCWN  372 (392)
Q Consensus       295 A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l-~~~~~~a~l~~~~~~  372 (392)
                      .+-+|+++.+..+..+..++.....+...+..|-.|+.    .....++...+++|+.-+++- ..+|..+..+..++.
T Consensus         3 rl~~FE~ark~aea~y~~nP~DadnL~~WG~ALLELAq----fk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGn   77 (186)
T PF06552_consen    3 RLLFFEHARKKAEAAYAKNPLDADNLTNWGGALLELAQ----FKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGN   77 (186)
T ss_dssp             HHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHH----HS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCcHhHHHHHHHHHHHHHHHh----ccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHH
Confidence            45678888888888888888755444444444444433    244456777888888888886 888999888888887

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.

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=92.56  E-value=0.89  Score=45.56  Aligned_cols=106  Identities=16%  Similarity=0.141  Sum_probs=73.2

Q ss_pred             HHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 016262          227 CSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVR  306 (392)
Q Consensus       227 C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~  306 (392)
                      ||.--+...-+|+.+-.++.|-=|+-+++.+    .++.+.++       ..+.-||+.+.+++++++|+..|..++..-
T Consensus       394 ~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA----~~~kPnDs-------Rlw~aLG~CY~kl~~~~eAiKCykrai~~~  462 (559)
T KOG1155|consen  394 NPRDYRAWYGLGQAYEIMKMHFYALYYFQKA----LELKPNDS-------RLWVALGECYEKLNRLEEAIKCYKRAILLG  462 (559)
T ss_pred             CchhHHHHhhhhHHHHHhcchHHHHHHHHHH----HhcCCCch-------HHHHHHHHHHHHhccHHHHHHHHHHHHhcc
Confidence            3333333333445554445554455566554    33444333       357789999999999999999999887542


Q ss_pred             HHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          307 RDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       307 ~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      .      ++        ...|..||++++.+++.++|..+|++-++.....
T Consensus       463 d------te--------~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~e  499 (559)
T KOG1155|consen  463 D------TE--------GSALVRLAKLYEELKDLNEAAQYYEKYVEVSELE  499 (559)
T ss_pred             c------cc--------hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhh
Confidence            2      22        4567889999999999999999999999877444

>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=92.48  E-value=0.36  Score=29.50  Aligned_cols=31  Identities=19%  Similarity=0.374  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRR  307 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~  307 (392)
                      ..+..+|.++..+|++++|+.+|++++++..
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~   32 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALELNP   32 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            3577899999999999999999999998753

...

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=92.14  E-value=0.27  Score=47.71  Aligned_cols=97  Identities=11%  Similarity=-0.082  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE  355 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile  355 (392)
                      ......++.++...|++++|+..|++++++.       +.+       ...+..++.++..+|++++|+..+++++....
T Consensus       114 ~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-------p~~-------~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~  179 (355)
T cd05804         114 WYLLGMLAFGLEEAGQYDRAEEAARRALELN-------PDD-------AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWD  179 (355)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-------CCC-------cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccC
Confidence            3456678888888899999999888887652       221       33456678888888888888888888765433


Q ss_pred             HhhcCCCch-hHHHhhcchhHHHHHHhhhccccchhc
Q 016262          356 SLTLKPEEA-GLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       356 ~l~~~~~~a-~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      .   .+... .....++.  .+..++++.+++.+|++
T Consensus       180 ~---~~~~~~~~~~~la~--~~~~~G~~~~A~~~~~~  211 (355)
T cd05804         180 C---SSMLRGHNWWHLAL--FYLERGDYEAALAIYDT  211 (355)
T ss_pred             C---CcchhHHHHHHHHH--HHHHCCCHHHHHHHHHH
Confidence            2   11110 01112223  45566677777666654

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.

>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0

Probab=91.99  E-value=0.1  Score=43.10  Aligned_cols=44  Identities=27%  Similarity=0.659  Sum_probs=36.8

Q ss_pred             ceeccccccccccCceecc---cCcHhHHHhHHhcC-------CCCCCCcCCcc
Q 016262           89 PLSCMICQALLFECSKCTP---CSHVYCKACISRFK-------DCPLCGADIEK  132 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~~---C~h~fC~~Ci~~~~-------~CP~C~~~~~~  132 (392)
                      -..|.||.+...++.+.-|   ||-+.|..|-...|       .||.|+.++.+
T Consensus        80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs  133 (140)
T PF05290_consen   80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS  133 (140)
T ss_pred             ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence            4789999999886666665   99999999988766       39999987765

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=91.85  E-value=0.2  Score=50.16  Aligned_cols=63  Identities=16%  Similarity=0.119  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCch---hHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          322 DVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEA---GLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       322 dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a---~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +.+..+.|+|.++..+|++++|+..|+++++      ..|+.+   ....+++.  .|..++++.+|+..|++|
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALe------L~Pd~aeA~~A~yNLAc--aya~LGr~dEAla~LrrA  138 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALE------LNPNPDEAQAAYYNKAC--CHAYREEGKKAADCLRTA  138 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh------hCCCchHHHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            5678889999999999999999999999984      456665   34778888  888999999999888765

>PF04641 Rtf2: Rtf2 RING-finger

Probab=91.81  E-value=0.28  Score=46.11  Aligned_cols=46  Identities=22%  Similarity=0.582  Sum_probs=37.6

Q ss_pred             cCceecccccccccc---CceecccCcHhHHHhHHhcC---CCCCCCcCCcc
Q 016262           87 IGPLSCMICQALLFE---CSKCTPCSHVYCKACISRFK---DCPLCGADIEK  132 (392)
Q Consensus        87 ~~~~~C~iC~~~~~~---~p~~~~C~h~fC~~Ci~~~~---~CP~C~~~~~~  132 (392)
                      ...+.|||....|..   -..+.+|||+|+..+|.+..   .||.|..++..
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f~~  162 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPFTE  162 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCcccc
Confidence            357999999988742   13456999999999999886   69999999876

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=91.71  E-value=1.3  Score=45.04  Aligned_cols=131  Identities=15%  Similarity=0.122  Sum_probs=85.1

Q ss_pred             ccccccchhHHHhHHHHHHHHHHh------C---------CCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          240 CCRAMGDADAAVAYFADSVEFLMK------L---------PMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLN  304 (392)
Q Consensus       240 ~C~~~gdhh~a~~~~e~~~~~~~~------L---------~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~  304 (392)
                      ....++++..++.+++.++...+.      +         .....-+...++...+.-|+-....|+|.+|+..|.+++.
T Consensus       307 a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIk  386 (539)
T KOG0548|consen  307 AYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIK  386 (539)
T ss_pred             hhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHh
Confidence            344455566677777665333222      1         1111222334455666668888888999999999998653


Q ss_pred             HHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhc
Q 016262          305 VRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLN  384 (392)
Q Consensus       305 i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~  384 (392)
                      .       .++       -+..++|.+..|..+|++..|+.-.+.++++      +|.....-.+=+.  .+.++++|.+
T Consensus       387 r-------~P~-------Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL------~p~~~kgy~RKg~--al~~mk~ydk  444 (539)
T KOG0548|consen  387 R-------DPE-------DARLYSNRAACYLKLGEYPEALKDAKKCIEL------DPNFIKAYLRKGA--ALRAMKEYDK  444 (539)
T ss_pred             c-------CCc-------hhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc------CchHHHHHHHHHH--HHHHHHHHHH
Confidence            3       333       3778899999999999999999987777755      3333221111133  6788999999


Q ss_pred             cccchhcC
Q 016262          385 QLPKFRSA  392 (392)
Q Consensus       385 ~l~~~~~~  392 (392)
                      +++-|+.|
T Consensus       445 Aleay~ea  452 (539)
T KOG0548|consen  445 ALEAYQEA  452 (539)
T ss_pred             HHHHHHHH
Confidence            99888764

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=91.52  E-value=5.3  Score=36.37  Aligned_cols=99  Identities=16%  Similarity=0.131  Sum_probs=70.1

Q ss_pred             hHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHH
Q 016262          248 DAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSL  327 (392)
Q Consensus       248 h~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl  327 (392)
                      ..|+..+.-+.-........    ...++...-+|.-++..+++-+....++.+|++...++.+....... ..+-+..+
T Consensus        94 ~~ai~~YkLAll~~~~~~~~----~s~~A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~-~~~~~~l~  168 (214)
T PF09986_consen   94 EEAIESYKLALLCAQIKKEK----PSKKAGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIE-GMDEATLL  168 (214)
T ss_pred             HHHHHHHHHHHHHHHHhCCC----HHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCC-CchHHHHH
Confidence            44555554443333333222    22567777888889989999999999999999999998877654332 22334455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          328 AKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       328 ~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      =-+|++...+|++++|+..|.+.+
T Consensus       169 YLigeL~rrlg~~~eA~~~fs~vi  192 (214)
T PF09986_consen  169 YLIGELNRRLGNYDEAKRWFSRVI  192 (214)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHH
Confidence            567999999999999999998866

>PF10516 SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetratrico peptide repeat region (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.42  E-value=0.44  Score=30.72  Aligned_cols=33  Identities=15%  Similarity=0.247  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          325 VSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       325 ~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      ..+..||++...-+++..|+.-|+++++|.+++
T Consensus         2 dv~~~Lgeisle~e~f~qA~~D~~~aL~i~~~l   34 (38)
T PF10516_consen    2 DVYDLLGEISLENENFEQAIEDYEKALEIQEEL   34 (38)
T ss_pred             cHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHh
Confidence            356789999999999999999999999999986

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. This entry represents SHNi-TPR (Sim3-Hif1-NASP interrupted TPR), a sequence that is an interrupted form of TPR repeat [].

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.37  E-value=0.61  Score=47.02  Aligned_cols=92  Identities=14%  Similarity=0.204  Sum_probs=64.1

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      +...+..+++.|+-.+..|.|++|+.||.++++.--.      +        .+-.+|.+..|..+|++++.++.-.+|+
T Consensus       111 ~~k~A~~lK~~GN~~f~~kkY~eAIkyY~~AI~l~p~------e--------piFYsNraAcY~~lgd~~~Vied~TkAL  176 (606)
T KOG0547|consen  111 RLKYAAALKTKGNKFFRNKKYDEAIKYYTQAIELCPD------E--------PIFYSNRAACYESLGDWEKVIEDCTKAL  176 (606)
T ss_pred             HHHHHHHHHhhhhhhhhcccHHHHHHHHHHHHhcCCC------C--------chhhhhHHHHHHHHhhHHHHHHHHHHHh
Confidence            3456778889999999999999999999999865322      1        3456788888888888888877766666


Q ss_pred             HHHHHhhcCCCchhHHHhhcchhHHHHHHhhhcc
Q 016262          352 KRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQ  385 (392)
Q Consensus       352 ~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~  385 (392)
                            ++.|+-...+.++.+  ...-|+++..+
T Consensus       177 ------El~P~Y~KAl~RRA~--A~E~lg~~~ea  202 (606)
T KOG0547|consen  177 ------ELNPDYVKALLRRAS--AHEQLGKFDEA  202 (606)
T ss_pred             ------hcCcHHHHHHHHHHH--HHHhhccHHHH
Confidence                  455555555545544  33444444433

>PF12968 DUF3856: Domain of Unknown Function (DUF3856); InterPro: IPR024552 This domain of unknown function is found in a small group of tetratricopeptide-like proteins, which includes the uncharacterised protein Q8KAL8 from SWISSPROT

Probab=91.28  E-value=2.7  Score=34.58  Aligned_cols=102  Identities=16%  Similarity=0.177  Sum_probs=64.6

Q ss_pred             cCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh-hcCCCch--h
Q 016262          289 GGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL-TLKPEEA--G  365 (392)
Q Consensus       289 ~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l-~~~~~~a--~  365 (392)
                      .|.+++|...|.+++++.+..-.++.= .-.-|| |.-...|+.....||+|.+++.--+.++-.+... +++.+.-  +
T Consensus        22 ~g~~~eAa~s~r~AM~~srtiP~eEaF-Dh~GFD-A~chA~Ls~A~~~Lgry~e~L~sA~~aL~YFNRRGEL~qdeGklW   99 (144)
T PF12968_consen   22 DGAYEEAAASCRKAMEVSRTIPAEEAF-DHDGFD-AFCHAGLSGALAGLGRYDECLQSADRALRYFNRRGELHQDEGKLW   99 (144)
T ss_dssp             HT-HHHHHHHHHHHHHHHTTS-TTS----HHHHH-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHH--TTSTHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHhccCChHhhc-ccccHH-HHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhhccccccccchhH
Confidence            478899999999999887653211100 001134 5667788999999999999999999999888877 5553322  2


Q ss_pred             HHHhhcchhHHHHHHhhhccccchhcC
Q 016262          366 LEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       366 l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +.-.+...-.++-++....+|++||.|
T Consensus       100 IaaVfsra~Al~~~Gr~~eA~~~fr~a  126 (144)
T PF12968_consen  100 IAAVFSRAVALEGLGRKEEALKEFRMA  126 (144)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHH
Confidence            221111111367888899999988753

The structure of Q8KAL8 is known and belongs to the SCOP all alpha class, TPR-like superfamily, CT2138-like family.; PDB: 2HR2_D.

>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]

Probab=91.18  E-value=0.12  Score=48.70  Aligned_cols=43  Identities=30%  Similarity=0.725  Sum_probs=32.0

Q ss_pred             ceeccccccccccCceecccCcHhHHHhHHhc--CCCCCCCcCCc
Q 016262           89 PLSCMICQALLFECSKCTPCSHVYCKACISRF--KDCPLCGADIE  131 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~--~~CP~C~~~~~  131 (392)
                      ...|.-|---+..=-+.++|.|.||..|....  +.||.|...+.
T Consensus        90 VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   90 VHFCDRCDFPIAIYGRMIPCKHVFCLECARSDSDKICPLCDDRVQ  134 (389)
T ss_pred             eEeecccCCcceeeecccccchhhhhhhhhcCccccCcCcccHHH
Confidence            46788886544435688999999999997654  57999976443

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.12  E-value=1.2  Score=40.86  Aligned_cols=26  Identities=19%  Similarity=0.234  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHH
Q 016262          324 AVSLAKVADVDRSIGNEDVAVDGFQE  349 (392)
Q Consensus       324 a~sl~~l~~v~~~lg~~~~A~~~~~~  349 (392)
                      +..|.+--+++..+|++..|..++.+
T Consensus        93 v~cL~~aieIyt~~Grf~~aAk~~~~  118 (288)
T KOG1586|consen   93 VNCLEKAIEIYTDMGRFTMAAKHHIE  118 (288)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHhhhhh
Confidence            44555555666666666655444333

>PRK14574 hmsH outer membrane protein; Provisional

Probab=91.07  E-value=1.2  Score=48.84  Aligned_cols=15  Identities=20%  Similarity=0.550  Sum_probs=8.5

Q ss_pred             cccchhHHHhHHHHH
Q 016262          243 AMGDADAAVAYFADS  257 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~  257 (392)
                      ..|++..|+..+++.
T Consensus        46 r~Gd~~~Al~~L~qa   60 (822)
T PRK14574         46 RAGDTAPVLDYLQEE   60 (822)
T ss_pred             hCCCHHHHHHHHHHH
Confidence            556666555555544

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.05  E-value=1.3  Score=44.76  Aligned_cols=104  Identities=14%  Similarity=0.205  Sum_probs=60.5

Q ss_pred             hhhcccccccccccchhHHHhHHHHHHHHHHhCCCCc----hHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          232 AVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDD----LEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRR  307 (392)
Q Consensus       232 ~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~----~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~  307 (392)
                      ++..+|..+-..++++..|+..|+.+-+.........    .-+.+.+- .+.      . .+++..|+....+++    
T Consensus       463 Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l-~~q------w-k~d~~~a~~Ll~KA~----  530 (606)
T KOG0547|consen  463 EVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALL-VLQ------W-KEDINQAENLLRKAI----  530 (606)
T ss_pred             hHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHh-hhc------h-hhhHHHHHHHHHHHH----
Confidence            4455566655467777888888876644332211111    11111111 111      1 145555555555544    


Q ss_pred             HHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          308 DAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       308 ~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                         +-++.     .|+|  ...||.+..++|+.++|+++|++++.+-+..
T Consensus       531 ---e~Dpk-----ce~A--~~tlaq~~lQ~~~i~eAielFEksa~lArt~  570 (606)
T KOG0547|consen  531 ---ELDPK-----CEQA--YETLAQFELQRGKIDEAIELFEKSAQLARTE  570 (606)
T ss_pred             ---ccCch-----HHHH--HHHHHHHHHHHhhHHHHHHHHHHHHHHHHhH
Confidence               33433     1333  5778999999999999999999999887765

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.53  E-value=0.16  Score=46.24  Aligned_cols=44  Identities=18%  Similarity=0.392  Sum_probs=36.7

Q ss_pred             ceeccccccccccC---ceecccCcHhHHHhHHhcC----CCCCCCcCCcc
Q 016262           89 PLSCMICQALLFEC---SKCTPCSHVYCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        89 ~~~C~iC~~~~~~~---p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      .+.||+|.+.|.+.   .+..+|||+||..|++.+.    .||.|..++..
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd  271 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD  271 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence            58899999998853   4567899999999999983    59999887654

>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A

Probab=90.46  E-value=0.043  Score=40.68  Aligned_cols=43  Identities=28%  Similarity=0.801  Sum_probs=19.9

Q ss_pred             ceeccccccccccC---c--eec--ccCcHhHHHhHHhcC---------------CCCCCCcCCc
Q 016262           89 PLSCMICQALLFEC---S--KCT--PCSHVYCKACISRFK---------------DCPLCGADIE  131 (392)
Q Consensus        89 ~~~C~iC~~~~~~~---p--~~~--~C~h~fC~~Ci~~~~---------------~CP~C~~~~~  131 (392)
                      ++.|+||..++.+.   |  +..  .|+..|=..|+.+|.               .||.|+.+++
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            46899999985512   2  222  688888889999882               2999998765

>cd02682 MIT_AAA_Arch MIT: domain contained within Microtubule Interacting and Trafficking molecules

Probab=90.09  E-value=1.3  Score=33.14  Aligned_cols=43  Identities=23%  Similarity=0.317  Sum_probs=35.1

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh-hcCCCch
Q 016262          322 DVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL-TLKPEEA  364 (392)
Q Consensus       322 dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l-~~~~~~a  364 (392)
                      +.|..+...+.-....|++++|+.+|++++++|.++ ..-|++.
T Consensus         4 ~~A~~~a~~AVe~D~~gr~~eAi~~Y~~aIe~L~q~~~~~pD~~   47 (75)
T cd02682           4 EMARKYAINAVKAEKEGNAEDAITNYKKAIEVLSQIVKNYPDSP   47 (75)
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHhCCChH
Confidence            346667777777888999999999999999999998 6655554

This sub-family of MIT domains is found in mostly archaebacterial AAA-ATPases. The molecular function of the MIT domain is unclear.

>PF10516 SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetratrico peptide repeat region (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=89.95  E-value=0.78  Score=29.56  Aligned_cols=34  Identities=12%  Similarity=0.336  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAV  310 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~  310 (392)
                      ..+..||++-...++++.|+..|.++|++++...
T Consensus         2 dv~~~Lgeisle~e~f~qA~~D~~~aL~i~~~l~   35 (38)
T PF10516_consen    2 DVYDLLGEISLENENFEQAIEDYEKALEIQEELL   35 (38)
T ss_pred             cHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhc
Confidence            3567899999999999999999999999998865

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. This entry represents SHNi-TPR (Sim3-Hif1-NASP interrupted TPR), a sequence that is an interrupted form of TPR repeat [].

>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]

Probab=89.90  E-value=0.13  Score=54.55  Aligned_cols=39  Identities=33%  Similarity=0.738  Sum_probs=33.5

Q ss_pred             eeccccccccccCceecccCcHhHHHhHHhcC------CCCCCCcCC
Q 016262           90 LSCMICQALLFECSKCTPCSHVYCKACISRFK------DCPLCGADI  130 (392)
Q Consensus        90 ~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~------~CP~C~~~~  130 (392)
                      +.|.+|.+ .. .++...|+|.||..|+...+      .||.|+..+
T Consensus       455 ~~c~ic~~-~~-~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l  499 (674)
T KOG1001|consen  455 HWCHICCD-LD-SFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL  499 (674)
T ss_pred             cccccccc-cc-cceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence            79999999 45 99999999999999998774      399998643

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.85  E-value=1.1  Score=43.23  Aligned_cols=27  Identities=19%  Similarity=0.086  Sum_probs=23.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          279 LNKIGDLKYYGGDLQAARSYYVRSLNV  305 (392)
Q Consensus       279 l~~lg~l~~~~g~l~~A~~~~e~aL~i  305 (392)
                      .+.||..+..+|-+.+|..+++++|+.
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q  252 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQ  252 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhc
Confidence            467899999999999999999988864

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=89.59  E-value=3.5  Score=44.31  Aligned_cols=158  Identities=18%  Similarity=0.141  Sum_probs=85.2

Q ss_pred             HHhhhchhhHHHHhhhcHHHH--HHHHHhcC-CCh--HHHHHH-----HhhhcccccccccccchhHHHhHHHHHH----
Q 016262          193 AFRAQNVESAKSRLSLCTEDI--RDQIERMG-NTS--ELCSQL-----GAVLGMLGDCCRAMGDADAAVAYFADSV----  258 (392)
Q Consensus       193 ~~~~g~~~~A~~~l~~c~~~~--~~~l~~~~-~~~--~~C~~h-----~~~L~~fC~~C~~~gdhh~a~~~~e~~~----  258 (392)
                      |+.-|-+++|+..+..|..+-  -..+...+ +..  ++-..|     ......|-..-...+|-..|+.+|+.+.    
T Consensus       810 AieLgMlEeA~~lYr~ckR~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyEK~~~haf  889 (1416)
T KOG3617|consen  810 AIELGMLEEALILYRQCKRYDLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYEKAGVHAF  889 (1416)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHHhcCChHH
Confidence            666777888888888887552  11222111 111  121211     1122222222224556677888888662    


Q ss_pred             HHHHhCCCCchHHHHHH-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH--------------HhhcCCCCCch
Q 016262          259 EFLMKLPMDDLEIIHTL-----SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRD--------------AVKRHSNVPSQ  319 (392)
Q Consensus       259 ~~~~~L~~~~~e~~~~l-----~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~--------------~~~~~~~~~~~  319 (392)
                      +.-+-|...-..+.+.+     ...+++.|......|+++.|+.+|+.+-+-.--              ...+...    
T Consensus       890 ev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~iA~esg----  965 (1416)
T KOG3617|consen  890 EVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKAARIAEESG----  965 (1416)
T ss_pred             HHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHHHHHHHhcc----
Confidence            22222222111222211     234566677778889999999999998764321              0111111    


Q ss_pred             hhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          320 VLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       320 ~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                        |.|.. -.||-.|++.|+..+|+-+|.+|...---+
T Consensus       966 --d~AAc-YhlaR~YEn~g~v~~Av~FfTrAqafsnAI 1000 (1416)
T KOG3617|consen  966 --DKAAC-YHLARMYENDGDVVKAVKFFTRAQAFSNAI 1000 (1416)
T ss_pred             --cHHHH-HHHHHHhhhhHHHHHHHHHHHHHHHHHHHH
Confidence              22322 257788888999999999888776654444

>PF12862 Apc5: Anaphase-promoting complex subunit 5

Probab=89.52  E-value=4.1  Score=31.72  Aligned_cols=82  Identities=16%  Similarity=0.167  Sum_probs=55.3

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhH
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLD  322 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~d  322 (392)
                      ..+++..|+......-+....-.....  ...+..++-+++.+....|++++|+..+++++++.++..+..        -
T Consensus        10 ~~~dy~~A~d~L~~~fD~~~~~~~~~~--~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~Are~~D~~--------~   79 (94)
T PF12862_consen   10 RSGDYSEALDALHRYFDYAKQSNNSSS--NSGLAYALLNLAELHRRFGHYEEALQALEEAIRLARENGDRR--------C   79 (94)
T ss_pred             HcCCHHHHHHHHHHHHHHHhhcccchh--hHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHCCHH--------H
Confidence            456676666665555444333222111  345677788899999999999999999999999998854332        3


Q ss_pred             HHHHHHHHHHHH
Q 016262          323 VAVSLAKVADVD  334 (392)
Q Consensus       323 la~sl~~l~~v~  334 (392)
                      ++..+.++..+.
T Consensus        80 l~~al~~~~~l~   91 (94)
T PF12862_consen   80 LAYALSWLANLL   91 (94)
T ss_pred             HHHHHHHHHHHh
Confidence            566666666543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=89.44  E-value=2.2  Score=46.55  Aligned_cols=56  Identities=13%  Similarity=0.097  Sum_probs=31.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchh
Q 016262          327 LAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFR  390 (392)
Q Consensus       327 l~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~  390 (392)
                      +..+|.++..+|+.++|+..|++++      ...|.+..+...++.  .+...+...+||..++
T Consensus       119 ~~~la~~l~~~g~~~~Al~~l~~al------~~~P~~~~~~~~la~--~l~~~~~~e~Al~~l~  174 (765)
T PRK10049        119 LLALAYVYKRAGRHWDELRAMTQAL------PRAPQTQQYPTEYVQ--ALRNNRLSAPALGAID  174 (765)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHH------HhCCCCHHHHHHHHH--HHHHCCChHHHHHHHH
Confidence            4455666667777777777666666      345666555544444  4444444444555544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=89.33  E-value=1.7  Score=47.39  Aligned_cols=54  Identities=7%  Similarity=-0.044  Sum_probs=26.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHH
Q 016262          281 KIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQ  348 (392)
Q Consensus       281 ~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~  348 (392)
                      .++.++...|++++|+..|++++++       .+.+       ...+..++.++...|..++|+..++
T Consensus       121 ~la~~l~~~g~~~~Al~~l~~al~~-------~P~~-------~~~~~~la~~l~~~~~~e~Al~~l~  174 (765)
T PRK10049        121 ALAYVYKRAGRHWDELRAMTQALPR-------APQT-------QQYPTEYVQALRNNRLSAPALGAID  174 (765)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh-------CCCC-------HHHHHHHHHHHHHCCChHHHHHHHH
Confidence            3444555555555555555544432       2221       2222345556666666666665443

>TIGR00540 hemY_coli hemY protein

Probab=89.31  E-value=1.4  Score=44.15  Aligned_cols=68  Identities=18%  Similarity=0.196  Sum_probs=51.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      .+..+|.++...|++++|+.+|+++.....     .+.        ......+|.++..+|+.++|..+|++++..+--+
T Consensus       337 ll~sLg~l~~~~~~~~~A~~~le~a~a~~~-----~p~--------~~~~~~La~ll~~~g~~~~A~~~~~~~l~~~~~~  403 (409)
T TIGR00540       337 INRALGQLLMKHGEFIEAADAFKNVAACKE-----QLD--------ANDLAMAADAFDQAGDKAEAAAMRQDSLGLMLAI  403 (409)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHhHHhhc-----CCC--------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcc
Confidence            455679999999999999999995332221     222        2224588999999999999999999998877665


Q ss_pred             h
Q 016262          358 T  358 (392)
Q Consensus       358 ~  358 (392)
                      +
T Consensus       404 ~  404 (409)
T TIGR00540       404 Q  404 (409)
T ss_pred             c
Confidence            3

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.

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

Probab=89.00  E-value=4  Score=44.49  Aligned_cols=108  Identities=20%  Similarity=0.244  Sum_probs=73.8

Q ss_pred             hcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcC
Q 016262          234 LGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRH  313 (392)
Q Consensus       234 L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~  313 (392)
                      +-+++.+|..+|.+..|+..|+......-  .....+       .+.-|+.+|+..|.|.+|+.+...       +....
T Consensus       683 ~lNlah~~~e~~qy~~AIqmYe~~lkkf~--~~~~~~-------vl~~Lara~y~~~~~~eak~~ll~-------a~~~~  746 (1018)
T KOG2002|consen  683 WLNLAHCYVEQGQYRLAIQMYENCLKKFY--KKNRSE-------VLHYLARAWYEAGKLQEAKEALLK-------ARHLA  746 (1018)
T ss_pred             eeeHHHHHHHHHHHHHHHHHHHHHHHHhc--ccCCHH-------HHHHHHHHHHHhhhHHHHHHHHHH-------HHHhC
Confidence            34455566667888888888876654433  233444       455666677666666666665544       34456


Q ss_pred             CCCCchhhHHHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHHHHHh
Q 016262          314 SNVPSQVLDVAVSLAKVADVDRSI-----GNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       314 ~~~~~~~~dla~sl~~l~~v~~~l-----g~~~~A~~~~~~al~ile~l  357 (392)
                      +.++...|+++..+.+++....+.     .....|+..++.++++++.+
T Consensus       747 p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~l  795 (1018)
T KOG2002|consen  747 PSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTEL  795 (1018)
T ss_pred             CccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHH
Confidence            777888899999999988655444     34457888889999999998

>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=88.89  E-value=0.23  Score=51.16  Aligned_cols=40  Identities=28%  Similarity=0.605  Sum_probs=32.3

Q ss_pred             Cceecccccccccc---CceecccCcHhHHHhHHhcC--CCCCCCc
Q 016262           88 GPLSCMICQALLFE---CSKCTPCSHVYCKACISRFK--DCPLCGA  128 (392)
Q Consensus        88 ~~~~C~iC~~~~~~---~p~~~~C~h~fC~~Ci~~~~--~CP~C~~  128 (392)
                      +.+.|+||+..|..   .|+.+-|||+.|+.|+....  .|| |..
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~scp-~~~   54 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNASCP-TKR   54 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhccCC-CCc
Confidence            35789999887764   59999999999999998763  588 544

>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=88.88  E-value=0.51  Score=45.14  Aligned_cols=44  Identities=39%  Similarity=0.868  Sum_probs=36.3

Q ss_pred             cCceeccccccccccCceecccCcHhHHHhHHhc------CCCCCCCcCCc
Q 016262           87 IGPLSCMICQALLFECSKCTPCSHVYCKACISRF------KDCPLCGADIE  131 (392)
Q Consensus        87 ~~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~------~~CP~C~~~~~  131 (392)
                      .+.-.|.||..-+. =.-++||+|..|..|-.+.      +.||.||....
T Consensus        59 Een~~C~ICA~~~T-Ys~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e  108 (493)
T COG5236          59 EENMNCQICAGSTT-YSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE  108 (493)
T ss_pred             cccceeEEecCCce-EEEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence            35678999999877 7889999999999997665      57999997543

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=88.76  E-value=4.1  Score=37.91  Aligned_cols=61  Identities=16%  Similarity=0.072  Sum_probs=47.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      ..++-+|..+.+.|+.+.|...|.+++++.-.       .       ...++|+|-.+...|+++.|..++..+.
T Consensus       135 ~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~-------~-------p~~~nNlgms~~L~gd~~~A~~lll~a~  195 (257)
T COG5010         135 EAWNLLGAALDQLGRFDEARRAYRQALELAPN-------E-------PSIANNLGMSLLLRGDLEDAETLLLPAY  195 (257)
T ss_pred             hhhhHHHHHHHHccChhHHHHHHHHHHHhccC-------C-------chhhhhHHHHHHHcCCHHHHHHHHHHHH
Confidence            46788999999999999999999999876432       1       2346888888888888888887776654

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=88.70  E-value=2.8  Score=46.11  Aligned_cols=59  Identities=5%  Similarity=0.140  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          325 VSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       325 ~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .+|-.+|.+|..+|+.++|...|++++      ..+|.++..+++++-  .|... +..+|+.||.+|
T Consensus       117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L------~~D~~n~~aLNn~AY--~~ae~-dL~KA~~m~~KA  175 (906)
T PRK14720        117 LALRTLAEAYAKLNENKKLKGVWERLV------KADRDNPEIVKKLAT--SYEEE-DKEKAITYLKKA  175 (906)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHH------hcCcccHHHHHHHHH--HHHHh-hHHHHHHHHHHH
Confidence            456678999999999999999999887      556999999999998  77777 999999999875

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=88.57  E-value=1.5  Score=28.76  Aligned_cols=40  Identities=20%  Similarity=0.249  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhc
Q 016262          326 SLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCW  371 (392)
Q Consensus       326 sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~  371 (392)
                      .+..+|.++..+|++++|+..|++++      ..+|++......++
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l------~~~P~~~~a~~~La   42 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRAL------ALDPDDPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH------HHCcCCHHHHHHhh
Confidence            34578999999999999999999987      56777766554443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=88.54  E-value=1.2  Score=41.33  Aligned_cols=88  Identities=13%  Similarity=0.120  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      .+...|......|++..|+..+.+++..       .+.+       ...++-+|-++.++|+...|...|.|++++    
T Consensus       102 ll~~~gk~~~~~g~~~~A~~~~rkA~~l-------~p~d-------~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L----  163 (257)
T COG5010         102 LLAAQGKNQIRNGNFGEAVSVLRKAARL-------APTD-------WEAWNLLGAALDQLGRFDEARRAYRQALEL----  163 (257)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHhcc-------CCCC-------hhhhhHHHHHHHHccChhHHHHHHHHHHHh----
Confidence            3444777787778877777766655433       3332       556677899999999999999999998854    


Q ss_pred             hcCCCchhHHHhhcchhHHHHHHhhhcccc
Q 016262          358 TLKPEEAGLEQRCWNSSTTNFQKNHLNQLP  387 (392)
Q Consensus       358 ~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~  387 (392)
                        .+.++...++++.  .+-.-+++..|-.
T Consensus       164 --~~~~p~~~nNlgm--s~~L~gd~~~A~~  189 (257)
T COG5010         164 --APNEPSIANNLGM--SLLLRGDLEDAET  189 (257)
T ss_pred             --ccCCchhhhhHHH--HHHHcCCHHHHHH
Confidence              4455555666665  3333344444333

>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=88.45  E-value=0.32  Score=47.62  Aligned_cols=33  Identities=39%  Similarity=1.020  Sum_probs=26.7

Q ss_pred             Cceecccccccccc--CceecccCcHhHHHhHHhc
Q 016262           88 GPLSCMICQALLFE--CSKCTPCSHVYCKACISRF  120 (392)
Q Consensus        88 ~~~~C~iC~~~~~~--~p~~~~C~h~fC~~Ci~~~  120 (392)
                      .-+.|.||.+...-  .-+-+||+|.||+.|+..+
T Consensus       183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY  217 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDY  217 (445)
T ss_pred             hcccceeeehhhcCcceeeecccchHHHHHHHHHH
Confidence            35889999987541  4677899999999999776

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=88.41  E-value=9  Score=37.78  Aligned_cols=63  Identities=22%  Similarity=0.207  Sum_probs=53.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRL  354 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~il  354 (392)
                      ..+.-+|-++...+.+.+|..+|+.+++.+.+               +...+.+|+++.++|+...|-+.+++++-+.
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s---------------~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~  391 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAALKLRPS---------------ASDYAELADALDQLGEPEEAEQVRREALLLT  391 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCC---------------hhhHHHHHHHHHHcCChHHHHHHHHHHHHHh
Confidence            35677899999999999999999988765544               6667899999999999999999999999444

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=88.23  E-value=4.3  Score=33.36  Aligned_cols=90  Identities=16%  Similarity=0.162  Sum_probs=58.7

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhH
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLD  322 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~d  322 (392)
                      .+|++.+|+++|+++...  -|.+..      ....+-.++..+..+|++++|+..+++.+.       ..+... .  .
T Consensus        13 ~~G~~~~Ai~~Y~~Al~~--gL~~~~------~~~a~i~lastlr~LG~~deA~~~L~~~~~-------~~p~~~-~--~   74 (120)
T PF12688_consen   13 SLGREEEAIPLYRRALAA--GLSGAD------RRRALIQLASTLRNLGRYDEALALLEEALE-------EFPDDE-L--N   74 (120)
T ss_pred             hcCCHHHHHHHHHHHHHc--CCCchH------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-------HCCCcc-c--c
Confidence            578889999999988552  333211      123555788888899999999998877653       222210 0  0


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          323 VAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       323 la~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                       ...-..++.+...+|++++|+..+-+++
T Consensus        75 -~~l~~f~Al~L~~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   75 -AALRVFLALALYNLGRPKEALEWLLEAL  102 (120)
T ss_pred             -HHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence             1111235678899999999998666544

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.18  E-value=2.4  Score=39.73  Aligned_cols=69  Identities=25%  Similarity=0.329  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 016262          275 LSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRL  354 (392)
Q Consensus       275 l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~il  354 (392)
                      +..+.-+||+.++.+|+++.|...|...++       +.+.+.    -.-..|=+||.+...+|+.++|...|++.++.+
T Consensus       177 ~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k-------~~P~s~----KApdallKlg~~~~~l~~~d~A~atl~qv~k~Y  245 (262)
T COG1729         177 TPNAYYWLGESLYAQGDYEDAAYIFARVVK-------DYPKSP----KAPDALLKLGVSLGRLGNTDEACATLQQVIKRY  245 (262)
T ss_pred             cchhHHHHHHHHHhcccchHHHHHHHHHHH-------hCCCCC----CChHHHHHHHHHHHHhcCHHHHHHHHHHHHHHC
Confidence            456788999999999999999999986554       333322    113678899999999999999999999877543

>TIGR00540 hemY_coli hemY protein

Probab=88.08  E-value=3.3  Score=41.46  Aligned_cols=106  Identities=8%  Similarity=-0.011  Sum_probs=65.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHH-----------HHHhhcCCCCCchhhH-----------HH--HHHHHHHHHHH
Q 016262          280 NKIGDLKYYGGDLQAARSYYVRSLNVR-----------RDAVKRHSNVPSQVLD-----------VA--VSLAKVADVDR  335 (392)
Q Consensus       280 ~~lg~l~~~~g~l~~A~~~~e~aL~i~-----------~~~~~~~~~~~~~~~d-----------la--~sl~~l~~v~~  335 (392)
                      -.++.++...|++++|...++++++..           +....-.+.+......           -.  ..+..+|-++.
T Consensus       267 ~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~  346 (409)
T TIGR00540       267 IALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLM  346 (409)
T ss_pred             HHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHH
Confidence            344566777788899988888888732           1111111222111111           12  44556788888


Q ss_pred             hcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          336 SIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       336 ~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .+|++.+|.++|+.+..    +..+|+..... .++.  ++..+++...+..+|+++
T Consensus       347 ~~~~~~~A~~~le~a~a----~~~~p~~~~~~-~La~--ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       347 KHGEFIEAADAFKNVAA----CKEQLDANDLA-MAAD--AFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HcccHHHHHHHHHHhHH----hhcCCCHHHHH-HHHH--HHHHcCCHHHHHHHHHHH
Confidence            99999999999984321    13355554433 5555  888888888888888864

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.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=88.06  E-value=0.49  Score=34.47  Aligned_cols=53  Identities=11%  Similarity=0.080  Sum_probs=43.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          331 ADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       331 ~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      ..++...+++++|+..+++++      ..+|.+..+....+.  .+..++++..++..|++
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l------~~~p~~~~~~~~~a~--~~~~~g~~~~A~~~l~~   54 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERAL------ELDPDDPELWLQRAR--CLFQLGRYEEALEDLER   54 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHH------HhCcccchhhHHHHH--HHHHhccHHHHHHHHHH
Confidence            457778889988888888877      457888888888888  88899999999888765

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

Probab=87.90  E-value=3.7  Score=44.29  Aligned_cols=91  Identities=23%  Similarity=0.329  Sum_probs=59.2

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCch
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDL  269 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~  269 (392)
                      |-..|-+|++++|...+.   +.++.    .       +.+-.....++.++..+|++.++.-.+=    ....|.+...
T Consensus       146 AN~lfarg~~eeA~~i~~---EvIkq----d-------p~~~~ay~tL~~IyEqrGd~eK~l~~~l----lAAHL~p~d~  207 (895)
T KOG2076|consen  146 ANNLFARGDLEEAEEILM---EVIKQ----D-------PRNPIAYYTLGEIYEQRGDIEKALNFWL----LAAHLNPKDY  207 (895)
T ss_pred             HHHHHHhCCHHHHHHHHH---HHHHh----C-------ccchhhHHHHHHHHHHcccHHHHHHHHH----HHHhcCCCCh
Confidence            435788899999887764   22111    1       2234456667777767888766554432    2245555444


Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          270 EIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNV  305 (392)
Q Consensus       270 e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i  305 (392)
                             ..+..++++..++|.++.|+-+|.++++.
T Consensus       208 -------e~W~~ladls~~~~~i~qA~~cy~rAI~~  236 (895)
T KOG2076|consen  208 -------ELWKRLADLSEQLGNINQARYCYSRAIQA  236 (895)
T ss_pred             -------HHHHHHHHHHHhcccHHHHHHHHHHHHhc
Confidence                   34677888888888999999999988864

>KOG3002 consensus Zn finger protein [General function prediction only]

Probab=87.85  E-value=0.57  Score=44.85  Aligned_cols=62  Identities=21%  Similarity=0.491  Sum_probs=44.2

Q ss_pred             CccCceeccccccccccCceecccCcHhHHHhHHhc-CCCCCCCcCCcccchhhHHHHHHHHHH
Q 016262           85 FKIGPLSCMICQALLFECSKCTPCSHVYCKACISRF-KDCPLCGADIEKIEADTTLQDVVDRFI  147 (392)
Q Consensus        85 ~~~~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~-~~CP~C~~~~~~~~~n~~l~~~~~~~~  147 (392)
                      ...+.+.||||.+.+..+...=+=||.-|..|-.+. ..||.|+.++..+ .+..+..+++...
T Consensus        44 ~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr~~~g~~-R~~amEkV~e~~~  106 (299)
T KOG3002|consen   44 LDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPTCRLPIGNI-RCRAMEKVAEAVL  106 (299)
T ss_pred             cchhhccCchhhccCcccceecCCCcEehhhhhhhhcccCCccccccccH-HHHHHHHHHHhce
Confidence            344678999999998734444445899999998544 6799999988854 4555555555543

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=87.73  E-value=6.5  Score=37.94  Aligned_cols=13  Identities=15%  Similarity=0.028  Sum_probs=8.5

Q ss_pred             hhhchhhHHHHhh
Q 016262          195 RAQNVESAKSRLS  207 (392)
Q Consensus       195 ~~g~~~~A~~~l~  207 (392)
                      +||.++-|+..++
T Consensus        81 sRGEvDRAIRiHQ   93 (389)
T COG2956          81 SRGEVDRAIRIHQ   93 (389)
T ss_pred             hcchHHHHHHHHH
Confidence            4677777776663

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.64  E-value=9.3  Score=35.52  Aligned_cols=68  Identities=18%  Similarity=0.141  Sum_probs=36.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          281 KIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       281 ~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      .++-+...+..|.++..+|+++..+..+....+++        +..|.+-+.+.+. .+-+.|+..|++++.++++-
T Consensus        76 qaamLake~~klsEvvdl~eKAs~lY~E~GspdtA--------AmaleKAak~len-v~Pd~AlqlYqralavve~~  143 (308)
T KOG1585|consen   76 QAAMLAKELSKLSEVVDLYEKASELYVECGSPDTA--------AMALEKAAKALEN-VKPDDALQLYQRALAVVEED  143 (308)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcchH--------HHHHHHHHHHhhc-CCHHHHHHHHHHHHHHHhcc
Confidence            33344444445556666666666665554433333        4445555544433 24456666777666666654

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=87.26  E-value=2.1  Score=41.49  Aligned_cols=91  Identities=13%  Similarity=0.078  Sum_probs=61.5

Q ss_pred             ccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCch
Q 016262          240 CCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQ  319 (392)
Q Consensus       240 ~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~  319 (392)
                      +....|++..+...+++..+.    .+..       ......++.+++..|++++|+.+|++.+.....    .+.    
T Consensus       123 ~~~~~G~~~~A~~~~~~al~~----~p~~-------~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~----~~~----  183 (355)
T cd05804         123 GLEEAGQYDRAEEAARRALEL----NPDD-------AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC----SSM----  183 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHhh----CCCC-------cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC----Ccc----
Confidence            333456666666666555432    2222       245678899999999999999999988765322    111    


Q ss_pred             hhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          320 VLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       320 ~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                        -.....-.++.++..+|++++|+..|++++
T Consensus       184 --~~~~~~~~la~~~~~~G~~~~A~~~~~~~~  213 (355)
T cd05804         184 --LRGHNWWHLALFYLERGDYEAALAIYDTHI  213 (355)
T ss_pred             --hhHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence              012223457889999999999999999985

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.

>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=87.10  E-value=0.29  Score=47.17  Aligned_cols=44  Identities=30%  Similarity=0.767  Sum_probs=33.5

Q ss_pred             CceeccccccccccCceecccCcHhH-HHhHHhcCCCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYC-KACISRFKDCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC-~~Ci~~~~~CP~C~~~~~~  132 (392)
                      .+..|.||++-.. +.+-+||||..| -.|-.....||.||..+..
T Consensus       304 ~p~lcVVcl~e~~-~~~fvpcGh~ccct~cs~~l~~CPvCR~rI~~  348 (355)
T KOG1571|consen  304 QPDLCVVCLDEPK-SAVFVPCGHVCCCTLCSKHLPQCPVCRQRIRL  348 (355)
T ss_pred             CCCceEEecCCcc-ceeeecCCcEEEchHHHhhCCCCchhHHHHHH
Confidence            4678999999988 789999999876 2233333569999986654

>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=87.08  E-value=0.31  Score=47.32  Aligned_cols=41  Identities=22%  Similarity=0.691  Sum_probs=29.3

Q ss_pred             eeccccccccccCc---eecccCcHhHHHhHHhcC-------CCCCCCcCC
Q 016262           90 LSCMICQALLFECS---KCTPCSHVYCKACISRFK-------DCPLCGADI  130 (392)
Q Consensus        90 ~~C~iC~~~~~~~p---~~~~C~h~fC~~Ci~~~~-------~CP~C~~~~  130 (392)
                      -.|.||.+.+....   -+-.|||.|=..|+..|+       .||.|+-.+
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~   55 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL   55 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence            47999976644221   122499999999999994       499998433

>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=87.03  E-value=0.37  Score=48.22  Aligned_cols=44  Identities=25%  Similarity=0.711  Sum_probs=32.8

Q ss_pred             Cceecccccccccc----------------CceecccCcHhHHHhHHhcC-----CCCCCCcCCc
Q 016262           88 GPLSCMICQALLFE----------------CSKCTPCSHVYCKACISRFK-----DCPLCGADIE  131 (392)
Q Consensus        88 ~~~~C~iC~~~~~~----------------~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~  131 (392)
                      ....|+||...+.-                .-..+||-|.|-..|+.+|.     .||.||.++.
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            35679999865221                12355999999999999994     5999998765

>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B

Probab=86.87  E-value=0.59  Score=31.74  Aligned_cols=39  Identities=26%  Similarity=0.624  Sum_probs=17.3

Q ss_pred             cccccccccc-Cceec--ccCcHhHHHhHHhcC-----CCCCCCcCC
Q 016262           92 CMICQALLFE-CSKCT--PCSHVYCKACISRFK-----DCPLCGADI  130 (392)
Q Consensus        92 C~iC~~~~~~-~p~~~--~C~h~fC~~Ci~~~~-----~CP~C~~~~  130 (392)
                      ||+|.+.+-. +....  +|++..|..|+.+..     .||-||.+.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            6778777621 22333  578899999987764     399999764

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=86.10  E-value=2.2  Score=44.26  Aligned_cols=58  Identities=12%  Similarity=0.185  Sum_probs=47.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          279 LNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       279 l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      ..-++.+....|++++|...|++++++..       .        +.++..+|.++...|+.++|++.|++|+
T Consensus       423 ~~ala~~~~~~g~~~~A~~~l~rAl~L~p-------s--------~~a~~~lG~~~~~~G~~~eA~~~~~~A~  480 (517)
T PRK10153        423 YEILAVQALVKGKTDEAYQAINKAIDLEM-------S--------WLNYVLLGKVYELKGDNRLAADAYSTAF  480 (517)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCC-------C--------HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34455666667999999999999887651       1        4567889999999999999999999998

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=85.95  E-value=5.6  Score=42.85  Aligned_cols=108  Identities=15%  Similarity=0.097  Sum_probs=65.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH----HHHHHhhcCCCCCchhh---HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          283 GDLKYYGGDLQAARSYYVRSLN----VRRDAVKRHSNVPSQVL---DVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE  355 (392)
Q Consensus       283 g~l~~~~g~l~~A~~~~e~aL~----i~~~~~~~~~~~~~~~~---dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile  355 (392)
                      ..-....+|.+.|++||+++=.    +.|-+ .+.+....+-+   ---..+.|-|.-.+..|+.+.|+.+|..|.+.+-
T Consensus       865 A~~Lear~Di~~AleyyEK~~~hafev~rmL-~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~fs  943 (1416)
T KOG3617|consen  865 AKYLEARRDIEAALEYYEKAGVHAFEVFRML-KEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDYFS  943 (1416)
T ss_pred             HHHHHhhccHHHHHHHHHhcCChHHHHHHHH-HhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhhhh
Confidence            3444466889999999999643    33222 22221111111   0135577889999999999999999999999887


Q ss_pred             Hh------hcCCCchhHHHhhcchh-------HHHHHHhhhccccchhc
Q 016262          356 SL------TLKPEEAGLEQRCWNSS-------TTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       356 ~l------~~~~~~a~l~~~~~~~~-------~~~~l~~~~~~l~~~~~  391 (392)
                      .+      ..-...+.+.+-.+...       .|...++..+|+.+|-.
T Consensus       944 ~VrI~C~qGk~~kAa~iA~esgd~AAcYhlaR~YEn~g~v~~Av~FfTr  992 (1416)
T KOG3617|consen  944 MVRIKCIQGKTDKAARIAEESGDKAACYHLARMYENDGDVVKAVKFFTR  992 (1416)
T ss_pred             heeeEeeccCchHHHHHHHhcccHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            76      11112222332222221       46677777788877754

>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=85.78  E-value=0.32  Score=52.32  Aligned_cols=43  Identities=28%  Similarity=0.861  Sum_probs=34.4

Q ss_pred             ceeccccccccc------cCceecccCcHhHHHhHHhcC------CCCCCCcCCc
Q 016262           89 PLSCMICQALLF------ECSKCTPCSHVYCKACISRFK------DCPLCGADIE  131 (392)
Q Consensus        89 ~~~C~iC~~~~~------~~p~~~~C~h~fC~~Ci~~~~------~CP~C~~~~~  131 (392)
                      .-.|+||-.++.      ...++..|.|.|-..|+-.|+      .||+||..++
T Consensus      1469 ~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1469 HEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             cchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            467999998765      135667799999999999994      4999997654

>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins

Probab=85.66  E-value=0.88  Score=31.08  Aligned_cols=37  Identities=24%  Similarity=0.644  Sum_probs=27.6

Q ss_pred             ecccccccc-ccCceecccC-----cHhHHHhHHhcC------CCCCCC
Q 016262           91 SCMICQALL-FECSKCTPCS-----HVYCKACISRFK------DCPLCG  127 (392)
Q Consensus        91 ~C~iC~~~~-~~~p~~~~C~-----h~fC~~Ci~~~~------~CP~C~  127 (392)
                      .|.||++.. .+.+.+.||.     |.+=..|+.+|.      .||+|+
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            488999721 2268889985     677889999993      499985

Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class

>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=85.62  E-value=25  Score=31.11  Aligned_cols=95  Identities=11%  Similarity=0.048  Sum_probs=57.6

Q ss_pred             HHHHHHHHHHHhcC---CHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGG---DLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       277 ~~l~~lg~l~~~~g---~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      +.+.+-|.....+.   .-.+++..|++++...++++.-.+..-.....+++.+..+|.   ...+..+|.++|++|..-
T Consensus        26 dnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~---l~~d~~~A~~~F~kA~~~  102 (186)
T PF06552_consen   26 DNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAF---LTPDTAEAEEYFEKATEY  102 (186)
T ss_dssp             HHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHH---H---HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHh---hcCChHHHHHHHHHHHHH
Confidence            34555555555543   345677888888888888877777654444444444444443   124456888888888888


Q ss_pred             HHHh-hcCCCchhHHHhhcchh
Q 016262          354 LESL-TLKPEEAGLEQRCWNSS  374 (392)
Q Consensus       354 le~l-~~~~~~a~l~~~~~~~~  374 (392)
                      ++.- ..+|.+......+...+
T Consensus       103 FqkAv~~~P~ne~Y~ksLe~~~  124 (186)
T PF06552_consen  103 FQKAVDEDPNNELYRKSLEMAA  124 (186)
T ss_dssp             HHHHHHH-TT-HHHHHHHHHHH
T ss_pred             HHHHHhcCCCcHHHHHHHHHHH
Confidence            8887 78888877666665543

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.

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=85.21  E-value=0.77  Score=43.04  Aligned_cols=42  Identities=26%  Similarity=0.706  Sum_probs=29.7

Q ss_pred             eccccccccccCc----eecccCcHhHHHhHHhcC-----CCCCCCcCCcc
Q 016262           91 SCMICQALLFECS----KCTPCSHVYCKACISRFK-----DCPLCGADIEK  132 (392)
Q Consensus        91 ~C~iC~~~~~~~p----~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~  132 (392)
                      .||+|.-.-.-.|    .+-+|+|..|.+|+...+     .||.|...+..
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk   52 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRK   52 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhh
Confidence            4888875322222    233899999999998875     49999876654

>smart00028 TPR Tetratricopeptide repeats

Probab=85.10  E-value=1.2  Score=25.27  Aligned_cols=28  Identities=18%  Similarity=0.361  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          326 SLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       326 sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      .+.++|.++..+|++++|+..|++++++
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~~   30 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALEL   30 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            4567899999999999999999998865

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.

>PLN02789 farnesyltranstransferase

Probab=84.94  E-value=4.1  Score=39.50  Aligned_cols=39  Identities=8%  Similarity=0.021  Sum_probs=22.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcc
Q 016262          328 AKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       328 ~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~  372 (392)
                      .+.+.+...+|.+++|+++++++|      ..++.+...-..++.
T Consensus       146 ~~R~w~l~~l~~~~eeL~~~~~~I------~~d~~N~sAW~~R~~  184 (320)
T PLN02789        146 SHRQWVLRTLGGWEDELEYCHQLL------EEDVRNNSAWNQRYF  184 (320)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHH------HHCCCchhHHHHHHH
Confidence            335566677777777777777665      334555444433433

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=84.87  E-value=3.3  Score=45.52  Aligned_cols=65  Identities=12%  Similarity=0.150  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      .++..++..|..+|+.++|...|++.|++-       +++       +..|+++|..+... ++++|+.++.+|+.++=.
T Consensus       117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-------~~n-------~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i~  181 (906)
T PRK14720        117 LALRTLAEAYAKLNENKKLKGVWERLVKAD-------RDN-------PEIVKKLATSYEEE-DKEKAITYLKKAIYRFIK  181 (906)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-------ccc-------HHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHHh
Confidence            367788899999999999999999988764       222       67799999999999 999999999999887543

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=84.75  E-value=13  Score=36.87  Aligned_cols=118  Identities=17%  Similarity=0.126  Sum_probs=75.7

Q ss_pred             cccccccccccchhHHHhHHHHHHHHHHhCCCCc----hHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q 016262          235 GMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDD----LEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAV  310 (392)
Q Consensus       235 ~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~----~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~  310 (392)
                      +..|...+..|++..|...|+.+...+.--....    .......-....||...+..++++.+|+....+.|.+     
T Consensus       212 ke~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~-----  286 (397)
T KOG0543|consen  212 KERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLEL-----  286 (397)
T ss_pred             HHhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhc-----
Confidence            3344444577788777777776644443221111    2223334456778888888889999999888887754     


Q ss_pred             hcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcc
Q 016262          311 KRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       311 ~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~  372 (392)
                        .+.+       ...|=.-|.++..+|+++.|+..|++++      ...|.+..+..-+..
T Consensus       287 --~~~N-------~KALyRrG~A~l~~~e~~~A~~df~ka~------k~~P~Nka~~~el~~  333 (397)
T KOG0543|consen  287 --DPNN-------VKALYRRGQALLALGEYDLARDDFQKAL------KLEPSNKAARAELIK  333 (397)
T ss_pred             --CCCc-------hhHHHHHHHHHHhhccHHHHHHHHHHHH------HhCCCcHHHHHHHHH
Confidence              3333       3445566788888999999999998887      455665554444433

>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]

Probab=84.17  E-value=0.75  Score=43.81  Aligned_cols=42  Identities=21%  Similarity=0.507  Sum_probs=32.0

Q ss_pred             CceeccccccccccCceecc-cCcHhHHHhHHhc----CCCCCCCcCC
Q 016262           88 GPLSCMICQALLFECSKCTP-CSHVYCKACISRF----KDCPLCGADI  130 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~-C~h~fC~~Ci~~~----~~CP~C~~~~  130 (392)
                      +.-.||+|+.--. .|.++. -|.+||..||-.+    ..||.-+.+.
T Consensus       299 ~~~~CpvClk~r~-Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  299 DREVCPVCLKKRQ-NPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             ccccChhHHhccC-CCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            4578999999966 555555 5999999999776    4599866543

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=84.00  E-value=10  Score=34.46  Aligned_cols=93  Identities=17%  Similarity=0.028  Sum_probs=67.4

Q ss_pred             CCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh---hcC----CC
Q 016262          290 GDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL---TLK----PE  362 (392)
Q Consensus       290 g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l---~~~----~~  362 (392)
                      ..++.|+..|.-||-......+. .      ..+|...-+++=+++.+|+.+....++++|++.+++.   ...    -.
T Consensus        91 Rt~~~ai~~YkLAll~~~~~~~~-~------s~~A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~  163 (214)
T PF09986_consen   91 RTLEEAIESYKLALLCAQIKKEK-P------SKKAGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMD  163 (214)
T ss_pred             CCHHHHHHHHHHHHHHHHHhCCC-H------HHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCch
Confidence            46788888888777654332211 1      1556667788889999999999999999999999987   222    23


Q ss_pred             chhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          363 EAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       363 ~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      ...++-+++.  +.-.++++.+|+.+|..
T Consensus       164 ~~~l~YLige--L~rrlg~~~eA~~~fs~  190 (214)
T PF09986_consen  164 EATLLYLIGE--LNRRLGNYDEAKRWFSR  190 (214)
T ss_pred             HHHHHHHHHH--HHHHhCCHHHHHHHHHH
Confidence            3456777777  77899999999988753

>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=83.97  E-value=0.44  Score=35.38  Aligned_cols=42  Identities=24%  Similarity=0.605  Sum_probs=29.6

Q ss_pred             eeccccccccccCceec-ccCcHhHHHhHHhcC-------CCCCCCcCCc
Q 016262           90 LSCMICQALLFECSKCT-PCSHVYCKACISRFK-------DCPLCGADIE  131 (392)
Q Consensus        90 ~~C~iC~~~~~~~p~~~-~C~h~fC~~Ci~~~~-------~CP~C~~~~~  131 (392)
                      -.||-|.-.=-|.|.++ -|.|.|=..||.+|.       .||.||+.+.
T Consensus        32 g~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   32 GCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            35666665433335544 499999999999994       3999998653

>PF04212 MIT: MIT (microtubule interacting and transport) domain; InterPro: IPR007330 The MIT domain is found in vacuolar sorting proteins, spastin (probable ATPase involved in the assembly or function of nuclear protein complexes), and a sorting nexin, which may play a role in intracellular trafficking

Probab=83.93  E-value=3.9  Score=29.83  Aligned_cols=35  Identities=31%  Similarity=0.317  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          323 VAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       323 la~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      -|..+.+.|.-....|++++|+.+|.++++.+...
T Consensus         4 ~A~~~~~~Av~~D~~g~~~~A~~~Y~~ai~~l~~~   38 (69)
T PF04212_consen    4 KAIELIKKAVEADEAGNYEEALELYKEAIEYLMQA   38 (69)
T ss_dssp             HHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence            35556667777788999999999999999999998

; PDB: 2DL1_A 2JQK_A 1WR0_A 2CPT_A 2JQH_A 2V6Y_A 2JQ9_A 2K3W_A 1YXR_A 3EAB_E ....

>PRK14574 hmsH outer membrane protein; Provisional

Probab=83.90  E-value=16  Score=40.27  Aligned_cols=89  Identities=12%  Similarity=0.052  Sum_probs=51.7

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCCh-HHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCc
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTS-ELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDD  268 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~-~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~  268 (392)
                      ++..++.|+++.|...|..+.+       ..+.+. .+- .+...+.       ..|+...|+.+.+.+.      ....
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~-------~~P~~~~av~-dll~l~~-------~~G~~~~A~~~~eka~------~p~n   99 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESK-------AGPLQSGQVD-DWLQIAG-------WAGRDQEVIDVYERYQ------SSMN   99 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHh-------hCccchhhHH-HHHHHHH-------HcCCcHHHHHHHHHhc------cCCC
Confidence            5678999999999888875532       222221 111 2222211       3466677777776554      1111


Q ss_pred             hHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          269 LEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLN  304 (392)
Q Consensus       269 ~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~  304 (392)
                      ..     ...+..++.++...|++++|+..|+++++
T Consensus       100 ~~-----~~~llalA~ly~~~gdyd~Aiely~kaL~  130 (822)
T PRK14574        100 IS-----SRGLASAARAYRNEKRWDQALALWQSSLK  130 (822)
T ss_pred             CC-----HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            11     12344557788888888888888887664

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

Probab=83.65  E-value=5.1  Score=43.32  Aligned_cols=90  Identities=16%  Similarity=0.108  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+.++.+++...|.+.+|+.+|...+       .....+.      +...-++|..+..+|.++.|++.|+.++     
T Consensus       415 dL~~d~a~al~~~~~~~~Al~~l~~i~-------~~~~~~~------~~vw~~~a~c~~~l~e~e~A~e~y~kvl-----  476 (895)
T KOG2076|consen  415 DLYLDLADALTNIGKYKEALRLLSPIT-------NREGYQN------AFVWYKLARCYMELGEYEEAIEFYEKVL-----  476 (895)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHh-------cCccccc------hhhhHHHHHHHHHHhhHHHHHHHHHHHH-----
Confidence            445566667777777778887776543       2222221      4445567778888888888888887766     


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhcccc
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLP  387 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~  387 (392)
                       .+.|+.-..+-.+++  ++.-+++..+|++
T Consensus       477 -~~~p~~~D~Ri~Las--l~~~~g~~EkalE  504 (895)
T KOG2076|consen  477 -ILAPDNLDARITLAS--LYQQLGNHEKALE  504 (895)
T ss_pred             -hcCCCchhhhhhHHH--HHHhcCCHHHHHH
Confidence             455555555555555  6666666666654

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=83.49  E-value=4.1  Score=40.69  Aligned_cols=62  Identities=19%  Similarity=0.195  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRL  354 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~il  354 (392)
                      ..--+|.+....+++++|+.+|++++++.       +.        ....-.++.++..+|+.++|..+|++++.+.
T Consensus       330 l~l~lgrl~~~~~~~~~A~~~le~al~~~-------P~--------~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~  391 (398)
T PRK10747        330 LWSTLGQLLMKHGEWQEASLAFRAALKQR-------PD--------AYDYAWLADALDRLHKPEEAAAMRRDGLMLT  391 (398)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhcC-------CC--------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence            34456888888999999999999988652       22        2234578999999999999999999998754

>KOG1839 consensus Uncharacterized protein CLU1/cluA/TIF31 involved in mitochondrial morphology/distribution, also found associated with eIF-3 [General function prediction only]

Probab=83.09  E-value=2.4  Score=47.49  Aligned_cols=115  Identities=14%  Similarity=0.015  Sum_probs=91.4

Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 016262          270 EIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQE  349 (392)
Q Consensus       270 e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~  349 (392)
                      .++..+...+..|..+++.+|++++|+.+-.++.-+.+.....+..      +......+++......++...|+.-+..
T Consensus       967 ~~h~~~~~~~~~La~l~~~~~d~~~Ai~~~~ka~ii~eR~~g~ds~------~t~~~y~nlal~~f~~~~~~~al~~~~r 1040 (1236)
T KOG1839|consen  967 VLHPEVASKYRSLAKLSNRLGDNQEAIAQQRKACIISERVLGKDSP------NTKLAYGNLALYEFAVKNLSGALKSLNR 1040 (1236)
T ss_pred             hcchhHHHHHHHHHHHHhhhcchHHHHHhcccceeeechhccCCCH------HHHHHhhHHHHHHHhccCccchhhhHHH
Confidence            4566777788889999999999999999888888777766555544      3466667778777777888888888888


Q ss_pred             HHHHHHHh--hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          350 AIKRLESL--TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       350 al~ile~l--~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ++.+.--.  +.||.-+.+-.++..  +++.++++.-+|.|-++|
T Consensus      1041 a~~l~~Ls~ge~hP~~a~~~~nle~--l~~~v~e~d~al~~le~A 1083 (1236)
T KOG1839|consen 1041 ALKLKLLSSGEDHPPTALSFINLEL--LLLGVEEADTALRYLESA 1083 (1236)
T ss_pred             HHHhhccccCCCCCchhhhhhHHHH--HHhhHHHHHHHHHHHHHH
Confidence            88777665  778998888888888  888999999999888765

>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=82.84  E-value=4.1  Score=34.10  Aligned_cols=98  Identities=16%  Similarity=0.126  Sum_probs=58.3

Q ss_pred             HHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhH--------HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          286 KYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLD--------VAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       286 ~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~d--------la~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      ....++.+.++..+++++.+.+.-.=.......+...        ....+..++..+...|++++|+..+++++      
T Consensus        16 ~~~~~~~~~~~~~~~~al~ly~G~~l~~~~~~~W~~~~r~~l~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l------   89 (146)
T PF03704_consen   16 AARAGDPEEAIELLEEALALYRGDFLPDLDDEEWVEPERERLRELYLDALERLAEALLEAGDYEEALRLLQRAL------   89 (146)
T ss_dssp             HHHTT-HHHHHHHHHHHHTT--SSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHH------
T ss_pred             HHHCCCHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHH------
Confidence            3445677888888888888765422111111223322        23334445666667777777777666555      


Q ss_pred             hcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          358 TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       358 ~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      ..+|-+..+-..+..  .+...+++..|+..|++
T Consensus        90 ~~dP~~E~~~~~lm~--~~~~~g~~~~A~~~Y~~  121 (146)
T PF03704_consen   90 ALDPYDEEAYRLLMR--ALAAQGRRAEALRVYER  121 (146)
T ss_dssp             HHSTT-HHHHHHHHH--HHHHTT-HHHHHHHHHH
T ss_pred             hcCCCCHHHHHHHHH--HHHHCcCHHHHHHHHHH
Confidence            677888777777777  78888888888888874

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>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=82.24  E-value=3.7  Score=29.14  Aligned_cols=50  Identities=16%  Similarity=0.133  Sum_probs=33.5

Q ss_pred             hcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          288 YGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       288 ~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      ..|++++|+..|+++++.       .+.+       ....-.++.++..+|++++|...+++.+
T Consensus         3 ~~~~~~~A~~~~~~~l~~-------~p~~-------~~~~~~la~~~~~~g~~~~A~~~l~~~~   52 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQR-------NPDN-------PEARLLLAQCYLKQGQYDEAEELLERLL   52 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHH-------TTTS-------HHHHHHHHHHHHHTT-HHHHHHHHHCCH
T ss_pred             hccCHHHHHHHHHHHHHH-------CCCC-------HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            357777777777766643       4443       3344578899999999998887666544

...

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=81.95  E-value=34  Score=34.75  Aligned_cols=117  Identities=15%  Similarity=0.095  Sum_probs=64.5

Q ss_pred             HHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCH
Q 016262          213 IRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDL  292 (392)
Q Consensus       213 ~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l  292 (392)
                      +.+++...+++..+-...++++.       ..++.++|...++.+.    .+.+...-++       -+++..+...|+.
T Consensus       329 l~~L~~~~P~N~~~~~~~~~i~~-------~~nk~~~A~e~~~kal----~l~P~~~~l~-------~~~a~all~~g~~  390 (484)
T COG4783         329 LQPLIAAQPDNPYYLELAGDILL-------EANKAKEAIERLKKAL----ALDPNSPLLQ-------LNLAQALLKGGKP  390 (484)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHH-------HcCChHHHHHHHHHHH----hcCCCccHHH-------HHHHHHHHhcCCh
Confidence            34456666666654444444332       4555567766655442    3333333333       4556666666666


Q ss_pred             HHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHH----------HHHHHHhcCCHHHHHHHHHHHHHHH
Q 016262          293 QAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAK----------VADVDRSIGNEDVAVDGFQEAIKRL  354 (392)
Q Consensus       293 ~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~----------l~~v~~~lg~~~~A~~~~~~al~il  354 (392)
                      .+|+       .+........++.+..-.-+|.+...          .++.+...|++++|+.++..+.+..
T Consensus       391 ~eai-------~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~~G~~~~A~~~l~~A~~~~  455 (484)
T COG4783         391 QEAI-------RILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYALAGRLEQAIIFLMRASQQV  455 (484)
T ss_pred             HHHH-------HHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhc
Confidence            6544       44445555666665444344444433          3456666788888888777776554

>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=81.33  E-value=1.6  Score=31.14  Aligned_cols=48  Identities=13%  Similarity=0.045  Sum_probs=34.0

Q ss_pred             hcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          336 SIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       336 ~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      ..|++++|+..|++++      ...|.+..+.-.++.  ++-..+++.+|..++++
T Consensus         3 ~~~~~~~A~~~~~~~l------~~~p~~~~~~~~la~--~~~~~g~~~~A~~~l~~   50 (68)
T PF14559_consen    3 KQGDYDEAIELLEKAL------QRNPDNPEARLLLAQ--CYLKQGQYDEAEELLER   50 (68)
T ss_dssp             HTTHHHHHHHHHHHHH------HHTTTSHHHHHHHHH--HHHHTT-HHHHHHHHHC
T ss_pred             hccCHHHHHHHHHHHH------HHCCCCHHHHHHHHH--HHHHcCCHHHHHHHHHH
Confidence            3566667766666655      567788877777777  78888888888777664

...

>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=81.07  E-value=0.42  Score=32.85  Aligned_cols=40  Identities=20%  Similarity=0.433  Sum_probs=19.8

Q ss_pred             eeccccccccccCceecccCcHhHHHhH--------HhcCCCCCCCcC
Q 016262           90 LSCMICQALLFECSKCTPCSHVYCKACI--------SRFKDCPLCGAD  129 (392)
Q Consensus        90 ~~C~iC~~~~~~~p~~~~C~h~fC~~Ci--------~~~~~CP~C~~~  129 (392)
                      |.||+-...+..+.+...|.|.-|..=.        ...|.||.|+++
T Consensus         3 L~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence            7899999988866777889998664221        112789999763

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.

>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=80.88  E-value=21  Score=31.42  Aligned_cols=76  Identities=20%  Similarity=0.227  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 016262          271 IIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEA  350 (392)
Q Consensus       271 ~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~a  350 (392)
                      ....+...+..+++.+...|++++|+..|.++.+-        ...+...+|+..   ++-.|.-.+|++..+..+.+++
T Consensus        31 ~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~--------~~~~~~~id~~l---~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   31 GKESIRMALEDLADHYCKIGDLEEALKAYSRARDY--------CTSPGHKIDMCL---NVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             chHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhh--------cCCHHHHHHHHH---HHHHHHHHhCCHHHHHHHHHHH
Confidence            46677889999999999999999999999875542        112222334332   3334455668888888888888


Q ss_pred             HHHHHHh
Q 016262          351 IKRLESL  357 (392)
Q Consensus       351 l~ile~l  357 (392)
                      ..+++.-
T Consensus       100 ~~~~~~~  106 (177)
T PF10602_consen  100 ESLIEKG  106 (177)
T ss_pred             HHHHhcc
Confidence            7777763

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.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=80.78  E-value=3  Score=24.80  Aligned_cols=27  Identities=33%  Similarity=0.458  Sum_probs=23.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          326 SLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       326 sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      ++=++|.++..+|++++|+..|++.++
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            355788999999999999999998775

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	392
2h0d_A	97	Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquiti		3e-06
3rpg_B	117	Bmi1RING1B-Ubch5c Complex Structure Length = 117		4e-06
2ckl_A	108	Ring1b-Bmi1 E3 Catalytic Domain Structure Length =		5e-06

>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin Ligase Complex Length = 97

Iteration: 1
 Score = 49.7 bits (117), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 35/70 (50%), Gaps = 10/70 (14%)
Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEK------IEADTTL 139
           L C++C     + +    C H +CK CI R+    K CP+C   + K      I +D TL
Sbjct: 12  LMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTL 71
Query: 140 QDVVDRFIEG 149
           QD+V + + G
Sbjct: 72  QDIVYKLVPG 81

>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure Length = 117

Iteration: 1
 Score = 49.3 bits (116), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 35/70 (50%), Gaps = 10/70 (14%)
Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEK------IEADTTL 139
           L C++C     + +    C H +CK CI R+    K CP+C   + K      I +D TL
Sbjct: 16  LMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTL 75
Query: 140 QDVVDRFIEG 149
           QD+V + + G
Sbjct: 76  QDIVYKLVPG 85

>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure Length = 108

Iteration: 1
 Score = 48.9 bits (115), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 35/70 (50%), Gaps = 10/70 (14%)
Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEK------IEADTTL 139
           L C++C     + +    C H +CK CI R+    K CP+C   + K      I +D TL
Sbjct: 16  LMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTL 75
Query: 140 QDVVDRFIEG 149
           QD+V + + G
Sbjct: 76  QDIVYKLVPG 85

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	392
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	9e-14
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-04
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	3e-10
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	1e-09
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	2e-05
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-09
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-09
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	5e-09
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	4e-06
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	4e-06
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	1e-04
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	8e-04
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	8e-09
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	1e-07
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	3e-06
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	3e-06
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	7e-06
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	4e-05
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	6e-04
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	1e-08
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	6e-07
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	9e-06
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	1e-05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-08
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-08
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	3e-08
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	4e-08
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	3e-07
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	3e-07
1z6u_A	150	NP95-like ring finger protein isoform B; structura	3e-07
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	4e-07
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	5e-07
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	6e-07
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	8e-07
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	3e-06
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	5e-06
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	2e-05
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	9e-06
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	1e-05
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	9e-06
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	9e-06
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	1e-05
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-05
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	2e-05
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	2e-05
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	4e-05
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	2e-04
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	2e-04
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	4e-05
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	5e-05
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	5e-05
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	5e-05
3nw0_A	238	Non-structural maintenance of chromosomes element	7e-05
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-04
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	1e-04
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	2e-04
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	2e-04
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	2e-04
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	3e-04
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	4e-04
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	5e-04
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	6e-04
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	8e-04
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	8e-04

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A Length = 108

 Score = 66.0 bits (161), Expect = 9e-14
 Identities = 22/70 (31%), Positives = 34/70 (48%), Gaps = 10/70 (14%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADI------EKIEADTTL 139
           L C++C     + +    C H +CK CI R+    K CP+C   +        I +D TL
Sbjct: 16  LMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTL 75

Query: 140 QDVVDRFIEG 149
           QD+V + + G
Sbjct: 76  QDIVYKLVPG 85

>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 = 63.7 bits (154), Expect = 5e-11
 Identities = 50/364 (13%), Positives = 103/364 (28%), Gaps = 110/364 (30%)

Query: 129 DIEKIEADTTLQDVVDRFIEGHARIKRSHTNSDKEEDEAG-----ENKKVIYEDVSMERG 183
           D E  E     +D++  F +       +    D ++         E   +I    ++   
Sbjct: 8   DFETGEHQYQYKDILSVFED---AFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGT 64

Query: 184 AFL-----------VQQAMRAFRAQNVESAKSRL-------SLCTEDIRDQIERMGNTS- 224
             L           VQ+ +      N +   S +       S+ T    +Q +R+ N + 
Sbjct: 65  LRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ 124

Query: 225 ---------------------ELCSQLGAVL-GMLG--------DCCRAMGDADAAVAYF 254
                                EL      ++ G+LG        D C     +       
Sbjct: 125 VFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCL----SYKVQCKM 180

Query: 255 ADSVEFLMKL-----PMDDLEIIHTLSVSLNK---------------IGDLKYYGGDLQA 294
              + F + L     P   LE++  L   ++                I  ++     L  
Sbjct: 181 DFKI-FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239

Query: 295 ARSYYVRSL----NVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEA 350
           ++  Y   L    NV+        N+  ++L +     +V D   +     +++D     
Sbjct: 240 SKP-YENCLLVLLNVQNAKAWNAFNLSCKIL-LTTRFKQVTDFLSAATTTHISLDHHSMT 297

Query: 351 IKRLESLTL--K---------PEEA-----------GLEQRCWNSSTTNFQKNHLNQLPK 388
           +   E  +L  K         P E                R   ++  N++  + ++L  
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT 357

Query: 389 FRSA 392
              +
Sbjct: 358 IIES 361

>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 = 51.0 bits (121), Expect = 5e-07
 Identities = 57/436 (13%), Positives = 116/436 (26%), Gaps = 134/436 (30%)

Query: 17  PRKPGENSNKYPAEC---------PFSK---ARPDDAAS-RKAVENSAKPQAE---HDGD 60
            R+P   +  Y  E           F+K   +R       R+A+    +P        G 
Sbjct: 102 QRQPSMMTRMY-IEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE-LRPAKNVLID-GV 158

Query: 61  KA--KS----DSMDSASIPPKCPFGYDAQSF--KIG----PLSCM-ICQALL--FECSKC 105
               K+    D   S  +  K  F      F   +     P + + + Q LL   + +  
Sbjct: 159 LGSGKTWVALDVCLSYKVQCKMDFKI----FWLNLKNCNSPETVLEMLQKLLYQIDPNWT 214

Query: 106 TPCSHVY--------CKACISRF------KDCPLCGADIEKIEADTTLQDV-----VDRF 146
           +   H           +A + R       ++C L       +     L +V      + F
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL-------V-----LLNVQNAKAWNAF 262

Query: 147 IEGHARIKRSHTNSDKEEDEAGENKKVIYEDVSMERGAFLVQQAMRAFRAQNVESAKSRL 206
                +I    T   K+  +        +  +          +       + ++     L
Sbjct: 263 -NLSCKILL--TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL-LKYLDCRPQDL 318

Query: 207 SLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPM 266
                             E+ +     L ++ +  R              + +    +  
Sbjct: 319 P----------------REVLTTNPRRLSIIAESIRDG----------LATWDNWKHVNC 352

Query: 267 DDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVL----- 321
           D L     +  SLN +   +Y        R  +   L+V   +     ++P+ +L     
Sbjct: 353 DKLT--TIIESSLNVLEPAEY--------RKMF-DRLSVFPPSA----HIPTILLSLIWF 397

Query: 322 --------DVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNS 373
                    V   L K + V++      +++         LE       E  L +   + 
Sbjct: 398 DVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIY-----LELKVKLENEYALHRSIVDH 452

Query: 374 --STTNFQKNHLNQLP 387
                 F  + L    
Sbjct: 453 YNIPKTFDSDDLIPPY 468

>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 = 41.4 bits (96), Expect = 5e-04
 Identities = 43/337 (12%), Positives = 93/337 (27%), Gaps = 99/337 (29%)

Query: 62  AKSDSMDSASIPPKCPFGYDAQSFKIGPLSCMICQALL---------FECSKCTPCSHVY 112
            K        +P         +     P    I    +         ++   C   + + 
Sbjct: 308 LKYLDCRPQDLPR--------EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTII 359

Query: 113 CKACIS---------RFKDCPLCGADIEKIEADT-----------TLQDVVDRFIEGHAR 152
            ++ ++          F    +       I                +  VV++       
Sbjct: 360 -ESSLNVLEPAEYRKMFDRLSVFPPSA-HIPTILLSLIWFDVIKSDVMVVVNKLH----- 412

Query: 153 IKRSHTNSDKEEDEAGENKKVIYEDVSMERGAFLVQQA--MRAFRAQNVESAKSRLSLCT 210
            K S      +E     +   I   + +E    L  +     A     V+      +  +
Sbjct: 413 -KYSLVEKQPKE-----STISIP-SIYLE----LKVKLENEYALHRSIVDHYNIPKTFDS 461

Query: 211 EDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDD-- 268
           +D+              S +G            + + +       + +     + +D   
Sbjct: 462 DDLIPPYLDQ----YFYSHIG----------HHLKNIEHP-----ERMTLFRMVFLDFRF 502

Query: 269 LE--IIHT------LSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSN--VPS 318
           LE  I H           LN +  LK+Y   +      Y R +N   D + +     + S
Sbjct: 503 LEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICS 562

Query: 319 QVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE 355
           +  D+         +  ++  ED A+  F+EA K+++
Sbjct: 563 KYTDL---------LRIALMAEDEAI--FEEAHKQVQ 588

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens} Length = 99

 Score = 55.9 bits (135), Expect = 3e-10
 Identities = 21/88 (23%), Positives = 31/88 (35%), Gaps = 10/88 (11%)

Query: 65  DSMDSASIPPKCPFGYDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISRF---- 120
           DS+  +  PP               L C IC            CSH YC  CI +F    
Sbjct: 2   DSLAESRWPPGLAVMKTIDDL----LRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYK 57

Query: 121 KDCPLCGADIEK--IEADTTLQDVVDRF 146
             CP C   + +  ++ +  L ++V   
Sbjct: 58  TQCPTCCVTVTEPDLKNNRILDELVKSL 85

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1} Length = 203

 Score = 56.5 bits (137), Expect = 1e-09
 Identities = 24/134 (17%), Positives = 47/134 (35%), Gaps = 12/134 (8%)

Query: 231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGG 290
                MLG     M   D A A F    +   K    D    H    +L+++G ++   G
Sbjct: 26  SGARFMLGYVYAFMDRFDEARASFQALQQQAQKS--GDHTAEHR---ALHQVGMVERMAG 80

Query: 291 DLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEA 350
           +  AAR  ++    +     +         L  + +  +VA V    G+   A   ++++
Sbjct: 81  NWDAARRCFLEERELLASLPEDP-------LAASANAYEVATVALHFGDLAGARQEYEKS 133

Query: 351 IKRLESLTLKPEEA 364
           +   +    +   A
Sbjct: 134 LVYAQQADDQVAIA 147

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1} Length = 203

 Score = 43.8 bits (104), Expect = 2e-05
 Identities = 17/122 (13%), Positives = 42/122 (34%), Gaps = 20/122 (16%)

Query: 225 ELCSQLG-------AVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSV 277
           EL + L        A    +       GD   A   +  S+ +  +   DD      ++ 
Sbjct: 94  ELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQA--DDQ---VAIAC 148

Query: 278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSI 337
           +   +GDL     +L  A+ +++R+ ++  +              V   + ++  ++   
Sbjct: 149 AFRGLGDLAQQEKNLLEAQQHWLRARDIFAELEDSE--------AVNELMTRLNGLEHHH 200

Query: 338 GN 339
            +
Sbjct: 201 HH 202

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 72

 Score = 52.8 bits (127), Expect = 2e-09
 Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 4/47 (8%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEK 132
           + C IC+  L + +  T C H +CK+CI R       CP C   + +
Sbjct: 16  ILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQ 62

>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase, protein binding complex; 4.80A {Homo sapiens} Length = 149

 Score = 54.7 bits (131), Expect = 2e-09
 Identities = 18/82 (21%), Positives = 33/82 (40%), Gaps = 5/82 (6%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD----CPLCGADIEKIEADTTLQDVVDR 145
           L C+IC     E      C+H +C  CI+ +      CP+C  DI+       L + +++
Sbjct: 65  LQCIICSEYFIEAV-TLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNCINK 123

Query: 146 FIEGHARIKRSHTNSDKEEDEA 167
            +   +   +        E +A
Sbjct: 124 MVNNLSSEVKERRIVLIRERKA 145

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens} Length = 406

 Score = 56.5 bits (137), Expect = 5e-09
 Identities = 28/131 (21%), Positives = 51/131 (38%), Gaps = 15/131 (11%)

Query: 234 LGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQ 293
           L + G+     GD  A V++F  +      + +   E + TLS   +++G+  +Y  D  
Sbjct: 12  LALEGERLCKSGDCRAGVSFFEAA------VQVGT-EDLKTLSAIYSQLGNAYFYLHDYA 64

Query: 294 AARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR 353
            A  Y+   L + R    +           A +   + +  + +GN D A+   Q  +  
Sbjct: 65  KALEYHHHDLTLARTIGDQL--------GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDI 116

Query: 354 LESLTLKPEEA 364
              L  K  EA
Sbjct: 117 SRELNDKVGEA 127

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens} Length = 406

 Score = 47.7 bits (114), Expect = 4e-06
 Identities = 19/134 (14%), Positives = 49/134 (36%), Gaps = 13/134 (9%)

Query: 231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGG 290
                 LG+    +G+ + A  Y+  ++   +   + D       + S   +G+      
Sbjct: 227 RRAYSNLGNAYIFLGEFETASEYYKKTLL--LARQLKDR---AVEAQSCYSLGNTYTLLQ 281

Query: 291 DLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEA 350
           D + A  Y+++ L + ++   R             +   + +   ++GN D A+   ++ 
Sbjct: 282 DYEKAIDYHLKHLAIAQELNDRI--------GEGRACWSLGNAYTALGNHDQAMHFAEKH 333

Query: 351 IKRLESLTLKPEEA 364
           ++    +  K  E 
Sbjct: 334 LEISREVGDKSGEL 347

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens} Length = 406

 Score = 47.3 bits (113), Expect = 4e-06
 Identities = 25/148 (16%), Positives = 47/148 (31%), Gaps = 27/148 (18%)

Query: 229 QLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYY 288
            L A+   LG+    + D   A+ Y    +     +  D L      + +   +G+    
Sbjct: 45  TLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIG-DQLGE----AKASGNLGNTLKV 99

Query: 289 GGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAV---- 344
            G+   A     R L++ R+   +           A +L  + +V  + G          
Sbjct: 100 LGNFDEAIVCCQRHLDISRELNDKV--------GEARALYNLGNVYHAKGKSFGCPGPQD 151

Query: 345 ---------DGFQEAIKRLE-SLTLKPE 362
                    D  Q A+   E +L+L   
Sbjct: 152 VGEFPEEVRDALQAAVDFYEENLSLVTA 179

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens} Length = 406

 Score = 43.1 bits (102), Expect = 1e-04
 Identities = 17/149 (11%), Positives = 44/149 (29%), Gaps = 23/149 (15%)

Query: 231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDD---------LEIIHTL------ 275
              L  LG+   A G +                              L ++  L      
Sbjct: 127 ARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQ 186

Query: 276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDR 335
             +   +G+  Y  G+ + A   + + L + ++   +             + + + +   
Sbjct: 187 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKA--------AERRAYSNLGNAYI 238

Query: 336 SIGNEDVAVDGFQEAIKRLESLTLKPEEA 364
            +G  + A + +++ +     L  +  EA
Sbjct: 239 FLGEFETASEYYKKTLLLARQLKDRAVEA 267

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens} Length = 406

 Score = 40.4 bits (95), Expect = 8e-04
 Identities = 11/88 (12%), Positives = 34/88 (38%), Gaps = 10/88 (11%)

Query: 277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRS 336
           + L   G+     GD +A  S++  ++ V  + +K           ++   +++ +    
Sbjct: 10  LELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLK----------TLSAIYSQLGNAYFY 59

Query: 337 IGNEDVAVDGFQEAIKRLESLTLKPEEA 364
           + +   A++     +    ++  +  EA
Sbjct: 60  LHDYAKALEYHHHDLTLARTIGDQLGEA 87

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster} Length = 411

 Score = 55.8 bits (135), Expect = 8e-09
 Identities = 28/131 (21%), Positives = 50/131 (38%), Gaps = 15/131 (11%)

Query: 234 LGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQ 293
           L + G+     GD  A VA+F  +++       +DL    TLS   +++G+  +Y GD  
Sbjct: 51  LALEGERLCNAGDCRAGVAFFQAAIQ--AGT--EDL---RTLSAIYSQLGNAYFYLGDYN 103

Query: 294 AARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR 353
            A  Y+   L + +    R           A S   + +  + +G  D A    +  +  
Sbjct: 104 KAMQYHKHDLTLAKSMNDRL--------GEAKSSGNLGNTLKVMGRFDEAAICCERHLTL 155

Query: 354 LESLTLKPEEA 364
              L  +  E 
Sbjct: 156 ARQLGDRLSEG 166

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster} Length = 411

 Score = 52.7 bits (127), Expect = 1e-07
 Identities = 22/134 (16%), Positives = 49/134 (36%), Gaps = 13/134 (9%)

Query: 231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGG 290
           G   G LG+    +GD  AA+ +  + +   +     D         + + +G+   + G
Sbjct: 223 GRACGNLGNTYYLLGDFQAAIEHHQERLR--IAREFGDR---AAERRANSNLGNSHIFLG 277

Query: 291 DLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEA 350
             + A  +Y R+L +  +  +R           A S   + +    +   + A++     
Sbjct: 278 QFEDAAEHYKRTLALAVELGERE--------VEAQSCYSLGNTYTLLHEFNTAIEYHNRH 329

Query: 351 IKRLESLTLKPEEA 364
           +   + L  +  EA
Sbjct: 330 LAIAQELGDRIGEA 343

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster} Length = 411

 Score = 48.1 bits (115), Expect = 3e-06
 Identities = 14/116 (12%), Positives = 44/116 (37%), Gaps = 13/116 (11%)

Query: 237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAAR 296
           LG+    +G  + A  ++  ++   + + + +       + S   +G+      +   A 
Sbjct: 269 LGNSHIFLGQFEDAAEHYKRTLA--LAVELGER---EVEAQSCYSLGNTYTLLHEFNTAI 323

Query: 297 SYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK 352
            Y+ R L + ++ +             A +   + +   +IG  + A+   ++ ++
Sbjct: 324 EYHNRHLAIAQE-LGDRI-------GEARACWSLGNAHSAIGGHERALKYAEQHLQ 371

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster} Length = 411

 Score = 47.7 bits (114), Expect = 3e-06
 Identities = 26/166 (15%), Positives = 50/166 (30%), Gaps = 38/166 (22%)

Query: 206 LSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLP 265
           +   TED+R                 A+   LG+    +GD + A+ Y    +   +   
Sbjct: 75  IQAGTEDLRTL--------------SAIYSQLGNAYFYLGDYNKAMQYHKHDLT--LAKS 118

Query: 266 MDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAV 325
           M+D       + S   +G+     G    A     R L + R  +               
Sbjct: 119 MNDRLGE---AKSSGNLGNTLKVMGRFDEAAICCERHLTLAR-QLGDRL-------SEGR 167

Query: 326 SLAKVADVDRSIGNEDVAVD----------GFQEAIKRLE-SLTLK 360
           +L  + +V  + G      +              A++  + +L L 
Sbjct: 168 ALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLM 213

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster} Length = 411

 Score = 46.9 bits (112), Expect = 7e-06
 Identities = 12/122 (9%), Positives = 41/122 (33%), Gaps = 15/122 (12%)

Query: 243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRS 302
            +G           + +       D    +      L   G+     GD +A  +++  +
Sbjct: 20  GLGSGGGGTNSHDGNSQ--QGSGSDGGSSMCL---ELALEGERLCNAGDCRAGVAFFQAA 74

Query: 303 LNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPE 362
           +    + ++           ++   +++ +    +G+ + A+   +  +   +S+  +  
Sbjct: 75  IQAGTEDLR----------TLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLG 124

Query: 363 EA 364
           EA
Sbjct: 125 EA 126

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster} Length = 411

 Score = 44.2 bits (105), Expect = 4e-05
 Identities = 24/148 (16%), Positives = 48/148 (32%), Gaps = 24/148 (16%)

Query: 231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDD--------LEIIHTL------S 276
           G  L  LG+   A G             +    L            L+++  L       
Sbjct: 166 GRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEAL--TRAVEFYQENLKLMRDLGDRGAQG 223

Query: 277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRS 336
            +   +G+  Y  GD QAA  ++   L + R+   R +           + + + +    
Sbjct: 224 RACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAA--------ERRANSNLGNSHIF 275

Query: 337 IGNEDVAVDGFQEAIKRLESLTLKPEEA 364
           +G  + A + ++  +     L  +  EA
Sbjct: 276 LGQFEDAAEHYKRTLALAVELGEREVEA 303

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster} Length = 411

 Score = 40.7 bits (96), Expect = 6e-04
 Identities = 24/151 (15%), Positives = 48/151 (31%), Gaps = 30/151 (19%)

Query: 231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDL----- 285
               G LG+  + MG  D A       +   +   + D     +   +L  +G++     
Sbjct: 126 AKSSGNLGNTLKVMGRFDEAAICCERHLT--LARQLGDR---LSEGRALYNLGNVYHAKG 180

Query: 286 KYYG------------GDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADV 333
           K+ G              L  A  +Y  +L + RD   R             +   + + 
Sbjct: 181 KHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRG--------AQGRACGNLGNT 232

Query: 334 DRSIGNEDVAVDGFQEAIKRLESLTLKPEEA 364
              +G+   A++  QE ++       +  E 
Sbjct: 233 YYLLGDFQAAIEHHQERLRIAREFGDRAAER 263

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus} Length = 338

 Score = 54.9 bits (133), Expect = 1e-08
 Identities = 29/131 (22%), Positives = 51/131 (38%), Gaps = 15/131 (11%)

Query: 234 LGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQ 293
           L + G+     GD  A V++F  +V+          E + TLS   +++G+  +Y  D  
Sbjct: 8   LALEGERLCKSGDCRAGVSFFEAAVQV-------GTEDLKTLSAIYSQLGNAYFYLHDYA 60

Query: 294 AARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR 353
            A  Y+   L + R    +           A +   + +  + +GN D A+   Q  +  
Sbjct: 61  KALEYHHHDLTLARTIGDQL--------GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDI 112

Query: 354 LESLTLKPEEA 364
              L  K  EA
Sbjct: 113 SRELNDKVGEA 123

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus} Length = 338

 Score = 49.9 bits (120), Expect = 6e-07
 Identities = 22/134 (16%), Positives = 47/134 (35%), Gaps = 13/134 (9%)

Query: 231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGG 290
           G   G LG+    +G+   AV      +   +     D         + + +G+   + G
Sbjct: 183 GRAFGNLGNTHYLLGNFRDAVIAHEQRLL--IAKEFGDK---AAERRAYSNLGNAYIFLG 237

Query: 291 DLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEA 350
           + + A  YY ++L + R    R           A S   + +    + + + A+D   + 
Sbjct: 238 EFETASEYYKKTLLLARQLKDRA--------VEAQSCYSLGNTYTLLQDYEKAIDYHLKH 289

Query: 351 IKRLESLTLKPEEA 364
           +   + L  +  E 
Sbjct: 290 LAIAQELKDRIGEG 303

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus} Length = 338

 Score = 46.1 bits (110), Expect = 9e-06
 Identities = 17/121 (14%), Positives = 48/121 (39%), Gaps = 13/121 (10%)

Query: 237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAAR 296
           LG+    +G+ + A  Y+  ++   +   + D       + S   +G+      D + A 
Sbjct: 229 LGNAYIFLGEFETASEYYKKTLL--LARQLKDR---AVEAQSCYSLGNTYTLLQDYEKAI 283

Query: 297 SYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES 356
            Y+++ L + ++ +K              +   + +   ++GN D A+   ++ ++    
Sbjct: 284 DYHLKHLAIAQE-LKDRI-------GEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE 335

Query: 357 L 357
           +
Sbjct: 336 V 336

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus} Length = 338

 Score = 45.7 bits (109), Expect = 1e-05
 Identities = 25/179 (13%), Positives = 56/179 (31%), Gaps = 47/179 (26%)

Query: 206 LSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLP 265
           + + TED++                 A+   LG+    + D   A+ Y    +   +   
Sbjct: 32  VQVGTEDLKTL--------------SAIYSQLGNAYFYLHDYAKALEYHHHDLT--LART 75

Query: 266 MDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAV 325
           + D       + +   +G+     G+   A     R L++ R+   +           A 
Sbjct: 76  IGDQLGE---AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKV--------GEAR 124

Query: 326 SLAKVADVDRSIGNE--------------------DVAVDGFQEAIKRLESLTLKPEEA 364
           +L  + +V  + G                        AVD ++E +  + +L  +  + 
Sbjct: 125 ALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQG 183

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens} Length = 100

 Score = 50.3 bits (120), Expect = 3e-08
 Identities = 17/82 (20%), Positives = 30/82 (36%), Gaps = 11/82 (13%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF-----KDCPLCGADI--EKIEADTTLQDV 142
             C IC   L +   C  CS + C +CI R+       CP C A +   ++      ++V
Sbjct: 23  FRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWAEEV 82

Query: 143 VDRFIEGHARIKRSHTNSDKEE 164
             +       ++       +E 
Sbjct: 83  TQQL----DTLQLCSLTKHEEN 100

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B Length = 165

 Score = 51.5 bits (123), Expect = 3e-08
 Identities = 15/74 (20%), Positives = 24/74 (32%), Gaps = 8/74 (10%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF-----KDCPLCGADI---EKIEADTTLQD 141
           L C IC  +L        C H +C  CI        K+CP C   +     +  D     
Sbjct: 55  LMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDA 114

Query: 142 VVDRFIEGHARIKR 155
           ++ +        + 
Sbjct: 115 LISKIYPSRDEYEA 128

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus} Length = 164

 Score = 51.4 bits (124), Expect = 4e-08
 Identities = 22/134 (16%), Positives = 48/134 (35%), Gaps = 13/134 (9%)

Query: 231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGG 290
           G   G LG+    +G+   AV      +   +     D        ++ + +G+   + G
Sbjct: 9   GRAFGNLGNTHYLLGNFRDAVIAHEQRLL--IAKEFGDK---AAERIAYSNLGNAYIFLG 63

Query: 291 DLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEA 350
           + + A  YY ++L + R    R           A S   + +    + + + A+D   + 
Sbjct: 64  EFETASEYYKKTLLLARQLKDRA--------VEAQSCYSLGNTYTLLQDYEKAIDYHLKH 115

Query: 351 IKRLESLTLKPEEA 364
           +   + L  +  E 
Sbjct: 116 LAIAQELKDRIGEG 129

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens} Length = 124

 Score = 48.0 bits (114), Expect = 3e-07
 Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 9/69 (13%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD-----CPLCGADIEK---IEADTTLQD 141
             C+ CQ L+F     T C H  CK C+ R        CP C  D+ +   ++ +  LQ 
Sbjct: 53  FQCICCQELVFR-PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQT 111

Query: 142 VVDRFIEGH 150
           V+++   G+
Sbjct: 112 VLNQLFPGY 120

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1 Length = 68

 Score = 46.6 bits (111), Expect = 3e-07
 Identities = 15/46 (32%), Positives = 20/46 (43%), Gaps = 4/46 (8%)

Query: 92  CMICQALLFECSKCTPCSHVYCKACIS----RFKDCPLCGADIEKI 133
           C IC       S   PC H +C  CI+    +   CPLC   +E +
Sbjct: 8   CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESV 53

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens} Length = 150

 Score = 48.5 bits (115), Expect = 3e-07
 Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 9/71 (12%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD-----CPLCGADIEK---IEADTTLQD 141
             C+ CQ L+++    T C H  CK C+ R        CP C  D+ +   +  +  LQ 
Sbjct: 79  FMCVCCQELVYQ-PVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQT 137

Query: 142 VVDRFIEGHAR 152
           ++D F  G+++
Sbjct: 138 LLDLFFPGYSK 148

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81

 Score = 46.4 bits (110), Expect = 4e-07
 Identities = 13/57 (22%), Positives = 20/57 (35%), Gaps = 5/57 (8%)

Query: 81  DAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEKI 133
                +  P  C IC+   F+    T C H +C++C          C +C      I
Sbjct: 7   GGSEEEEIPFRCFICRQA-FQNPVVTKCRHYFCESCALEHFRATPRCYICDQPTGGI 62

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, chromosomal protein, DNA repair, metal-binding; 2.12A {Homo sapiens} Length = 115

 Score = 47.2 bits (112), Expect = 5e-07
 Identities = 18/94 (19%), Positives = 32/94 (34%), Gaps = 15/94 (15%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD-----CPLCGADIEKIEA--------- 135
             C IC  +L E     PC+H  CK C     +     CP C   +              
Sbjct: 16  CQCGICMEILVE-PVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLV 74

Query: 136 DTTLQDVVDRFIEGHARIKRSHTNSDKEEDEAGE 169
           +  L  ++ +      +++ S   S++  D+   
Sbjct: 75  NVELWTIIQKHYPRECKLRASGQESEEVADDYQP 108

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 56

 Score = 45.0 bits (107), Expect = 6e-07
 Identities = 15/38 (39%), Positives = 18/38 (47%), Gaps = 2/38 (5%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFK-DCPLC 126
           L C  CQA   +C K  PC H  C  C+      CP+C
Sbjct: 7   LRCQQCQAE-AKCPKLLPCLHTLCSGCLEASGMQCPIC 43

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 71

 Score = 45.2 bits (107), Expect = 8e-07
 Identities = 13/45 (28%), Positives = 16/45 (35%), Gaps = 5/45 (11%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD----CPLCGADI 130
             C IC           PC HV+C  C+         C LC  +I
Sbjct: 16  PECAICLQTCVHPV-SLPCKHVFCYLCVKGASWLGKRCALCRQEI 59

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 74

 Score = 43.8 bits (103), Expect = 3e-06
 Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 6/46 (13%)

Query: 91  SCMICQALLFECSKCTPCSHVYCKACISRF------KDCPLCGADI 130
            C IC +LL +   C  C       C++++        CP C    
Sbjct: 17  ICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 62

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} Length = 383

 Score = 47.1 bits (112), Expect = 5e-06
 Identities = 19/170 (11%), Positives = 50/170 (29%), Gaps = 14/170 (8%)

Query: 197 QNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLG--MLGDCCRAMGDADAAVAYF 254
           + +E  +         + D +  +       + L         G       +  +A+ +F
Sbjct: 67  EYLEPLEKMRIEEQPRLSDLLLEIDKKQARLTGLLEYYFNFFRGMYELDQREYLSAIKFF 126

Query: 255 ADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHS 314
             +   L+ +  D +E          K+ +  YY      +  Y  ++  + ++    + 
Sbjct: 127 KKAESKLIFVK-DRIEKAE----FFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNI 181

Query: 315 NVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEA 364
                   +    +  A     +   + A+  FQ+A    E+        
Sbjct: 182 R-------LLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMG 224

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} Length = 383

 Score = 45.2 bits (107), Expect = 2e-05
 Identities = 15/130 (11%), Positives = 39/130 (30%), Gaps = 13/130 (10%)

Query: 228 SQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKY 287
            +L     +       +   + A+++F  +           L        +L  IG  K 
Sbjct: 181 IRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLM-----GRTLYNIGLCKN 235

Query: 288 YGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGF 347
                + A  Y+ R++ V  ++             +  +   +  +   +G  D A +  
Sbjct: 236 SQSQYEDAIPYFKRAIAVFEESNILP--------SLPQAYFLITQIHYKLGKIDKAHEYH 287

Query: 348 QEAIKRLESL 357
            + +   +  
Sbjct: 288 SKGMAYSQKA 297

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis} Length = 378

 Score = 46.3 bits (110), Expect = 9e-06
 Identities = 20/129 (15%), Positives = 43/129 (33%), Gaps = 14/129 (10%)

Query: 229 QLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYY 288
           +    L ++          D A+ +   ++E  M +  D        ++SL  I +    
Sbjct: 180 RTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFI-----AISLLNIANSYDR 234

Query: 289 GGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQ 348
            GD Q A  ++ ++  V R+ V            +   L  ++      G    A    +
Sbjct: 235 SGDDQMAVEHFQKAAKVSREKVPDL---------LPKVLFGLSWTLCKAGQTQKAFQFIE 285

Query: 349 EAIKRLESL 357
           E +  + + 
Sbjct: 286 EGLDHITAR 294

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis} Length = 378

 Score = 46.3 bits (110), Expect = 1e-05
 Identities = 17/129 (13%), Positives = 44/129 (34%), Gaps = 12/129 (9%)

Query: 236 MLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAA 295
             G       +   A+ Y+ ++ + L  +  DD+E          K+ +  Y+      +
Sbjct: 106 FRGMYEFDQKEYVEAIGYYREAEKELPFVS-DDIEKAE----FHFKVAEAYYHMKQTHVS 160

Query: 296 RSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE 355
             + +++L++ ++                 SL  +A       + D A+   + A++   
Sbjct: 161 MYHILQALDIYQNHPLYSIR-------TIQSLFVIAGNYDDFKHYDKALPHLEAALELAM 213

Query: 356 SLTLKPEEA 364
            +      A
Sbjct: 214 DIQNDRFIA 222

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus} Length = 71

 Score = 42.5 bits (100), Expect = 9e-06
 Identities = 16/55 (29%), Positives = 20/55 (36%), Gaps = 10/55 (18%)

Query: 88  GPLSCMICQALLFECSK------CTPCSHVYCKACISRF----KDCPLCGADIEK 132
           G +SC IC     E  +       T C HV+C  C+         CP C   I  
Sbjct: 9   GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 63

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 66

 Score = 42.1 bits (99), Expect = 9e-06
 Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 6/48 (12%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF-----KDCPLCGADIEK 132
             C  C  +L    + T C H +C++C++         C  C   I K
Sbjct: 16  YKCEKCHLVLCSPKQ-TECGHRFCESCMAALLSSSSPKCTACQESIVK 62

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens} Length = 92

 Score = 42.8 bits (101), Expect = 1e-05
 Identities = 18/75 (24%), Positives = 29/75 (38%), Gaps = 9/75 (12%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF------KDCPLCGA---DIEKIEADTTLQ 140
           L C+IC+ ++ +      C + YC  CI           CP C       + + A+  L+
Sbjct: 14  LLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANKFLR 73

Query: 141 DVVDRFIEGHARIKR 155
             V+ F       KR
Sbjct: 74  QAVNNFKNETGYTKR 88

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A* Length = 389

 Score = 45.9 bits (108), Expect = 1e-05
 Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 6/50 (12%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACI-----SRFKDCPLCGADIEKIE 134
             C IC     +  K  PC H+ C +C+     S  + CP C  +I+  E
Sbjct: 333 QLCKICAEN-DKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE 381

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens} Length = 64

 Score = 40.9 bits (96), Expect = 2e-05
 Identities = 15/55 (27%), Positives = 19/55 (34%), Gaps = 10/55 (18%)

Query: 88  GPLSCMICQALLFECSK------CTPCSHVYCKACI----SRFKDCPLCGADIEK 132
             +SC IC     E  +       T C HV+C  C+         CP C   I  
Sbjct: 2   AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 56

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A Length = 118

 Score = 42.5 bits (100), Expect = 2e-05
 Identities = 16/42 (38%), Positives = 19/42 (45%), Gaps = 6/42 (14%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF-----KDCPLC 126
             C IC   L E    TPC H +CKACI +        CP+ 
Sbjct: 19  YECPICLMALREA-VQTPCGHRFCKACIIKSIRDAGHKCPVD 59

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens} Length = 311

 Score = 44.1 bits (105), Expect = 4e-05
 Identities = 16/123 (13%), Positives = 33/123 (26%), Gaps = 14/123 (11%)

Query: 234 LGMLGDCCRAMGDADAAVAYFADSVE-FLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDL 292
           L  L   C+  G  +    Y+  ++E +  KL  DD  +      + N +       G  
Sbjct: 156 LNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVA----KTKNNLASCYLKQGKF 211

Query: 293 QAARSYYVRSLNVRRDAV--KRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEA 350
           + A + Y   L    +               +         + +   G +       +  
Sbjct: 212 KQAETLYKEILTRAHEREFGSVDD-------ENKPIWMHAEEREECKGKQKDGTSFGEYG 264

Query: 351 IKR 353
              
Sbjct: 265 GWY 267

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens} Length = 311

 Score = 42.1 bits (100), Expect = 2e-04
 Identities = 24/123 (19%), Positives = 43/123 (34%), Gaps = 13/123 (10%)

Query: 237 LGDCCRAMGDADAAVAYFADSVE-FLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAA 295
           L    R       A     D++      L  D   +      +LN +  L    G  + A
Sbjct: 75  LALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAA----TLNNLAVLYGKRGKYKEA 130

Query: 296 RSYYVRSLNVRRDAV-KRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRL 354
                R+L +R   + K H        DVA  L  +A + ++ G  +     +Q A++  
Sbjct: 131 EPLCKRALEIREKVLGKDH-------PDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIY 183

Query: 355 ESL 357
           ++ 
Sbjct: 184 QTK 186

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens} Length = 311

 Score = 41.8 bits (99), Expect = 2e-04
 Identities = 23/121 (19%), Positives = 42/121 (34%), Gaps = 13/121 (10%)

Query: 234 LGMLGDCCRAMGDADAAVAYFADSVEFLMK-LPMDDLEIIHTLSVSLNKIGDLKYYGGDL 292
           L  L     + G  + AV     ++E L K    D  ++       LN +  +       
Sbjct: 30  LHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVA----TMLNILALVYRDQNKY 85

Query: 293 QAARSYYVRSLNVRRDAV-KRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI 351
           + A +    +L +R   + K H         VA +L  +A +    G    A    + A+
Sbjct: 86  KDAANLLNDALAIREKTLGKDH-------PAVAATLNNLAVLYGKRGKYKEAEPLCKRAL 138

Query: 352 K 352
           +
Sbjct: 139 E 139

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 69

 Score = 40.3 bits (94), Expect = 4e-05
 Identities = 15/49 (30%), Positives = 19/49 (38%), Gaps = 10/49 (20%)

Query: 88  GPLSCMICQALLFECSK------CTPCSHVYCKACIS----RFKDCPLC 126
           G +SC IC     E  +       T C HV+C  C+         CP C
Sbjct: 14  GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTC 62

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens} Length = 141

 Score = 42.0 bits (98), Expect = 5e-05
 Identities = 14/85 (16%), Positives = 24/85 (28%), Gaps = 9/85 (10%)

Query: 64  SDSMDSASIPPKCPFGYDAQSFKIGP---LSCMICQALLFECSKCTPCSHVYCKACISRF 120
           + S+           G+              C  C+ +L        C H YC  C++  
Sbjct: 3   AASVTPPGSLELLQPGFSKTLLGTKLEAKYLCSACRNVLRRP-FQAQCGHRYCSFCLASI 61

Query: 121 KD-----CPLCGADIEKIEADTTLQ 140
                  C  C  +    E  + L+
Sbjct: 62  LSSGPQNCAACVHEGIYEEGISILE 86

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens} Length = 74

 Score = 40.1 bits (94), Expect = 5e-05
 Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 6/43 (13%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF------KDCPLC 126
           L C+IC+ ++ +      C + YC  CI           CP C
Sbjct: 16  LLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTC 58

>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 112

 Score = 41.2 bits (97), Expect = 5e-05
 Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 12/69 (17%)

Query: 90  LSCMICQALLFE-CSKCTPCSHVYCKACISRFKD-------CPLCGADIEK--IEADTTL 139
           L C IC  L+ E  S  T C H++CK C+ +  +       CPLC  DI K  ++  T  
Sbjct: 22  LECPICLELIKEPVS--TKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRF 79

Query: 140 QDVVDRFIE 148
             +V+  ++
Sbjct: 80  SQLVEELLK 88

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens} Length = 238

 Score = 42.8 bits (100), Expect = 7e-05
 Identities = 12/58 (20%), Positives = 21/58 (36%), Gaps = 6/58 (10%)

Query: 80  YDAQSFKIGPLSCMICQALLFECSKCTPCSHVYCKACISRF------KDCPLCGADIE 131
           Y  +++      C IC +LL +   C  C       C++++        CP C     
Sbjct: 171 YIRETYPDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP 228

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1 Length = 116

 Score = 40.3 bits (94), Expect = 1e-04
 Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 6/42 (14%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF-----KDCPLC 126
           +SC IC+ +L +    T C H++C+ CI R        CP C
Sbjct: 24  ISCQICEHILADP-VETSCKHLFCRICILRCLKVMGSYCPSC 64

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 63

 Score = 38.9 bits (91), Expect = 1e-04
 Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 8/44 (18%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD-------CPLC 126
           + C IC  +L +      C H +C  CI++  +       CPLC
Sbjct: 21  VICPICLDILQK-PVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

>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 Length = 283

 Score = 41.7 bits (99), Expect = 2e-04
 Identities = 24/121 (19%), Positives = 43/121 (35%), Gaps = 13/121 (10%)

Query: 234 LGMLGDCCRAMGDADAAVAYFADSVE-FLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDL 292
           L +L    R       A     D++      L  D   +      +LN +  L    G  
Sbjct: 46  LNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAA----TLNNLAVLYGKRGKY 101

Query: 293 QAARSYYVRSLNVRRDAV-KRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI 351
           + A     R+L +R   + K H        DVA  L  +A + ++ G  +     ++ A+
Sbjct: 102 KEAEPLCKRALEIREKVLGKFH-------PDVAKQLNNLALLCQNQGKAEEVEYYYRRAL 154

Query: 352 K 352
           +
Sbjct: 155 E 155

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 58

 Score = 38.1 bits (89), Expect = 2e-04
 Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 8/44 (18%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD-------CPLC 126
            SC +C   L E      C H +CKACI+R+ +       CP+C
Sbjct: 16  ASCSVCLEYLKE-PVIIECGHNFCKACITRWWEDLERDFPCPVC 58

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus} Length = 85

 Score = 38.9 bits (91), Expect = 2e-04
 Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 11/47 (23%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD----------CPLC 126
           ++C IC  LL E      C+H +C+ACI+   +          CP+C
Sbjct: 20  VTCPICLELLKE-PVSADCNHSFCRACITLNYESNRNTDGKGNCPVC 65

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 70

 Score = 38.1 bits (89), Expect = 2e-04
 Identities = 13/45 (28%), Positives = 20/45 (44%), Gaps = 6/45 (13%)

Query: 92  CMICQALLFECSKCTPCSHVYCKACIS----RFKDCPLCGADIEK 132
           C IC           PC+H +C+ CI     R ++CP+C   +  
Sbjct: 18  CCICMD--GRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTG 60

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 73

 Score = 38.1 bits (89), Expect = 3e-04
 Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 8/44 (18%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD-------CPLC 126
           + C IC  +L +      C H +C  CI++  +       CPLC
Sbjct: 21  VICPICLDILQK-PVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus} Length = 101

 Score = 38.7 bits (89), Expect = 4e-04
 Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 5/48 (10%)

Query: 92  CMICQALLFECSKCTPCSHVYCKACISRF-----KDCPLCGADIEKIE 134
           C  C   +    +  PC HV+C  C         K CP C   +++IE
Sbjct: 4   CDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIE 51

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 85

 Score = 37.6 bits (88), Expect = 5e-04
 Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 11/47 (23%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD----------CPLC 126
           ++C IC  LL +      C H +C+AC++              CP+C
Sbjct: 20  VTCPICLELLTQ-PLSLDCGHSFCQACLTANHKKSMLDKGESSCPVC 65

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2 Length = 373

 Score = 40.7 bits (95), Expect = 6e-04
 Identities = 18/132 (13%), Positives = 46/132 (34%), Gaps = 14/132 (10%)

Query: 230 LGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYG 289
                 +        G+ D A          L +LP       ++  V+ + +G++ +  
Sbjct: 13  HAEFNALRAQVAINDGNPDEAERLAK---LALEELPPGWF---YSRIVATSVLGEVLHCK 66

Query: 290 GDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQE 349
           G+L  + +   ++  + R     H            SL + +++  + G    A +  ++
Sbjct: 67  GELTRSLALMQQTEQMARQHDVWH--------YALWSLIQQSEILFAQGFLQTAWETQEK 118

Query: 350 AIKRLESLTLKP 361
           A + +    L+ 
Sbjct: 119 AFQLINEQHLEQ 130

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens} Length = 170

 Score = 38.9 bits (90), Expect = 8e-04
 Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 6/48 (12%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD-----CPLCGADIEK 132
             C IC   L E    TPC H +CKACI +        CP+    + +
Sbjct: 19  YECPICLMALREA-VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE 65

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens} Length = 79

 Score = 36.9 bits (86), Expect = 8e-04
 Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 12/48 (25%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFKD-----------CPLC 126
           ++C IC  LL E      C H  C+ACI+               CP+C
Sbjct: 13  VTCPICLELLTE-PLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVC 59

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	392
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.32
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	99.3
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.26
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.23
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.23
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.22
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.2
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.17
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.12
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.12
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	99.1
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.09
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.09
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.07
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.04
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.03
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.02
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.01
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.99
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.97
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.96
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.95
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	98.95
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	98.95
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.94
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.93
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.93
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	98.93
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.92
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.92
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.89
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	98.89
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.88
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.88
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.88
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	98.88
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	98.87
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.87
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.87
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	98.87
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	98.87
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.86
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.85
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.85
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.85
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.84
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.84
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.83
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.81
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.79
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	98.79
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.79
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.77
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.77
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.76
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.75
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.74
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	98.72
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.71
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.71
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.7
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.7
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.7
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.7
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.7
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.68
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	98.68
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.67
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.67
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.66
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.66
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.66
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.65
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.64
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.63
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.62
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.6
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.6
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.59
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.58
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.57
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.56
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.55
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.54
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.53
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.53
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.51
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.5
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.49
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.49
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.47
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.46
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.42
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.4
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.39
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.34
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.33
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.32
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.32
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.31
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.3
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.3
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.29
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.28
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.26
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.26
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.24
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.2
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.19
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.17
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.15
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.15
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.11
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.09
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.09
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.08
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.06
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.03
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.02
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.0
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	97.99
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	97.99
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.98
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.95
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.95
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	97.94
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	97.93
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.92
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.92
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.89
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	97.89
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.89
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.87
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	97.87
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	97.86
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	97.84
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	97.84
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.83
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	97.82
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	97.82
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.81
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.81
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.8
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	97.79
3u4t_A	272	TPR repeat-containing protein; structural genomics	97.78
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	97.78
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	97.78
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	97.78
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	97.78
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	97.77
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	97.77
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	97.77
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	97.75
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.75
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	97.74
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	97.73
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.72
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.72
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	97.7
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.7
3u4t_A	272	TPR repeat-containing protein; structural genomics	97.7
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.69
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	97.68
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	97.68
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.68
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	97.67
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	97.66
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	97.65
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	97.64
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	97.64
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	97.61
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.61
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.6
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	97.6
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	97.6
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.59
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	97.59
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.58
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.58
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	97.57
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	97.57
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.57
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	97.56
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.55
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.54
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.53
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	97.53
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	97.53
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	97.52
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.52
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	97.5
2gw1_A	514	Mitochondrial precursor proteins import receptor;	97.45
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	97.45
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	97.44
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	97.43
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	97.43
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	97.42
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.39
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.39
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.38
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.38
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.34
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.32
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.32
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.32
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.32
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	97.3
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	97.28
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	97.27
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	97.25
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	97.25
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.25
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	97.25
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.22
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	97.2
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.2
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.19
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	97.15
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.15
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.14
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	97.12
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.1
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.1
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.04
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.01
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	97.01
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	97.01
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	96.94
2gw1_A	514	Mitochondrial precursor proteins import receptor;	96.94
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	96.89
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.83
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	96.83
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	96.81
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	96.73
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.64
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	96.64
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	96.63
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	96.51
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	96.5
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	96.32
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	96.25
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	96.21
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	96.04
2l6j_A	111	TPR repeat-containing protein associated with HSP;	95.95
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	95.95
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	95.86
2kat_A	115	Uncharacterized protein; NESG, structure, structur	95.86
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	95.6
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.5
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	95.35
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	95.21
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	95.0
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	94.68
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	94.65
1klx_A	138	Cysteine rich protein B; structural genomics, heli	94.47
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	94.37
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	94.29
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	94.25
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	93.98
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	93.79
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	93.67
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	93.4
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	92.89
1klx_A	138	Cysteine rich protein B; structural genomics, heli	92.1
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.9
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	90.76
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	90.23
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	89.62
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	88.41
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	88.08
3nw0_A	238	Non-structural maintenance of chromosomes element	87.04
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	86.94
2csv_A	72	Tripartite motif protein 29; ZF-B_BOX domain, TRIM	86.43
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	85.92
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	85.24
2w2u_A	83	Hypothetical P60 katanin; hydrolase transport comp	84.61
2cpt_A	117	SKD1 protein, vacuolar sorting protein 4B; MIT, he	84.59
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	83.87
2v6y_A	83	AAA family ATPase, P60 katanin; MIT, VPS4, archaea	82.08

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens}

Probab=99.32  E-value=1.3e-12  Score=101.93  Aligned_cols=62  Identities=27%  Similarity=0.676  Sum_probs=55.4

Q ss_pred             CceeccccccccccCceecc-cCcHhHHHhHHhcC------CCCCCCcCCcc---cchhhHHHHHHHHHHhhh
Q 016262           88 GPLSCMICQALLFECSKCTP-CSHVYCKACISRFK------DCPLCGADIEK---IEADTTLQDVVDRFIEGH  150 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~-C~h~fC~~Ci~~~~------~CP~C~~~~~~---~~~n~~l~~~~~~~~~~~  150 (392)
                      +.+.|+||++++. +|++++ |||+||..||..|+      .||.||..+..   +.+|..+.++++.++...
T Consensus        12 ~~~~C~IC~~~~~-~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~~~~   83 (92)
T 3ztg_A           12 DELLCLICKDIMT-DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANKFLRQAVNNFKNET   83 (92)
T ss_dssp             TTTEETTTTEECS-SCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEECHHHHHHHHHHHHHH
T ss_pred             cCCCCCCCChhhc-CceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCcCHHHHHHHHHHHHHH
Confidence            5799999999998 999999 99999999999884      69999999742   899999999999998653

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=99.30  E-value=1.2e-11  Score=125.17  Aligned_cols=140  Identities=13%  Similarity=0.049  Sum_probs=123.5

Q ss_pred             ccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhh
Q 016262          242 RAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVL  321 (392)
Q Consensus       242 ~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~  321 (392)
                      ..+|++.+|+.+++++++...++-+..   +..+..++++|+.++..+|+|++|+.+|+++|++++..+.....      
T Consensus       320 ~~qg~~~eA~~l~~~aL~~~~~~lg~~---Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp------  390 (490)
T 3n71_A          320 RSEGLYHEVVKLCRECLEKQEPVFADT---NLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNA------  390 (490)
T ss_dssp             HTTTCHHHHHHHHHHHHHHHTTTBCTT---SHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCH------
T ss_pred             HhCCCHHHHHHHHHHHHHHHHHhcCCC---CHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCH------
Confidence            368889999999999988876654422   34567899999999999999999999999999999998766543      


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh--hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          322 DVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL--TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       322 dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l--~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +++.+++|||.++..+|++++|+.+|++|++|++..  ..||..+.++.++..  .+..++.|..+..+|+.|
T Consensus       391 ~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~--~~~e~~~~~~ae~~~~~~  461 (490)
T 3n71_A          391 QLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQ--TEMELRMFRQNEFMYHKM  461 (490)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHH--HHHHHHHHHHHHHHHHHH
Confidence            889999999999999999999999999999999998  889999999988888  888999999999988764

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=99.26  E-value=1.7e-12  Score=97.99  Aligned_cols=61  Identities=15%  Similarity=0.334  Sum_probs=55.0

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcCCcc--cchhhHHHHHHHHHHhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGADIEK--IEADTTLQDVVDRFIEG  149 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~--~~~n~~l~~~~~~~~~~  149 (392)
                      +.+.|+||++++. +|++++|||+||+.||.+|+     .||.|+..+..  +.+|..|+++++.+...
T Consensus         7 ~~~~C~IC~~~~~-~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~~n~~l~~~i~~~~~~   74 (78)
T 1t1h_A            7 EYFRCPISLELMK-DPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSLIALWCES   74 (78)
T ss_dssp             SSSSCTTTSCCCS-SEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHHHHHHHHH
T ss_pred             ccCCCCCcccccc-CCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCccCHHHHHHHHHHHHH
Confidence            5799999999988 99999999999999999984     39999999875  88999999999999753

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=99.23  E-value=3.3e-12  Score=98.12  Aligned_cols=62  Identities=13%  Similarity=0.191  Sum_probs=56.6

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC----CCCCCCcCCcc--cchhhHHHHHHHHHHhhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK----DCPLCGADIEK--IEADTTLQDVVDRFIEGH  150 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~--~~~n~~l~~~~~~~~~~~  150 (392)
                      +.|.||||++++. +|++++|||+||+.||..|+    .||.|+..+..  +.+|..|+++++.+....
T Consensus        13 ~~~~CpI~~~~m~-dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l~pn~~L~~~i~~~~~~~   80 (85)
T 2kr4_A           13 DEFRDPLMDTLMT-DPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTESMLEPVPELKEQIQAWMREK   80 (85)
T ss_dssp             TTTBCTTTCSBCS-SEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHHHHHHH
T ss_pred             hheECcccCchhc-CCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChHhcchHHHHHHHHHHHHHHh
Confidence            5799999999999 99999999999999999995    59999999876  899999999999998653

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=99.23  E-value=4.6e-12  Score=100.27  Aligned_cols=61  Identities=11%  Similarity=0.184  Sum_probs=56.4

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcCC----CCCCCcCCcc--cchhhHHHHHHHHHHhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFKD----CPLCGADIEK--IEADTTLQDVVDRFIEG  149 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~~----CP~C~~~~~~--~~~n~~l~~~~~~~~~~  149 (392)
                      +.|.||||++++. +|++++|||+||+.||..|+.    ||.|+.++..  +.+|..|+++++.+...
T Consensus        28 ~~~~CpI~~~~m~-dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~I~~~~~~   94 (100)
T 2kre_A           28 DEFRDPLMDTLMT-DPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTESMLEPVPELKEQIQAWMRE   94 (100)
T ss_dssp             TTTBCTTTCSBCS-SEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSEECHHHHHHHHHHHHT
T ss_pred             HhhCCcCccCccc-CCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCChhhceECHHHHHHHHHHHHH
Confidence            5799999999999 999999999999999999974    9999999886  99999999999999864

>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.2

Probab=99.22  E-value=2e-11  Score=96.22  Aligned_cols=62  Identities=18%  Similarity=0.241  Sum_probs=56.9

Q ss_pred             CceeccccccccccCceecccC-cHhHHHhHHhcCC----CCCCCcCCcc--cchhhHHHHHHHHHHhhh
Q 016262           88 GPLSCMICQALLFECSKCTPCS-HVYCKACISRFKD----CPLCGADIEK--IEADTTLQDVVDRFIEGH  150 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~-h~fC~~Ci~~~~~----CP~C~~~~~~--~~~n~~l~~~~~~~~~~~  150 (392)
                      ++|.||||++++. +|++++|| |+||+.||..|+.    ||.|+.++..  +.+|..|+++|+.+....
T Consensus        21 ~~~~CpI~~~~m~-dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~I~~~~~~~   89 (98)
T 1wgm_A           21 DEFLDPIMSTLMC-DPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKEKIQRWLAER   89 (98)
T ss_dssp             TTTBCTTTCSBCS-SEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHHHHHHHHHHHS
T ss_pred             HhcCCcCcccccc-CCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhceEcHHHHHHHHHHHHHc
Confidence            5799999999999 99999999 9999999999974    9999999886  899999999999998653

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.20  E-value=5.2e-12  Score=103.07  Aligned_cols=63  Identities=22%  Similarity=0.570  Sum_probs=56.0

Q ss_pred             CceeccccccccccCceec-ccCcHhHHHhHHhcC--CCCCCCcCCcc--cchhhHHHHHHHHHHhhhh
Q 016262           88 GPLSCMICQALLFECSKCT-PCSHVYCKACISRFK--DCPLCGADIEK--IEADTTLQDVVDRFIEGHA  151 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~-~C~h~fC~~Ci~~~~--~CP~C~~~~~~--~~~n~~l~~~~~~~~~~~~  151 (392)
                      +.+.|+||++++. +|+++ +|||+||..||..|+  .||.||..+..  +.+|..+.++++.+.....
T Consensus        21 ~~~~C~IC~~~~~-~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~~~~~~n~~l~~l~~~~~~~~~   88 (117)
T 1jm7_B           21 KLLRCSRCTNILR-EPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQDLKINRQLDSMIQLCSKLRN   88 (117)
T ss_dssp             HTTSCSSSCSCCS-SCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSCSSCCCCHHHHHHHHHHHHHHH
T ss_pred             hCCCCCCCChHhh-CccEeCCCCCHHHHHHHHHHhcCCCcCCCCcCccccccccHHHHHHHHHHHHHHH
Confidence            4799999999998 89998 999999999999996  49999999865  8999999999998876543

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens}

Probab=99.17  E-value=8e-12  Score=103.01  Aligned_cols=61  Identities=33%  Similarity=0.805  Sum_probs=55.1

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcCCcc---cchhhHHHHHHHHHHhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGADIEK---IEADTTLQDVVDRFIEG  149 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~---~~~n~~l~~~~~~~~~~  149 (392)
                      +.+.|+||++++. +|++++|||+||..||..|+     .||.||..+..   +.+|..+.++++.+..+
T Consensus        51 ~~~~C~IC~~~~~-~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~p~  119 (124)
T 3fl2_A           51 ETFQCICCQELVF-RPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQTVLNQLFPG  119 (124)
T ss_dssp             HHTBCTTTSSBCS-SEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCCCHHHHHHHHHHSTT
T ss_pred             cCCCCCcCChHHc-CcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCCCCCCCCCHHHHHHHHHHccc
Confidence            4689999999988 99999999999999999884     69999999976   89999999999998754

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens}

Probab=99.12  E-value=2.6e-11  Score=95.81  Aligned_cols=64  Identities=27%  Similarity=0.647  Sum_probs=56.5

Q ss_pred             CceeccccccccccCceec-ccCcHhHHHhHHhcC----CCCCCCcCCcc--cchhhHHHHHHHHHHhhhhh
Q 016262           88 GPLSCMICQALLFECSKCT-PCSHVYCKACISRFK----DCPLCGADIEK--IEADTTLQDVVDRFIEGHAR  152 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~-~C~h~fC~~Ci~~~~----~CP~C~~~~~~--~~~n~~l~~~~~~~~~~~~~  152 (392)
                      +.+.|+||++.+. +|+++ +|||+||..||..|+    .||.||..+..  +.+|..+.++++.+....+.
T Consensus        21 ~~~~C~IC~~~~~-~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~~i~~~~~~~~~   91 (99)
T 2y43_A           21 DLLRCGICFEYFN-IAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRILDELVKSLNFARNH   91 (99)
T ss_dssp             HHTBCTTTCSBCS-SEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECHHHHHHHHHHHHHHHT
T ss_pred             CCCCcccCChhhC-CcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChhhCCcCHHHHHHHHHHHHHHHH
Confidence            4689999999988 88887 899999999999984    49999999886  89999999999999876544

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=99.12  E-value=2.5e-11  Score=101.93  Aligned_cols=59  Identities=25%  Similarity=0.796  Sum_probs=49.2

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC----CCCCCCcCCcccchhhHHHHHHHHHH
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK----DCPLCGADIEKIEADTTLQDVVDRFI  147 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~~~~n~~l~~~~~~~~  147 (392)
                      +++.|+||++.+. +|++++|||+||..||..|+    .||.||..+.....+..+..++..+.
T Consensus        52 ~~~~C~iC~~~~~-~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~i~~~~  114 (138)
T 4ayc_A           52 NELQCIICSEYFI-EAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNCINKMV  114 (138)
T ss_dssp             HHSBCTTTCSBCS-SEEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCEEECHHHHHHHHHHH
T ss_pred             ccCCCcccCcccC-CceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCCCCccchhHHHHHHH
Confidence            3578999999988 99999999999999999995    49999999987555666666666554

>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=99.10  E-value=5.3e-10  Score=111.43  Aligned_cols=120  Identities=14%  Similarity=0.054  Sum_probs=102.5

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhH
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLD  322 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~d  322 (392)
                      ..|++.+|+.+++++++...++-+..   +..+..++++|+.++..+|+|++|+.+|+++|++++..+.....      +
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~---Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp------~  380 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDS---NVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSL------N  380 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTT---SHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCH------H
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChh---chHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCCh------H
Confidence            34677889999999987776643322   34567899999999999999999999999999999998766543      8


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh--hcCCCchhHHHhhc
Q 016262          323 VAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL--TLKPEEAGLEQRCW  371 (392)
Q Consensus       323 la~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l--~~~~~~a~l~~~~~  371 (392)
                      ++.+++|||.++..+|++++|+.+|++|++|++..  ..||..+.+.+++.
T Consensus       381 ~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~l~~~l~  431 (433)
T 3qww_A          381 VASMWLKLGRLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYISEIKQEIE  431 (433)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHh
Confidence            89999999999999999999999999999999998  88888887777654

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens}

Probab=99.09  E-value=2.8e-11  Score=95.83  Aligned_cols=61  Identities=25%  Similarity=0.551  Sum_probs=53.3

Q ss_pred             CceeccccccccccCcee-cccCcHhHHHhHHhc-----CCCCCCCcCCcc--cchhhHHHHHHHHHHhh
Q 016262           88 GPLSCMICQALLFECSKC-TPCSHVYCKACISRF-----KDCPLCGADIEK--IEADTTLQDVVDRFIEG  149 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~-~~C~h~fC~~Ci~~~-----~~CP~C~~~~~~--~~~n~~l~~~~~~~~~~  149 (392)
                      +.+.|+||++++. +|++ ++|||+||..||..|     ..||.||..+..  +..+..+.++++.+...
T Consensus        21 ~~~~C~IC~~~~~-~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~i~~~~~~l   89 (100)
T 3lrq_A           21 EVFRCFICMEKLR-DARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWAEEVTQQLDTL   89 (100)
T ss_dssp             HHTBCTTTCSBCS-SEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECTTHHHHHHHHHHH
T ss_pred             CCCCCccCCcccc-CccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhHhhHHHHHHHHHHHHH
Confidence            4789999999998 8888 999999999999998     359999999876  78888888888887654

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.09  E-value=4.2e-11  Score=93.70  Aligned_cols=62  Identities=23%  Similarity=0.458  Sum_probs=54.0

Q ss_pred             CceeccccccccccCceecc-cCcHhHHHhHHhcC----------CCCC--CCcC-Ccc--cchhhHHHHHHHHHHhhh
Q 016262           88 GPLSCMICQALLFECSKCTP-CSHVYCKACISRFK----------DCPL--CGAD-IEK--IEADTTLQDVVDRFIEGH  150 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~-C~h~fC~~Ci~~~~----------~CP~--C~~~-~~~--~~~n~~l~~~~~~~~~~~  150 (392)
                      ..|.||||+++|. +|++++ |||+||+.||..|+          .||.  |+.. +..  +.+|..|.++|..++...
T Consensus         6 ~~~~CPI~~~~~~-dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn~~L~~~I~~~~~~~   83 (94)
T 2yu4_A            6 SGFTCPITKEEMK-KPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRRAIENHNKKR   83 (94)
T ss_dssp             SCCBCTTTCSBCS-SEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEECHHHHHHHHHHHTTC
T ss_pred             cEeECcCcCchhc-CCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCCHHHHHHHHHHHHHh
Confidence            5689999999999 999996 99999999999984          5999  8865 443  999999999999998653

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens}

Probab=99.07  E-value=5.5e-11  Score=101.23  Aligned_cols=60  Identities=32%  Similarity=0.733  Sum_probs=54.2

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcCCcc---cchhhHHHHHHHHHHh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGADIEK---IEADTTLQDVVDRFIE  148 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~---~~~n~~l~~~~~~~~~  148 (392)
                      +.+.|+||++++. +|++++|||+||..||..|+     .||.||..+..   +.+|..++++++.+..
T Consensus        77 ~~~~C~IC~~~~~-~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~n~~l~~lv~~~~p  144 (150)
T 1z6u_A           77 QSFMCVCCQELVY-QPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQTLLDLFFP  144 (150)
T ss_dssp             HHTBCTTTSSBCS-SEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCBCHHHHHHHHHHST
T ss_pred             cCCEeecCChhhc-CCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCCCCCCCCHHHHHHHHHHhh
Confidence            3589999999988 99999999999999999983     59999999885   7899999999999864

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A

Probab=99.04  E-value=7e-11  Score=94.87  Aligned_cols=61  Identities=36%  Similarity=0.892  Sum_probs=53.3

Q ss_pred             CceeccccccccccCceec-ccCcHhHHHhHHhcC----CCCCCCcCCcc------cchhhHHHHHHHHHHhh
Q 016262           88 GPLSCMICQALLFECSKCT-PCSHVYCKACISRFK----DCPLCGADIEK------IEADTTLQDVVDRFIEG  149 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~-~C~h~fC~~Ci~~~~----~CP~C~~~~~~------~~~n~~l~~~~~~~~~~  149 (392)
                      +.+.|+||++++. +|+++ +|||+||..||..|+    .||.|+..+..      +.+|..+.++++.+...
T Consensus        14 ~~~~C~IC~~~~~-~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~~i~~~~~~   85 (108)
T 2ckl_A           14 PHLMCVLCGGYFI-DATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKLVPG   85 (108)
T ss_dssp             GGTBCTTTSSBCS-SEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSSCGGGGEEECHHHHHHHHHHSTT
T ss_pred             CcCCCccCChHHh-CcCEeCCCCChhhHHHHHHHHHhCCcCcCCCccccccCcccccCcCHHHHHHHHHHhhh
Confidence            5789999999998 88887 999999999999994    59999998874      67899999999988643

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.03  E-value=1.6e-10  Score=87.70  Aligned_cols=50  Identities=22%  Similarity=0.624  Sum_probs=43.2

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC----CCCCCCcCCcc-cchhhH
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK----DCPLCGADIEK-IEADTT  138 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~-~~~n~~  138 (392)
                      ..+.|+||++.+. +|++++|||+||..||..|+    .||.||..+.. +.+|..
T Consensus        14 ~~~~C~IC~~~~~-~p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~   68 (81)
T 2csy_A           14 IPFRCFICRQAFQ-NPVVTKCRHYFCESCALEHFRATPRCYICDQPTGGIFNPAKE   68 (81)
T ss_dssp             CCSBCSSSCSBCC-SEEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCCSCCEECHH
T ss_pred             CCCCCcCCCchhc-CeeEccCCCHhHHHHHHHHHHCCCcCCCcCccccccCCcHHH
Confidence            4689999999988 89999999999999999984    49999999876 666643

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens}

Probab=99.02  E-value=2.3e-11  Score=91.79  Aligned_cols=52  Identities=33%  Similarity=0.761  Sum_probs=44.0

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-----------CCCCCCcCCcc--cchhhHHH
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----------DCPLCGADIEK--IEADTTLQ  140 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----------~CP~C~~~~~~--~~~n~~l~  140 (392)
                      +.+.|+||++.+. +|++++|||+||..||..|+           .||.||..+..  +.+|..+.
T Consensus        11 ~~~~C~IC~~~~~-~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~   75 (79)
T 2egp_A           11 EEVTCPICLELLT-EPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQANQHLA   75 (79)
T ss_dssp             CCCEETTTTEECS-SCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGGGTCSSSC
T ss_pred             cCCCCcCCCcccC-CeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhCCcCHHHH
Confidence            5689999999988 89999999999999999873           39999998875  66665544

>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=99.01  E-value=3.3e-09  Score=96.33  Aligned_cols=182  Identities=16%  Similarity=0.134  Sum_probs=139.8

Q ss_pred             HhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHH
Q 016262          194 FRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIH  273 (392)
Q Consensus       194 ~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~  273 (392)
                      ...|++++|...+..+.+.+...+...  .    +.....+..++..+...|++..|+.+++++.+...++.+..   ..
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~--~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~---~~   82 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHD--H----PDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKD---HP   82 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSS--S----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTT---CH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCC--C----HHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCc---ch
Confidence            345677778888876666555443211  1    23344556667777788999999999999987776653322   23


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          274 TLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       274 ~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      .....+..++.++...|++++|+.+|++++++.+.......      ...+..+.++|.++..+|++++|+.+|++++++
T Consensus        83 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~------~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  156 (283)
T 3edt_B           83 AVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFH------PDVAKQLNNLALLCQNQGKAEEVEYYYRRALEI  156 (283)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCC------hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            45678999999999999999999999999999887654322      155778899999999999999999999999999


Q ss_pred             HHHh--hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          354 LESL--TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       354 le~l--~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .+..  ..+|....+...++.  ++..++++.+|+.+|+++
T Consensus       157 ~~~~~~~~~~~~~~~~~~la~--~~~~~g~~~~A~~~~~~~  195 (283)
T 3edt_B          157 YATRLGPDDPNVAKTKNNLAS--CYLKQGKYQDAETLYKEI  195 (283)
T ss_dssp             HHHHSCTTCHHHHHHHHHHHH--HHHHHTCHHHHHHHHHHH
T ss_pred             HHHhcCCCCHHHHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            9887  456666777778887  888999999999998764

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, CHR protein, DNA repair, metal-binding, nucleus; 2.12A {Homo sapiens}

Probab=98.99  E-value=1.6e-10  Score=93.74  Aligned_cols=61  Identities=23%  Similarity=0.595  Sum_probs=52.9

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcCCcc---------cchhhHHHHHHHHHHhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGADIEK---------IEADTTLQDVVDRFIEG  149 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~---------~~~n~~l~~~~~~~~~~  149 (392)
                      +.+.|+||++++. +|++++|||+||..||..|+     .||.||..+..         +..|..+.+++..+...
T Consensus        14 ~~~~C~iC~~~~~-~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~n~~l~~~i~~~~p~   88 (115)
T 3l11_A           14 SECQCGICMEILV-EPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVELWTIIQKHYPR   88 (115)
T ss_dssp             HHHBCTTTCSBCS-SCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHHHHHHHHHTTCCBCHHHHHHHHHHSHH
T ss_pred             CCCCCccCCcccC-ceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCccccccccccchhhHHHHHHHHHHCCH
Confidence            5799999999998 99999999999999999985     49999998863         56788888888887644

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=98.97  E-value=1.9e-10  Score=100.00  Aligned_cols=61  Identities=20%  Similarity=0.258  Sum_probs=55.7

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcCCcc--cchhhHHHHHHHHHHhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGADIEK--IEADTTLQDVVDRFIEG  149 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~--~~~n~~l~~~~~~~~~~  149 (392)
                      ..|.||||++++. +|++++|||+||+.||..|+     .||.|+.++..  +.+|..|.++++.+...
T Consensus       105 ~~f~CPI~~elm~-DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~pN~~Lk~~Ie~~~~~  172 (179)
T 2f42_A          105 DYLCGKISFELMR-EPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNLAMKEVIDAFIQE  172 (179)
T ss_dssp             GGGBCTTTCSBCS-SEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECHHHHHHHHHHHHH
T ss_pred             HhhcccCccccCC-CCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcchHHHHHHHHHHHHH
Confidence            5799999999999 99999999999999999984     39999999876  99999999999999754

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.96  E-value=6e-09  Score=100.86  Aligned_cols=182  Identities=10%  Similarity=-0.020  Sum_probs=144.3

Q ss_pred             HHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCc
Q 016262          189 QAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDD  268 (392)
Q Consensus       189 ~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~  268 (392)
                      .++-.+..|++++|...+..+......    .++ .   ......+..++..+..+|++..|+.+++++.+...+...  
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~----~~~-~---~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~--  178 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIF----VKD-R---IEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEA--  178 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGG----CCC-H---HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCST--
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhh----CCC-H---HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcc--
Confidence            455678889999999888754322111    111 1   223455666777777899999999999999988888754  


Q ss_pred             hHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHH
Q 016262          269 LEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQ  348 (392)
Q Consensus       269 ~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~  348 (392)
                        ....+...+.++|.++..+|++++|+.+|++++++.+...        ....++..+.++|.++..+|++++|+.+|+
T Consensus       179 --~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~--------~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~  248 (383)
T 3ulq_A          179 --YNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEK--------QPQLMGRTLYNIGLCKNSQSQYEDAIPYFK  248 (383)
T ss_dssp             --THHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             --chHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcC--------ChHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence              2345678899999999999999999999999999877631        123567889999999999999999999999


Q ss_pred             HHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          349 EAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       349 ~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +++++.+.....|..+.....++.  ++..++++.+|+.+|++|
T Consensus       249 ~al~~~~~~~~~~~~~~~~~~l~~--~~~~~g~~~~A~~~~~~a  290 (383)
T 3ulq_A          249 RAIAVFEESNILPSLPQAYFLITQ--IHYKLGKIDKAHEYHSKG  290 (383)
T ss_dssp             HHHHHHHHTTCGGGHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhhccchhHHHHHHHHHH--HHHHCCCHHHHHHHHHHH
Confidence            999999988665677888888888  899999999999999864

>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=98.95  E-value=2.9e-10  Score=106.36  Aligned_cols=61  Identities=20%  Similarity=0.258  Sum_probs=55.7

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcCCcc--cchhhHHHHHHHHHHhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGADIEK--IEADTTLQDVVDRFIEG  149 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~--~~~n~~l~~~~~~~~~~  149 (392)
                      ..+.||||++++. +|++++|||+||+.||.+|+     .||.|+.++..  +.+|..|.++|+.+...
T Consensus       207 ~~~~c~i~~~~~~-dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~~n~~l~~~i~~~~~~  274 (281)
T 2c2l_A          207 DYLCGKISFELMR-EPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVIDAFISE  274 (281)
T ss_dssp             STTBCTTTCSBCS-SEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHHHHHTT
T ss_pred             cccCCcCcCCHhc-CCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCcccHHHHHHHHHHHHH
Confidence            5689999999999 99999999999999999984     39999999986  89999999999999854

>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=98.95  E-value=2.8e-09  Score=106.18  Aligned_cols=126  Identities=14%  Similarity=-0.055  Sum_probs=102.5

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhH
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLD  322 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~d  322 (392)
                      .+|++.+|+.+++.+++...++-+   .-+..+..++++|+.++..+|+|++|+.+|+++|++++..+.....      +
T Consensus       299 ~~g~~~~a~~~~~~~L~~~~~~lg---~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp------~  369 (429)
T 3qwp_A          299 AHWKWEQVLAMCQAIISSNSERLP---DINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHP------V  369 (429)
T ss_dssp             HTTCHHHHHHHHHHHHTCSSCCCC---TTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCH------H
T ss_pred             hhccHHHHHHHHHHHHHhccCcCC---ccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCCh------H
Confidence            456666777777666555443322   2244577899999999999999999999999999999998765443      8


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh--hcCCCchhHHHhhcchhHHHHH
Q 016262          323 VAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL--TLKPEEAGLEQRCWNSSTTNFQ  379 (392)
Q Consensus       323 la~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l--~~~~~~a~l~~~~~~~~~~~~l  379 (392)
                      ++.++++||.++..+|++++|+.+|++|++|++..  ..||..+.+++++..  ....+
T Consensus       370 ~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~--~~~e~  426 (429)
T 3qwp_A          370 RGVQVMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDLILLLEE--CDANI  426 (429)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHH--HHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHH--HHHHH
Confidence            89999999999999999999999999999999998  888988888877776  54444

>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=98.95  E-value=1.3e-09  Score=108.61  Aligned_cols=116  Identities=10%  Similarity=-0.078  Sum_probs=99.2

Q ss_pred             hHHHHHHHHHHHHHHHHHH--hcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHH
Q 016262          269 LEIIHTLSVSLNKIGDLKY--YGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDG  346 (392)
Q Consensus       269 ~e~~~~l~~~l~~lg~l~~--~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~  346 (392)
                      .+++..+..+...+.....  ..|+|++|+..|+++|++++..+.....      +++.++++||.++..+|++++|+.+
T Consensus       289 e~v~~~~~~~~~~le~~~~~~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp------~~a~~~~nLa~~y~~~g~~~eA~~~  362 (433)
T 3qww_A          289 EAIRDMVRYARNVIEEFRRAKHYKSPSELLEICELSQEKMSSVFEDSNV------YMLHMMYQAMGVCLYMQDWEGALKY  362 (433)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHTTTBCTTSH------HHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHHHhhCccChhch------HHHHHHHHHHHHHHhhcCHHHHHHH
Confidence            3345555555555655543  3589999999999999999886654432      7899999999999999999999999


Q ss_pred             HHHHHHHHHHh--hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          347 FQEAIKRLESL--TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       347 ~~~al~ile~l--~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      |++++++++.+  ..||..+..+++++.  +|..+++|.+|+++|++|
T Consensus       363 ~~~aL~i~~~~lG~~Hp~~a~~l~nLa~--~~~~qg~~~eA~~~~~~A  408 (433)
T 3qww_A          363 GQKIIKPYSKHYPVYSLNVASMWLKLGR--LYMGLENKAAGEKALKKA  408 (433)
T ss_dssp             HHHHHHHHHHHSCSSCHHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCChHHHHHHHHHHH--HHHhccCHHHHHHHHHHH
Confidence            99999999998  899999999999999  999999999999999986

>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=98.94  E-value=3.4e-09  Score=100.09  Aligned_cols=176  Identities=14%  Similarity=0.071  Sum_probs=126.8

Q ss_pred             HHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHH
Q 016262          193 AFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEII  272 (392)
Q Consensus       193 ~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~  272 (392)
                      -...|++++|...+..+.+.....    . ..   ......+..++.++..+|++..|+.+++++.+...+++.     .
T Consensus        46 ~~~~g~~~~A~~~~~~al~~~~~~----~-~~---~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~-----~  112 (307)
T 2ifu_A           46 FKNAKQLEQAKDAYLQEAEAHANN----R-SL---FHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGT-----P  112 (307)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHT----T-CH---HHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTC-----H
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHc----C-CH---HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCC-----H
Confidence            345688888888776544332210    1 11   112334555666776789999999999999988877654     3


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          273 HTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       273 ~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      ......+.++|.++.. |++++|+.+|++++++.....        .....+..+.++|.++..+|++++|+.+|+++++
T Consensus       113 ~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~--------~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  183 (307)
T 2ifu_A          113 DTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEE--------RLRQAAELIGKASRLLVRQQKFDEAAASLQKEKS  183 (307)
T ss_dssp             HHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCC--------ChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3456789999999998 999999999999999877521        1124577889999999999999999999999999


Q ss_pred             HHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          353 RLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       353 ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +.......+........++.  ++..++++.+|+.+|++|
T Consensus       184 ~~~~~~~~~~~~~~~~~~g~--~~~~~g~~~~A~~~~~~a  221 (307)
T 2ifu_A          184 MYKEMENYPTCYKKCIAQVL--VQLHRADYVAAQKCVRES  221 (307)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHcCChhHHHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            98877443333333444444  555668888888888763

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A

Probab=98.93  E-value=4.5e-10  Score=91.60  Aligned_cols=58  Identities=28%  Similarity=0.534  Sum_probs=49.5

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcCCcc--cchhhHHHHHHHHH
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGADIEK--IEADTTLQDVVDRF  146 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~--~~~n~~l~~~~~~~  146 (392)
                      +.+.|+||++++. +|++++|||+||..||..|+     .||.||..+..  +.++..+..++..+
T Consensus        17 ~~~~C~IC~~~~~-~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~~i~~l   81 (118)
T 3hct_A           17 SKYECPICLMALR-EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILSL   81 (118)
T ss_dssp             GGGBCTTTCSBCS-SEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHTS
T ss_pred             CCCCCCcCChhhc-CeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHhcccCHHHHHHHccc
Confidence            5789999999988 89999999999999999983     69999998887  66777776666554

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.93  E-value=1.1e-09  Score=103.51  Aligned_cols=181  Identities=10%  Similarity=0.052  Sum_probs=130.0

Q ss_pred             HHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHH
Q 016262          193 AFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEII  272 (392)
Q Consensus       193 ~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~  272 (392)
                      ++..|++++|...+......+...+.........   -...+...+.++...|++..|+..+..+.+...++..     .
T Consensus         1 ~~~~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~---A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~-----~   72 (307)
T 2ifu_A            1 AIAAQKISEAHEHIAKAEKYLKTSFMKWKPDYDS---AASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRS-----L   72 (307)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHCCCSSSCSCCHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-----H
T ss_pred             CCccchHHHHHHHHHHHHHHccccccCCCCCHHH---HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCC-----H
Confidence            3567889999888876654433111000011110   0111112233455678888999999988888877754     3


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          273 HTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       273 ~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      ......+.+++.++..+|++++|+.+|++++++.+...        .....+..+.++|.++.. |++++|+.+|+++++
T Consensus        73 ~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g--------~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~  143 (307)
T 2ifu_A           73 FHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENG--------TPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAA  143 (307)
T ss_dssp             HHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTT--------CHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHH
Confidence            45667899999999999999999999999999876421        122457889999999999 999999999999999


Q ss_pred             HHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          353 RLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       353 ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +.+........+....+++.  ++..++++.+|+.+|++|
T Consensus       144 ~~~~~~~~~~~~~~~~~lg~--~~~~~g~~~~A~~~~~~a  181 (307)
T 2ifu_A          144 VFENEERLRQAAELIGKASR--LLVRQQKFDEAAASLQKE  181 (307)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHHhCCChhHHHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            99887444445567777888  888999999999999864

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.93  E-value=8.2e-10  Score=81.83  Aligned_cols=44  Identities=32%  Similarity=0.831  Sum_probs=39.6

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-------CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-------DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-------~CP~C~~~~~~  132 (392)
                      +.+.|+||++.+. +|++++|||.||..||..|+       .||.||..+..
T Consensus        19 ~~~~C~IC~~~~~-~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           19 EEVICPICLDILQ-KPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CCCBCTTTCSBCS-SEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             cCCEeccCCcccC-CeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            5689999999988 89999999999999999996       49999987754

>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.92  E-value=1.6e-10  Score=93.21  Aligned_cols=61  Identities=33%  Similarity=0.786  Sum_probs=50.8

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-------CCCCCCcCCcc--cchhhHHHHHHHHHHhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-------DCPLCGADIEK--IEADTTLQDVVDRFIEG  149 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-------~CP~C~~~~~~--~~~n~~l~~~~~~~~~~  149 (392)
                      +.+.|+||++.+. +|++++|||+||..||..|+       .||.||..+..  +..|..+.++++.+...
T Consensus        20 ~~~~C~IC~~~~~-~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~~~~~~~~~   89 (112)
T 1jm7_A           20 KILECPICLELIK-EPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFSQLVEELLKI   89 (112)
T ss_dssp             HHTSCSSSCCCCS-SCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCCSSSHHHHHHHHH
T ss_pred             CCCCCcccChhhc-CeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhcCccHHHHHHHHHHHHH
Confidence            3578999999988 89999999999999999883       59999998876  66676667777766643

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B

Probab=98.92  E-value=3.9e-10  Score=97.52  Aligned_cols=60  Identities=25%  Similarity=0.657  Sum_probs=52.2

Q ss_pred             CceeccccccccccCceec-ccCcHhHHHhHHhcC-----CCCCCCcCCcc---cchhhHHHHHHHHHHh
Q 016262           88 GPLSCMICQALLFECSKCT-PCSHVYCKACISRFK-----DCPLCGADIEK---IEADTTLQDVVDRFIE  148 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~-~C~h~fC~~Ci~~~~-----~CP~C~~~~~~---~~~n~~l~~~~~~~~~  148 (392)
                      ..+.|+||++++. +|+++ +|||+||..||..|+     .||.||..+..   +.+|..+.+++..+..
T Consensus        53 ~~~~C~IC~~~~~-~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~~~~l~~~i~~~~~  121 (165)
T 2ckl_B           53 SELMCPICLDMLK-NTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKIYP  121 (165)
T ss_dssp             HHHBCTTTSSBCS-SEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSGGGEEECHHHHHHHHHHC-
T ss_pred             CCCCCcccChHhh-CcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCcccCCcCHHHHHHHHHHHc
Confidence            4689999999999 78776 999999999999983     39999998854   8899999999998864

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.89  E-value=2.6e-09  Score=108.04  Aligned_cols=114  Identities=10%  Similarity=-0.044  Sum_probs=97.4

Q ss_pred             HHHHHHHHHHHHHHH--HHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHH
Q 016262          271 IIHTLSVSLNKIGDL--KYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQ  348 (392)
Q Consensus       271 ~~~~l~~~l~~lg~l--~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~  348 (392)
                      +...++.....++..  +..+|++++|+..|+++|++++..+.....      +++.++++||.++..+|++++|+.+|+
T Consensus       302 v~~~l~~a~~~le~a~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp------~~a~~~~nLa~~y~~~g~~~eA~~~~~  375 (490)
T 3n71_A          302 VKEMIQFSKDTLEKIDKARSEGLYHEVVKLCRECLEKQEPVFADTNL------YVLRLLSIASEVLSYLQAYEEASHYAR  375 (490)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSH------HHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCH------HHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            444444444444333  346799999999999999999887654432      789999999999999999999999999


Q ss_pred             HHHHHHHHh--hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          349 EAIKRLESL--TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       349 ~al~ile~l--~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +++++.+.+  ..||..+..+++++.  +|..+++|.+|+++|++|
T Consensus       376 ~aL~i~~~~lG~~Hp~~a~~l~nLa~--~~~~~G~~~eA~~~~~~A  419 (490)
T 3n71_A          376 RMVDGYMKLYHHNNAQLGMAVMRAGL--TNWHAGHIEVGHGMICKA  419 (490)
T ss_dssp             HHHHHHHHHSCTTCHHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHH--HHHHCCCHHHHHHHHHHH
Confidence            999999998  999999999999999  999999999999999986

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=98.89  E-value=2.6e-10  Score=86.98  Aligned_cols=52  Identities=27%  Similarity=0.706  Sum_probs=43.5

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhc----------CCCCCCCcCCcc--cchhhHHH
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRF----------KDCPLCGADIEK--IEADTTLQ  140 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~----------~~CP~C~~~~~~--~~~n~~l~  140 (392)
                      +.+.|+||++.+. +|++++|||+||..||..|          ..||.||..+..  +.+|..+.
T Consensus        18 ~~~~C~IC~~~~~-~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~l~   81 (85)
T 2ecw_A           18 EEVTCPICLELLK-EPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPNLHVA   81 (85)
T ss_dssp             TTTSCTTTCSCCS-SCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCEECSCCC
T ss_pred             cCCCCcCCChhhC-cceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCCcCHHHH
Confidence            5689999999988 8999999999999999886          249999998875  56665543

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.88  E-value=4e-08  Score=90.67  Aligned_cols=191  Identities=16%  Similarity=0.151  Sum_probs=145.1

Q ss_pred             hHhHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhC
Q 016262          185 FLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKL  264 (392)
Q Consensus       185 cl~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L  264 (392)
                      .+...+.-.+..|++++|...+..+..........  ..    +.....+..++.++...|++..|+.+++.+.....++
T Consensus        29 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~--~~----~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  102 (311)
T 3nf1_A           29 TLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGH--DH----PDVATMLNILALVYRDQNKYKDAANLLNDALAIREKT  102 (311)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCS--SS----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCC--CC----HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence            45555666788999999999998665544332210  11    2233455566667768899999999999887776654


Q ss_pred             CCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHH
Q 016262          265 PMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAV  344 (392)
Q Consensus       265 ~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~  344 (392)
                      .+..   ..........++.++...|++++|+.+|++++++.+.......      ...+..+.++|.++..+|++++|+
T Consensus       103 ~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~------~~~~~~~~~la~~~~~~~~~~~A~  173 (311)
T 3nf1_A          103 LGKD---HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDH------PDVAKQLNNLALLCQNQGKYEEVE  173 (311)
T ss_dssp             HCTT---CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTC------HHHHHHHHHHHHHHHTTTCHHHHH
T ss_pred             hCCC---ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCC------hHHHHHHHHHHHHHHHcCCHHHHH
Confidence            2211   2345678899999999999999999999999998877643322      255778889999999999999999


Q ss_pred             HHHHHHHHHHHHh--hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          345 DGFQEAIKRLESL--TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       345 ~~~~~al~ile~l--~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .+|++++++.+..  ..++....+...++.  ++..++++.+|+.+|++|
T Consensus       174 ~~~~~a~~~~~~~~~~~~~~~~~~~~~la~--~~~~~g~~~~A~~~~~~a  221 (311)
T 3nf1_A          174 YYYQRALEIYQTKLGPDDPNVAKTKNNLAS--CYLKQGKFKQAETLYKEI  221 (311)
T ss_dssp             HHHHHHHHHHHHTSCTTCHHHHHHHHHHHH--HHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            9999999999887  556666777777777  888999999999998764

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.88  E-value=2.7e-10  Score=80.12  Aligned_cols=44  Identities=36%  Similarity=0.792  Sum_probs=39.0

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhc-CCCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRF-KDCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~-~~CP~C~~~~~~  132 (392)
                      +.+.|+||++.+. +|++++|||+||..||..| ..||.||..+..
T Consensus         5 ~~~~C~IC~~~~~-~p~~l~CgH~fC~~Ci~~~~~~CP~Cr~~~~~   49 (56)
T 1bor_A            5 QFLRCQQCQAEAK-CPKLLPCLHTLCSGCLEASGMQCPICQAPWPL   49 (56)
T ss_dssp             CCSSCSSSCSSCB-CCSCSTTSCCSBTTTCSSSSSSCSSCCSSSSC
T ss_pred             cCCCceEeCCccC-CeEEcCCCCcccHHHHccCCCCCCcCCcEeec
Confidence            5689999999988 8999999999999999886 369999987654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.88  E-value=5.8e-09  Score=101.01  Aligned_cols=183  Identities=13%  Similarity=0.035  Sum_probs=141.3

Q ss_pred             hHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCC
Q 016262          187 VQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPM  266 (392)
Q Consensus       187 ~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~  266 (392)
                      +-.++-.+..|++++|...+..+......    ..+ .   +.....+..++.++..+|++..|+.+++++.+.......
T Consensus       105 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~----~~~-~---~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~  176 (378)
T 3q15_A          105 FFRGMYEFDQKEYVEAIGYYREAEKELPF----VSD-D---IEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPL  176 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTGGG----CCC-H---HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTT
T ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHHhh----CCC-h---HHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCC
Confidence            44455678899999999988754322111    111 1   234556667777777899999999999999888877644


Q ss_pred             CchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHH
Q 016262          267 DDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDG  346 (392)
Q Consensus       267 ~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~  346 (392)
                          ....+...+.++|.++..+|++++|+.+|++++++.+....        ...++..+.++|.++..+|++++|+.+
T Consensus       177 ----~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~--------~~~~~~~~~~lg~~y~~~~~~~~A~~~  244 (378)
T 3q15_A          177 ----YSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQN--------DRFIAISLLNIANSYDRSGDDQMAVEH  244 (378)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC--------HHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             ----chhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCC--------HHHHHHHHHHHHHHHHHCCCHHHHHHH
Confidence                13356788999999999999999999999999998765311        125678899999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          347 FQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       347 ~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      |++++++.+..... ..+.....++.  ++..++++.+|+.+|++|
T Consensus       245 ~~~al~~~~~~~~~-~~~~~~~~la~--~~~~~g~~~~A~~~~~~a  287 (378)
T 3q15_A          245 FQKAAKVSREKVPD-LLPKVLFGLSW--TLCKAGQTQKAFQFIEEG  287 (378)
T ss_dssp             HHHHHHHHHHHCGG-GHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhCCh-hHHHHHHHHHH--HHHHCCCHHHHHHHHHHH
Confidence            99999998887332 33667777777  888999999999998864

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens}

Probab=98.88  E-value=4.7e-10  Score=83.56  Aligned_cols=43  Identities=30%  Similarity=0.821  Sum_probs=38.5

Q ss_pred             CceeccccccccccCceecc-cCcHhHHHhHHhcC------CCCCCCcCCc
Q 016262           88 GPLSCMICQALLFECSKCTP-CSHVYCKACISRFK------DCPLCGADIE  131 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~-C~h~fC~~Ci~~~~------~CP~C~~~~~  131 (392)
                      +.+.|+||++++. +|++++ |||+||..||..|+      .||.||..+.
T Consensus        14 ~~~~C~IC~~~~~-~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   63 (74)
T 2yur_A           14 DELLCLICKDIMT-DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   63 (74)
T ss_dssp             GGGSCSSSCCCCT-TCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSC
T ss_pred             CCCCCcCCChHHh-CCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCC
Confidence            5689999999998 899999 99999999999983      5999998654

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.87  E-value=1.1e-09  Score=81.13  Aligned_cols=44  Identities=32%  Similarity=0.810  Sum_probs=39.0

Q ss_pred             CceeccccccccccCceec-ccCcHhHHHhHHhcC----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCT-PCSHVYCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~-~C~h~fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      +.+.|+||++.+. +|+++ +|||+||..||..|+    .||.||..+..
T Consensus        14 ~~~~C~IC~~~~~-~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (72)
T 2djb_A           14 PYILCSICKGYLI-DATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQ   62 (72)
T ss_dssp             GGGSCTTTSSCCS-SCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCS
T ss_pred             CCCCCCCCChHHH-CcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCc
Confidence            5689999999998 78876 999999999999984    59999998765

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.87  E-value=9.3e-09  Score=89.37  Aligned_cols=172  Identities=17%  Similarity=0.122  Sum_probs=126.0

Q ss_pred             HHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHH
Q 016262          193 AFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEII  272 (392)
Q Consensus       193 ~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~  272 (392)
                      ++..|++++|...+....        ..+.      .....+..++..+...|++..++.+++++......+..     .
T Consensus         2 ~~~~g~~~~A~~~~~~~~--------~~~~------~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~-----~   62 (203)
T 3gw4_A            2 AFEAHDYALAERQAQALL--------AHPA------TASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGD-----H   62 (203)
T ss_dssp             -----CHHHHHHHHHHHH--------TSTT------THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCC-----H
T ss_pred             ccccccHHHHHHHHHHhc--------CChH------HHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCC-----c
Confidence            356788888888433221        1110      12334555666666789999999999999888887754     4


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          273 HTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       273 ~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      ......+.+++.++...|++++|+.+|++++++.+...    .   .....+..+.++|.++..+|++++|+.+|+++++
T Consensus        63 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~----~---~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  135 (203)
T 3gw4_A           63 TAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLP----E---DPLAASANAYEVATVALHFGDLAGARQEYEKSLV  135 (203)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC----C---CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcC----c---cHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            45667899999999999999999999999999877421    1   1124577889999999999999999999999999


Q ss_pred             HHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          353 RLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       353 ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +.+........+.....++.  ++..++++.+++.+|++|
T Consensus       136 ~~~~~~~~~~~~~~~~~la~--~~~~~g~~~~A~~~~~~a  173 (203)
T 3gw4_A          136 YAQQADDQVAIACAFRGLGD--LAQQEKNLLEAQQHWLRA  173 (203)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHHhccchHHHHHHHHHHHH--HHHHCcCHHHHHHHHHHH
Confidence            98877544444555566666  788888999998888764

>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=98.87  E-value=3.2e-08  Score=92.42  Aligned_cols=181  Identities=7%  Similarity=-0.097  Sum_probs=132.4

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCch
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDL  269 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~  269 (392)
                      ....+..|++++|...+.....       ........ ......+..++..+...+++..|+.+++.+.........   
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~-------~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~---  150 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELK-------KEEYHPEF-QQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGID---  150 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHT-------TCCCCHHH-HHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSC---
T ss_pred             HHHHHHHhhHHHHHHHHHHHhc-------cccCChHH-HHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhccccc---
Confidence            3456788999999888863321       12222211 111112223444554667889999999888763332222   


Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 016262          270 EIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQE  349 (392)
Q Consensus       270 e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~  349 (392)
                       . ......+++||.++..+|++++|+.+|++++++.+...       .....++..+.++|.++..+|++++|+.+|++
T Consensus       151 -~-~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~-------~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~  221 (293)
T 3u3w_A          151 -V-YQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALH-------DNEEFDVKVRYNHAKALYLDSRYEESLYQVNK  221 (293)
T ss_dssp             -T-THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSS-------CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             -H-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcc-------cchhHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence             1 23455789999999999999999999999999776531       12236678899999999999999999999999


Q ss_pred             HHHHHHHhhcCCCchhHHHhhcchhHHHHHHh-hhccccchhcC
Q 016262          350 AIKRLESLTLKPEEAGLEQRCWNSSTTNFQKN-HLNQLPKFRSA  392 (392)
Q Consensus       350 al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~-~~~~l~~~~~~  392 (392)
                      ++++.+........+.+...++.  ++..+++ +.+|+.+|++|
T Consensus       222 al~~~~~~~~~~~~~~~~~~lg~--~~~~~g~~~~~A~~~~~~A  263 (293)
T 3u3w_A          222 AIEISCRINSMALIGQLYYQRGE--CLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHTTBCTTHHHHHHHHHH--HHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHH--HHHHhCCcHHHHHHHHHHH
Confidence            99999998777778888889998  8888994 69999999875

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.87  E-value=9.2e-10  Score=81.25  Aligned_cols=44  Identities=30%  Similarity=0.754  Sum_probs=39.2

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      +.+.|+||++.+. +|+.++|||.||..||..|.    .||.||..+..
T Consensus        14 ~~~~C~IC~~~~~-~~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           14 TVPECAICLQTCV-HPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SCCBCSSSSSBCS-SEEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCccCCcccC-CCEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            5689999999988 89999999999999999984    49999987654

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.87  E-value=8.9e-10  Score=80.07  Aligned_cols=44  Identities=30%  Similarity=0.782  Sum_probs=39.3

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~  132 (392)
                      +.+.|+||++.+. +|++++|||+||..||..|+     .||.||..+..
T Consensus        14 ~~~~C~IC~~~~~-~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (66)
T 2ecy_A           14 DKYKCEKCHLVLC-SPKQTECGHRFCESCMAALLSSSSPKCTACQESIVK   62 (66)
T ss_dssp             CCEECTTTCCEES-SCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCT
T ss_pred             cCCCCCCCChHhc-CeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCCh
Confidence            5699999999988 89999999999999999985     49999987653

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens}

Probab=98.86  E-value=3e-10  Score=95.63  Aligned_cols=51  Identities=22%  Similarity=0.574  Sum_probs=42.8

Q ss_pred             CCCCCCC---ccCceeccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcCC
Q 016262           79 GYDAQSF---KIGPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGADI  130 (392)
Q Consensus        79 ~~~~~~~---~~~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~  130 (392)
                      ||+...+   ..+.+.|+||++++. +|++++|||+||..||..|+     .||.||..+
T Consensus        18 g~~~~~~~~~l~~~~~C~IC~~~~~-~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   76 (141)
T 3knv_A           18 GFSKTLLGTKLEAKYLCSACRNVLR-RPFQAQCGHRYCSFCLASILSSGPQNCAACVHEG   76 (141)
T ss_dssp             SBCGGGTGGGCCGGGBCTTTCSBCS-SEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTT
T ss_pred             CcchhhhhccCCcCcCCCCCChhhc-CcEECCCCCccCHHHHHHHHhcCCCCCCCCCCcc
Confidence            6665544   225799999999999 99999999999999999994     499999865

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.85  E-value=1.1e-08  Score=95.82  Aligned_cols=176  Identities=11%  Similarity=0.031  Sum_probs=122.9

Q ss_pred             HhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHH
Q 016262          194 FRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIH  273 (392)
Q Consensus       194 ~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~  273 (392)
                      ...|++++|...+..+.+.....     ...   ......+..++.++..+|++.+|+.+++.+.+....++.     ..
T Consensus        48 ~~~g~~~~A~~~~~~al~~~~~~-----~~~---~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~-----~~  114 (292)
T 1qqe_A           48 RLRKELNLAGDSFLKAADYQKKA-----GNE---DEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQ-----FR  114 (292)
T ss_dssp             HHTTCTHHHHHHHHHHHHHHHHT-----TCH---HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-----HH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHh-----CCH---HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCC-----HH
Confidence            35678888887776554332210     111   112345566677777889999999999999888877654     33


Q ss_pred             HHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          274 TLSVSLNKIGDLKYYG-GDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       274 ~l~~~l~~lg~l~~~~-g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      .....+.++|.++... |++++|+.+|++++++.....        .....+..+.++|.++..+|++++|+..|+++++
T Consensus       115 ~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~--------~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  186 (292)
T 1qqe_A          115 RGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQ--------SVALSNKCFIKCADLKALDGQYIEASDIYSKLIK  186 (292)
T ss_dssp             HHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCC--------ChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4567899999999996 999999999999999876421        1113466789999999999999999999999886


Q ss_pred             HHHHhhc-CCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          353 RLESLTL-KPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       353 ile~l~~-~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +...... ..........++.  ++..++++..|+.+|++|
T Consensus       187 ~~~~~~~~~~~~~~~~~~lg~--~~~~~g~~~~A~~~~~~a  225 (292)
T 1qqe_A          187 SSMGNRLSQWSLKDYFLKKGL--CQLAATDAVAAARTLQEG  225 (292)
T ss_dssp             TTSSCTTTGGGHHHHHHHHHH--HHHHTTCHHHHHHHHHGG
T ss_pred             HHhcCCcccHHHHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            5322211 0111123445555  677788888888888764

>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=98.85  E-value=2.4e-08  Score=90.54  Aligned_cols=190  Identities=15%  Similarity=0.051  Sum_probs=138.5

Q ss_pred             HhHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCC
Q 016262          186 LVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLP  265 (392)
Q Consensus       186 l~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~  265 (392)
                      +...+.-.+..|++++|...+..+.......+.  ...    +.....+..++.++...|++..|+.+++.+.....++.
T Consensus        46 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~--~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~  119 (283)
T 3edt_B           46 LNILALVYRDQNKYKEAAHLLNDALAIREKTLG--KDH----PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVL  119 (283)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC--TTC----HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcC--Ccc----hHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHc
Confidence            344455567889999999988766544333211  111    22344556667777788999999999999987766653


Q ss_pred             CCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHH
Q 016262          266 MDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVD  345 (392)
Q Consensus       266 ~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~  345 (392)
                      +..   .......+.+++.++...|++++|+.+|++++++.+.......      ...+..+.++|.++..+|++++|+.
T Consensus       120 ~~~---~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~------~~~~~~~~~la~~~~~~g~~~~A~~  190 (283)
T 3edt_B          120 GKF---HPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDD------PNVAKTKNNLASCYLKQGKYQDAET  190 (283)
T ss_dssp             CTT---CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTC------HHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCC---ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCC------HHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            322   1334668899999999999999999999999998776543222      2557788899999999999999999


Q ss_pred             HHHHHHHHHHHhh-------------------------------------------cCCCchhHHHhhcchhHHHHHHhh
Q 016262          346 GFQEAIKRLESLT-------------------------------------------LKPEEAGLEQRCWNSSTTNFQKNH  382 (392)
Q Consensus       346 ~~~~al~ile~l~-------------------------------------------~~~~~a~l~~~~~~~~~~~~l~~~  382 (392)
                      .|++++++.....                                           .+|........++.  ++..++++
T Consensus       191 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~--~~~~~g~~  268 (283)
T 3edt_B          191 LYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGA--LYRRQGKL  268 (283)
T ss_dssp             HHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHH--HHHHTTCH
T ss_pred             HHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH--HHHHcCCH
Confidence            9999999865521                                           23444555566666  78888999


Q ss_pred             hccccchhcC
Q 016262          383 LNQLPKFRSA  392 (392)
Q Consensus       383 ~~~l~~~~~~  392 (392)
                      .+|+.+|++|
T Consensus       269 ~~A~~~~~~a  278 (283)
T 3edt_B          269 EAAHTLEDCA  278 (283)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998864

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.85  E-value=3.1e-10  Score=86.55  Aligned_cols=52  Identities=27%  Similarity=0.733  Sum_probs=43.6

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhc----------CCCCCCCcCCcc--cchhhHHH
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRF----------KDCPLCGADIEK--IEADTTLQ  140 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~----------~~CP~C~~~~~~--~~~n~~l~  140 (392)
                      +.+.|+||++.+. +|+.++|||+||..||..|          ..||.||..+..  +.+|..+.
T Consensus        18 ~~~~C~IC~~~~~-~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~l~   81 (85)
T 2ecv_A           18 EEVTCPICLELLT-QPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPNRHVA   81 (85)
T ss_dssp             CCCCCTTTCSCCS-SCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCCCSCCCC
T ss_pred             CCCCCCCCCcccC-CceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcCccHHHH
Confidence            4689999999988 8999999999999999886          359999998875  55565443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.84  E-value=1.4e-08  Score=83.90  Aligned_cols=146  Identities=15%  Similarity=0.137  Sum_probs=117.0

Q ss_pred             hhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhh
Q 016262          232 AVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVK  311 (392)
Q Consensus       232 ~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~  311 (392)
                      ..+..++..+...|++..++.+++++.+.......     ...+......++.++...|++++|+.+|++++++......
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~   84 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGD-----KAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKD   84 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC-----HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCC-----chHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCC
Confidence            34455566666788899999999999888776544     3455678899999999999999999999999998766311


Q ss_pred             cCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          312 RHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       312 ~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                              ....+..+.++|.++..+|++++|+.+|++++++.+.....+..+.....++.  ++..++++.+++.+|++
T Consensus        85 --------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~--~~~~~g~~~~A~~~~~~  154 (164)
T 3ro3_A           85 --------RAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGN--AYTALGNHDQAMHFAEK  154 (164)
T ss_dssp             --------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHHHHTCHHHHHHHHHH
T ss_pred             --------cHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHH--HHHHccCHHHHHHHHHH
Confidence                    12456778899999999999999999999999999888655555666667776  88889999999998876


Q ss_pred             C
Q 016262          392 A  392 (392)
Q Consensus       392 ~  392 (392)
                      |
T Consensus       155 a  155 (164)
T 3ro3_A          155 H  155 (164)
T ss_dssp             H
T ss_pred             H
Confidence            4

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.84  E-value=1.1e-08  Score=95.76  Aligned_cols=137  Identities=9%  Similarity=-0.008  Sum_probs=111.8

Q ss_pred             cccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchh
Q 016262          241 CRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQV  320 (392)
Q Consensus       241 C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~  320 (392)
                      +...|++..|+..++.+.+...+++.     .......+.++|.++..+|++++|+.+|++++++.....        ..
T Consensus        47 ~~~~g~~~~A~~~~~~al~~~~~~~~-----~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g--------~~  113 (292)
T 1qqe_A           47 YRLRKELNLAGDSFLKAADYQKKAGN-----EDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRG--------QF  113 (292)
T ss_dssp             HHHTTCTHHHHHHHHHHHHHHHHTTC-----HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--------CH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhCC-----HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcC--------CH
Confidence            34678889999999999888877754     344567899999999999999999999999999876532        12


Q ss_pred             hHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          321 LDVAVSLAKVADVDRSI-GNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       321 ~dla~sl~~l~~v~~~l-g~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ...+..+.++|.++..+ |++++|+.+|++++++..........+.....++.  ++..++++.+|+.+|++|
T Consensus       114 ~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~--~~~~~g~~~~A~~~~~~a  184 (292)
T 1qqe_A          114 RRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCAD--LKALDGQYIEASDIYSKL  184 (292)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHH--HHHHhCCHHHHHHHHHHH
Confidence            24577899999999995 99999999999999998876433333556677777  888999999999999864

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=98.83  E-value=3.1e-09  Score=96.89  Aligned_cols=62  Identities=18%  Similarity=0.291  Sum_probs=54.4

Q ss_pred             CceeccccccccccCcee-cccCcHhHHHhHHhcCC------CCC--CCcCCcc--cchhhHHHHHHHHHHhhh
Q 016262           88 GPLSCMICQALLFECSKC-TPCSHVYCKACISRFKD------CPL--CGADIEK--IEADTTLQDVVDRFIEGH  150 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~-~~C~h~fC~~Ci~~~~~------CP~--C~~~~~~--~~~n~~l~~~~~~~~~~~  150 (392)
                      ..+.||||+++|. +|++ +.|||+||+.||..||.      ||.  |+..+..  +.+|..|.++++.+....
T Consensus       180 ~el~CPIcl~~f~-DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~pN~~L~~lve~~k~r~  252 (267)
T 3htk_C          180 IELTCPITCKPYE-APLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPIMELRCKIAKMKE  252 (267)
T ss_dssp             CCSBCTTTSSBCS-SEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEECHHHHHHHHHHHHHH
T ss_pred             eeeECcCccCccc-CCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCcCHHHHHHHHHHHHHH
Confidence            4699999999999 8887 49999999999999863      999  9998776  999999999998886543

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=98.81  E-value=8.6e-10  Score=82.18  Aligned_cols=44  Identities=30%  Similarity=0.680  Sum_probs=40.8

Q ss_pred             CceeccccccccccCceecccCcH-hHHHhHHhcCCCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHV-YCKACISRFKDCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~-fC~~Ci~~~~~CP~C~~~~~~  132 (392)
                      +.+.|+||++.+. +++.++|||. ||..|+..|..||.||..+..
T Consensus        23 ~~~~C~iC~~~~~-~~~~~pCgH~~~C~~C~~~~~~CP~Cr~~i~~   67 (74)
T 4ic3_A           23 EEKLCKICMDRNI-AIVFVPCGHLVTCKQCAEAVDKCPMCYTVITF   67 (74)
T ss_dssp             HHTBCTTTSSSBC-CEEEETTCCBCCCHHHHTTCSBCTTTCCBCSE
T ss_pred             cCCCCCCCCCCCC-CEEEcCCCChhHHHHhhhcCccCCCcCcCccC
Confidence            3689999999988 9999999999 999999999999999998876

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.79  E-value=1.5e-09  Score=78.53  Aligned_cols=44  Identities=25%  Similarity=0.739  Sum_probs=37.7

Q ss_pred             Cceecccccc-ccccCc----eecccCcHhHHHhHHhc-----CCCCCCCcCCcc
Q 016262           88 GPLSCMICQA-LLFECS----KCTPCSHVYCKACISRF-----KDCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~-~~~~~p----~~~~C~h~fC~~Ci~~~-----~~CP~C~~~~~~  132 (392)
                      +++.|+||++ ++. .|    ++++|||+||..||.+|     ..||.||..+..
T Consensus         2 ~~~~C~IC~~~~~~-~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            2 DDQGCPRCKTTKYR-NPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHH-CSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCcCCcCCCCccC-CCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccc
Confidence            4688999999 877 66    57899999999999998     349999998765

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.79  E-value=9.9e-10  Score=84.43  Aligned_cols=44  Identities=27%  Similarity=0.716  Sum_probs=39.0

Q ss_pred             CceeccccccccccC----ceecccCcHhHHHhHHhc-------CCCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFEC----SKCTPCSHVYCKACISRF-------KDCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~----p~~~~C~h~fC~~Ci~~~-------~~CP~C~~~~~~  132 (392)
                      +.+.|+||++.+. +    |++++|||.||..||..|       ..||.||..+..
T Consensus        14 ~~~~C~IC~~~~~-~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A           14 EVLECPICMESFT-EEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             SCCBCTTTCCBCC-TTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             CCCCCccCCcccc-ccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            5689999999988 6    999999999999999998       359999997754

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1

Probab=98.79  E-value=2.1e-09  Score=87.23  Aligned_cols=57  Identities=26%  Similarity=0.623  Sum_probs=46.0

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcCCcc---cchhhHHHHHHHH
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGADIEK---IEADTTLQDVVDR  145 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~---~~~n~~l~~~~~~  145 (392)
                      +.+.|+||++++. +|++++|||+||..||..|+     .||.||..+..   ..++..+.+++..
T Consensus        22 ~~~~C~IC~~~~~-~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~l~~~i~~   86 (116)
T 1rmd_A           22 KSISCQICEHILA-DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNILNS   86 (116)
T ss_dssp             HHTBCTTTCSBCS-SEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHHHHHHHH
T ss_pred             CCCCCCCCCcHhc-CcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhccccHHHHHHHHHH
Confidence            4689999999988 99999999999999999883     59999999876   3445555554443

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.77  E-value=1.7e-09  Score=77.71  Aligned_cols=38  Identities=34%  Similarity=0.903  Sum_probs=34.5

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-------CCCCC
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-------DCPLC  126 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-------~CP~C  126 (392)
                      +.+.|+||++.+. +|++++|||+||..||.+|+       .||.|
T Consensus        19 ~~~~C~IC~~~~~-~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           19 EEVICPICLDILQ-KPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCBCTTTCSBCS-SCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             cCCCCCcCCchhC-CeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            5689999999988 89999999999999999984       49987

>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=98.77  E-value=2.4e-08  Score=81.73  Aligned_cols=105  Identities=13%  Similarity=0.065  Sum_probs=87.1

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      ....+.+++++|..++..|++++|+.+|.+++++       .+.       -+..+.++|.++..+|++++|+..|++++
T Consensus         4 ~~d~A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~-------~p~-------~~~~~~nlg~~~~~~~~~~~A~~~~~~al   69 (127)
T 4gcn_A            4 MTDAAIAEKDLGNAAYKQKDFEKAHVHYDKAIEL-------DPS-------NITFYNNKAAVYFEEKKFAECVQFCEKAV   69 (127)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------CCC-------CHHHHHhHHHHHHHhhhHHHHHHHHHHHH
Confidence            4456778999999999999999999999999976       232       25678999999999999999999999999


Q ss_pred             HHHHHh-hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          352 KRLESL-TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       352 ~ile~l-~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ++-... ...+..+.+..+++.  .+..++++.+|+.+|++|
T Consensus        70 ~~~~~~~~~~~~~a~~~~~lg~--~~~~~~~~~~A~~~~~ka  109 (127)
T 4gcn_A           70 EVGRETRADYKLIAKAMSRAGN--AFQKQNDLSLAVQWFHRS  109 (127)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HhCcccchhhHHHHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            987765 333444556677777  888999999999999864

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.76  E-value=1e-07  Score=87.85  Aligned_cols=188  Identities=15%  Similarity=0.088  Sum_probs=135.7

Q ss_pred             HHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCC
Q 016262          188 QQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMD  267 (392)
Q Consensus       188 c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~  267 (392)
                      ..+.-.+..|++++|...+..+.......+..  ..    +.....+..++.++...|++..|+.+++++.+....+.+.
T Consensus        74 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~--~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~  147 (311)
T 3nf1_A           74 ILALVYRDQNKYKDAANLLNDALAIREKTLGK--DH----PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGK  147 (311)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT--TC----HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC--CC----hHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCC
Confidence            33444667889999998887655443332211  11    2223445556666668899999999999987776654221


Q ss_pred             chHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHH
Q 016262          268 DLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGF  347 (392)
Q Consensus       268 ~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~  347 (392)
                      .   .......+..++.++...|++++|+.+|++++++.+.......      ...+..+.++|.++..+|++++|+..|
T Consensus       148 ~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~------~~~~~~~~~la~~~~~~g~~~~A~~~~  218 (311)
T 3nf1_A          148 D---HPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDD------PNVAKTKNNLASCYLKQGKFKQAETLY  218 (311)
T ss_dssp             T---CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTC------HHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             C---ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            1   2345678899999999999999999999999998766432211      245677889999999999999999999


Q ss_pred             HHHHHHHHHh-------------------------------------------hcCCCchhHHHhhcchhHHHHHHhhhc
Q 016262          348 QEAIKRLESL-------------------------------------------TLKPEEAGLEQRCWNSSTTNFQKNHLN  384 (392)
Q Consensus       348 ~~al~ile~l-------------------------------------------~~~~~~a~l~~~~~~~~~~~~l~~~~~  384 (392)
                      ++++++....                                           ..+|..+.+...++.  .+..++++.+
T Consensus       219 ~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~--~~~~~g~~~~  296 (311)
T 3nf1_A          219 KEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGA--LYRRQGKFEA  296 (311)
T ss_dssp             HHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHH--HHHHHTCHHH
T ss_pred             HHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHH--HHHHCCCHHH
Confidence            9999986542                                           145666666667777  8888999999


Q ss_pred             cccchhcC
Q 016262          385 QLPKFRSA  392 (392)
Q Consensus       385 ~l~~~~~~  392 (392)
                      |+.+|++|
T Consensus       297 A~~~~~~a  304 (311)
T 3nf1_A          297 AETLEEAA  304 (311)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99999864

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.75  E-value=3.4e-09  Score=77.40  Aligned_cols=43  Identities=35%  Similarity=0.794  Sum_probs=37.9

Q ss_pred             CceeccccccccccCc-------eecccCcHhHHHhHHhcC----CCCCCCcCCc
Q 016262           88 GPLSCMICQALLFECS-------KCTPCSHVYCKACISRFK----DCPLCGADIE  131 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p-------~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~  131 (392)
                      +.+.|+||++.+. ++       ++++|||.||..||..|.    .||.||..+.
T Consensus        14 ~~~~C~IC~~~~~-~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   67 (69)
T 2ea6_A           14 GTVSCPICMDGYS-EIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN   67 (69)
T ss_dssp             CCCCCTTTCCCHH-HHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             CCCCCcccCcccc-ccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccC
Confidence            5689999999988 55       899999999999999993    6999998765

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens}

Probab=98.74  E-value=2.7e-09  Score=92.63  Aligned_cols=58  Identities=28%  Similarity=0.534  Sum_probs=49.6

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcCCcc--cchhhHHHHHHHHH
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGADIEK--IEADTTLQDVVDRF  146 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~--~~~n~~l~~~~~~~  146 (392)
                      +.+.|+||++++. +|++++|||+||..||..|+     .||.||..+..  +.++..+..++..+
T Consensus        17 ~~~~C~IC~~~~~-~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~~l   81 (170)
T 3hcs_A           17 SKYECPICLMALR-EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILSL   81 (170)
T ss_dssp             GGGBCTTTCSBCS-SEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHTS
T ss_pred             CCCCCCCCChhhc-CcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhhhhhhHHHHHHHhhc
Confidence            5799999999998 89999999999999999983     69999998887  56777776666554

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus}

Probab=98.72  E-value=2.5e-09  Score=78.64  Aligned_cols=44  Identities=34%  Similarity=0.780  Sum_probs=38.9

Q ss_pred             CceeccccccccccCc-------eecccCcHhHHHhHHhcC----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECS-------KCTPCSHVYCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p-------~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      +.+.|+||++.+. +|       +.++|||.||..||..|.    .||.||..+..
T Consensus         9 ~~~~C~IC~~~~~-~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   63 (71)
T 3ng2_A            9 GTVSCPICMDGYS-EIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   63 (71)
T ss_dssp             TCCBCTTTCCBHH-HHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCC
T ss_pred             CCCCCcccChhhh-ccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccCh
Confidence            5689999999988 66       899999999999999984    69999998765

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.71  E-value=1.6e-07  Score=89.96  Aligned_cols=147  Identities=16%  Similarity=0.142  Sum_probs=119.6

Q ss_pred             HhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q 016262          231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAV  310 (392)
Q Consensus       231 ~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~  310 (392)
                      ...+..++.++..+|++..|+.+++++.+.......     ...+...+..++.++...|++++|+.+|++++++.....
T Consensus       187 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~-----~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  261 (406)
T 3sf4_A          187 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGD-----KAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLK  261 (406)
T ss_dssp             HHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTC-----HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCC-----cHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCc
Confidence            445566677777889999999999999888777644     345567899999999999999999999999998876531


Q ss_pred             hcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchh
Q 016262          311 KRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFR  390 (392)
Q Consensus       311 ~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~  390 (392)
                              .....+..+.++|.++..+|++++|+.+|++++++.......+..+.....++.  ++..++++.+|+.+|+
T Consensus       262 --------~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~--~~~~~g~~~~A~~~~~  331 (406)
T 3sf4_A          262 --------DRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGN--AYTALGNHDQAMHFAE  331 (406)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHHHHTCHHHHHHHHH
T ss_pred             --------CchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHH--HHHHcCCHHHHHHHHH
Confidence                    123457788899999999999999999999999999888655566667777777  8888999999999887


Q ss_pred             cC
Q 016262          391 SA  392 (392)
Q Consensus       391 ~~  392 (392)
                      +|
T Consensus       332 ~a  333 (406)
T 3sf4_A          332 KH  333 (406)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.71  E-value=7.7e-09  Score=72.80  Aligned_cols=38  Identities=39%  Similarity=0.928  Sum_probs=34.1

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-------CCCCC
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-------DCPLC  126 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-------~CP~C  126 (392)
                      +.+.|+||++.+. +|++++|||+||..||..|+       .||.|
T Consensus        14 ~~~~C~IC~~~~~-~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           14 VEASCSVCLEYLK-EPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCBCSSSCCBCS-SCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cCCCCccCCcccC-ccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            4689999999988 89999999999999999992       48887

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.70  E-value=1.2e-07  Score=90.98  Aligned_cols=181  Identities=15%  Similarity=0.159  Sum_probs=141.1

Q ss_pred             hHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCC
Q 016262          187 VQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPM  266 (392)
Q Consensus       187 ~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~  266 (392)
                      .-.+...+..|++++|...+......       .+....   .....+..++..+...|++..|+.+++++......+..
T Consensus        13 ~~~g~~~~~~g~~~~A~~~~~~al~~-------~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~   82 (406)
T 3sf4_A           13 ALEGERLCKSGDCRAGVSFFEAAVQV-------GTEDLK---TLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGD   82 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH-------CCSCHH---HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhc-------CcccHH---HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccc
Confidence            44455688899999999988754322       222221   12334555666666889999999999999888777654


Q ss_pred             CchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCC-------
Q 016262          267 DDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGN-------  339 (392)
Q Consensus       267 ~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~-------  339 (392)
                           .......+..++.++...|++++|+.+|++++++.......        ..++..+.++|.++..+|+       
T Consensus        83 -----~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~--------~~~~~~~~~l~~~~~~~g~~~~~~~~  149 (406)
T 3sf4_A           83 -----QLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDK--------VGEARALYNLGNVYHAKGKSFGCPGP  149 (406)
T ss_dssp             -----HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH--------HHHHHHHHHHHHHHHHHHHTCC----
T ss_pred             -----cHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccc--------cchHHHHHHHHHHHHHcCCccccccc
Confidence                 34556788999999999999999999999999988764211        2457788999999999999       


Q ss_pred             -------------HHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          340 -------------EDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       340 -------------~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                                   +++|+.+|++++++.+.....+..+.....++.  ++..++++.+++.+|++|
T Consensus       150 ~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~--~~~~~g~~~~A~~~~~~a  213 (406)
T 3sf4_A          150 QDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGN--THYLLGNFRDAVIAHEQR  213 (406)
T ss_dssp             ---CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHHHHTBHHHHHHHHHHH
T ss_pred             chhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHH--HHHHccCHHHHHHHHHHH
Confidence                         999999999999999988666667777777877  888899999999988764

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.70  E-value=5.8e-09  Score=77.74  Aligned_cols=45  Identities=24%  Similarity=0.785  Sum_probs=38.1

Q ss_pred             ccCceeccccccccccCc---eecccCcHhHHHhHHhc----CCCCCCCcCCc
Q 016262           86 KIGPLSCMICQALLFECS---KCTPCSHVYCKACISRF----KDCPLCGADIE  131 (392)
Q Consensus        86 ~~~~~~C~iC~~~~~~~p---~~~~C~h~fC~~Ci~~~----~~CP~C~~~~~  131 (392)
                      ..+...|+||++.+. .+   +.++|+|.||..||..|    ..||.||..+.
T Consensus        20 ~~~~~~C~IC~~~~~-~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~   71 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFE-SRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSG   71 (75)
T ss_dssp             SSSCCEETTTTEECC-BTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCC
T ss_pred             cCCCCCCeECCcccC-CCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCC
Confidence            335689999999987 54   78899999999999999    35999998765

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.70  E-value=7.3e-08  Score=93.30  Aligned_cols=147  Identities=16%  Similarity=0.123  Sum_probs=119.6

Q ss_pred             HhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q 016262          231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAV  310 (392)
Q Consensus       231 ~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~  310 (392)
                      ...+..++.++...|++..|+.+++++.+.......     .......+..++.++..+|++++|+.+|++++++.....
T Consensus       223 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~-----~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  297 (411)
T 4a1s_A          223 GRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGD-----RAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELG  297 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC-----HHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCC-----cHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcC
Confidence            345556677777889999999999999887776543     344567889999999999999999999999999876531


Q ss_pred             hcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchh
Q 016262          311 KRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFR  390 (392)
Q Consensus       311 ~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~  390 (392)
                              .....+..+..+|.++..+|++++|+.+|++++++.......+..+.+...++.  ++..++++.+|+.+|+
T Consensus       298 --------~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~--~~~~~g~~~~A~~~~~  367 (411)
T 4a1s_A          298 --------EREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGN--AHSAIGGHERALKYAE  367 (411)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HHHHTTCHHHHHHHHH
T ss_pred             --------CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHH--HHHHhccHHHHHHHHH
Confidence                    122457788899999999999999999999999999998655566666777777  8889999999999988


Q ss_pred             cC
Q 016262          391 SA  392 (392)
Q Consensus       391 ~~  392 (392)
                      +|
T Consensus       368 ~a  369 (411)
T 4a1s_A          368 QH  369 (411)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.70  E-value=6.7e-08  Score=93.54  Aligned_cols=146  Identities=16%  Similarity=0.165  Sum_probs=115.7

Q ss_pred             hhhcccccccccccc-----------------hhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHH
Q 016262          232 AVLGMLGDCCRAMGD-----------------ADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQA  294 (392)
Q Consensus       232 ~~L~~fC~~C~~~gd-----------------hh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~  294 (392)
                      ..+..++.++...|+                 +..|+.+++++.+....+..     .......+..++.++...|++++
T Consensus       167 ~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~-----~~~~~~~~~~la~~~~~~g~~~~  241 (411)
T 4a1s_A          167 RALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGD-----RGAQGRACGNLGNTYYLLGDFQA  241 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTC-----HHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCC-----HHHHHHHHHHHHHHHHHcCChHH
Confidence            345556666667778                 77888888887777666543     34566789999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchh
Q 016262          295 ARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSS  374 (392)
Q Consensus       295 A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~  374 (392)
                      |+.+|++++++......        ...++..+.++|.++..+|++++|+.+|++++++..........+.+...++.  
T Consensus       242 A~~~~~~al~~~~~~~~--------~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~--  311 (411)
T 4a1s_A          242 AIEHHQERLRIAREFGD--------RAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGN--  311 (411)
T ss_dssp             HHHHHHHHHHHHHHHTC--------HHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHhcCC--------cHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--
Confidence            99999999998776321        12456788899999999999999999999999999987555555666677777  


Q ss_pred             HHHHHHhhhccccchhcC
Q 016262          375 TTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       375 ~~~~l~~~~~~l~~~~~~  392 (392)
                      ++..++++.+|+.+|++|
T Consensus       312 ~~~~~g~~~~A~~~~~~a  329 (411)
T 4a1s_A          312 TYTLLHEFNTAIEYHNRH  329 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHH
Confidence            888889999999988764

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A

Probab=98.70  E-value=3.2e-09  Score=80.06  Aligned_cols=43  Identities=30%  Similarity=0.923  Sum_probs=40.4

Q ss_pred             ceeccccccccccCceecccCcH-hHHHhHHhcCCCCCCCcCCcc
Q 016262           89 PLSCMICQALLFECSKCTPCSHV-YCKACISRFKDCPLCGADIEK  132 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~~C~h~-fC~~Ci~~~~~CP~C~~~~~~  132 (392)
                      ...|+||++.+. +++.+||||. ||..|+..++.||.||..+..
T Consensus        18 ~~~C~IC~~~~~-~~v~~pCgH~~~C~~C~~~~~~CP~Cr~~i~~   61 (79)
T 2yho_A           18 AMLCMVCCEEEI-NSTFCPCGHTVCCESCAAQLQSCPVCRSRVEH   61 (79)
T ss_dssp             HTBCTTTSSSBC-CEEEETTCBCCBCHHHHTTCSBCTTTCCBCCE
T ss_pred             CCEeEEeCcccC-cEEEECCCCHHHHHHHHHhcCcCCCCCchhhC
Confidence            578999999988 9999999999 999999999999999998886

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.68  E-value=4.2e-08  Score=94.83  Aligned_cols=142  Identities=13%  Similarity=0.052  Sum_probs=119.5

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV  316 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~  316 (392)
                      .|..+...|++..|+.+++++......+..     .......+.++|.++..+|++++|+.+|.+++++.+....     
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~-----~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~-----  178 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKD-----RIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEA-----  178 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCC-----HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCST-----
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCC-----HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcc-----
Confidence            455666788999999999998877666654     3345678999999999999999999999999998766311     


Q ss_pred             CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          317 PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       317 ~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                        ....++..+.++|.++..+|++++|+.+|++++++.+.....+..+....+++.  ++..++++.+|+.+|++|
T Consensus       179 --~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~--~y~~~g~~~~A~~~~~~a  250 (383)
T 3ulq_A          179 --YNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGL--CKNSQSQYEDAIPYFKRA  250 (383)
T ss_dssp             --THHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             --chHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH--HHHHCCCHHHHHHHHHHH
Confidence              123578889999999999999999999999999999998666677778888888  999999999999999874

>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=98.68  E-value=1.3e-08  Score=101.31  Aligned_cols=112  Identities=13%  Similarity=0.026  Sum_probs=96.5

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      .......++.+..++ .+|++++|+..|+++|++++..+....      .+++.++++++.++..+|++++|+.+|++++
T Consensus       284 ~~~~~~ll~~ie~~~-~~g~~~~a~~~~~~~L~~~~~~lg~~h------~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L  356 (429)
T 3qwp_A          284 WKEVQESLKKIEELK-AHWKWEQVLAMCQAIISSNSERLPDIN------IYQLKVLDCAMDACINLGLLEEALFYGTRTM  356 (429)
T ss_dssp             HHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTCSSCCCCTTS------HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHH-hhccHHHHHHHHHHHHHhccCcCCccc------hHHHHHHHHHHHHHHhhccHHHHHHHHHHHH
Confidence            344556666676666 568999999999999987765443322      3789999999999999999999999999999


Q ss_pred             HHHHHh--hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          352 KRLESL--TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       352 ~ile~l--~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ++++.+  ..||..+..+++++.  +|..++++.+|+++|++|
T Consensus       357 ~i~~~~lg~~Hp~~a~~l~nLa~--~~~~~g~~~eA~~~~~~A  397 (429)
T 3qwp_A          357 EPYRIFFPGSHPVRGVQVMKVGK--LQLHQGMFPQAMKNLRLA  397 (429)
T ss_dssp             HHHHHHSCSSCHHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HhHHHHcCCCChHHHHHHHHHHH--HHHhcCCHHHHHHHHHHH
Confidence            999998  999999999999999  999999999999999986

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.67  E-value=6.3e-09  Score=77.62  Aligned_cols=44  Identities=30%  Similarity=0.680  Sum_probs=40.4

Q ss_pred             CceeccccccccccCceecccCcH-hHHHhHHhcCCCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHV-YCKACISRFKDCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~-fC~~Ci~~~~~CP~C~~~~~~  132 (392)
                      +.+.|+||++.+. +|+.++|||. ||..|+.....||.||..+..
T Consensus        24 ~~~~C~IC~~~~~-~~~~~pCgH~~~C~~C~~~~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           24 EEKLCKICMDRNI-AIVFVPCGHLVTCKQCAEAVDKCPMCYTVITF   68 (75)
T ss_dssp             HHHSCSSSCSSCC-CBCCSSSCCCCBCHHHHHHCSBCTTTCCBCCC
T ss_pred             CCCCCCcCCCCCC-CEEEecCCCHHHHHHHhhCCCCCccCCceecC
Confidence            3578999999988 9999999999 999999999999999998776

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.67  E-value=4e-08  Score=95.07  Aligned_cols=143  Identities=12%  Similarity=0.015  Sum_probs=119.3

Q ss_pred             ccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCC
Q 016262          236 MLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSN  315 (392)
Q Consensus       236 ~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~  315 (392)
                      +.|..+...|++..|+.+++++......+..     .........++|.++..+|+++.|+.+|++++++......    
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~-----~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~----  176 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSD-----DIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPL----  176 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCC-----HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTT----
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCC-----hHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCC----
Confidence            3455566788999999999999887777654     3456788999999999999999999999999998765221    


Q ss_pred             CCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          316 VPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       316 ~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                         ....++..+.++|.++..+|++++|+.+|++++++.+.....+..+....+++.  ++..++++.+|+.+|++|
T Consensus       177 ---~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~--~y~~~~~~~~A~~~~~~a  248 (378)
T 3q15_A          177 ---YSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIAN--SYDRSGDDQMAVEHFQKA  248 (378)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHHHHTCHHHHHHHHHHH
T ss_pred             ---chhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HHHHCCCHHHHHHHHHHH
Confidence               122578889999999999999999999999999999988555566777888888  999999999999999874

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B

Probab=98.66  E-value=7.5e-09  Score=77.76  Aligned_cols=45  Identities=27%  Similarity=0.653  Sum_probs=37.5

Q ss_pred             Cceecccccccccc-Cceecc--cCcHhHHHhHHhcC-----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFE-CSKCTP--CSHVYCKACISRFK-----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~-~p~~~~--C~h~fC~~Ci~~~~-----~CP~C~~~~~~  132 (392)
                      +++.|+||++.+.. +++.++  |||+||..|+..+|     .||.||..+..
T Consensus        10 ~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~   62 (78)
T 1e4u_A           10 DPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   62 (78)
T ss_dssp             CCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSS
T ss_pred             cCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCC
Confidence            56899999998742 456665  99999999999886     49999998765

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.66  E-value=1.7e-07  Score=87.49  Aligned_cols=179  Identities=7%  Similarity=-0.094  Sum_probs=124.2

Q ss_pred             HHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHH
Q 016262          192 RAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEI  271 (392)
Q Consensus       192 ~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~  271 (392)
                      ..+..|++++|...+...       +......... .........++......|++..|+.+++.+.........     
T Consensus        84 ~~~~~~~y~~A~~~~~~~-------l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~-----  150 (293)
T 2qfc_A           84 MLCKQKRYKEIYNKVWNE-------LKKEEYHPEF-QQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGID-----  150 (293)
T ss_dssp             HHHHTTCHHHHHHHHHHH-------HHTCCCCHHH-HHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSC-----
T ss_pred             HHHHhhhHHHHHHHHHHH-------hccccCChhH-HHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCc-----
Confidence            356778888887776522       1111111111 111122233445554677888899888877654333222     


Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      .......++++|.++..+|++++|+.+|++++++.+...    ...   .-.+..+.++|.++..+|++++|+.+|++++
T Consensus       151 ~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~----~~~---~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal  223 (293)
T 2qfc_A          151 VYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALH----DNE---EFDVKVRYNHAKALYLDSRYEESLYQVNKAI  223 (293)
T ss_dssp             TTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC----CCH---HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcC----ccc---cchHHHHHhHHHHHHHHhhHHHHHHHHHHHH
Confidence            112456899999999999999999999999998876521    111   1123678899999999999999999999999


Q ss_pred             HHHHHhhcCCCchhHHHhhcchhHHHHHHhhhcc-ccchhcC
Q 016262          352 KRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQ-LPKFRSA  392 (392)
Q Consensus       352 ~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~-l~~~~~~  392 (392)
                      ++..........+.+...++.  ++..++++.+| +.||++|
T Consensus       224 ~~~~~~~~~~~~~~~~~~lg~--~y~~~g~~~~Ai~~~~~~A  263 (293)
T 2qfc_A          224 EISCRINSMALIGQLYYQRGE--CLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHTTBCSSHHHHHHHHHH--HHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHhcCcHHHHHHHHHHHHH--HHHHcCCcHHHHHHHHHHH
Confidence            999776666666777788888  88899999999 7777764

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens}

Probab=98.66  E-value=4.9e-09  Score=75.34  Aligned_cols=44  Identities=32%  Similarity=0.715  Sum_probs=38.2

Q ss_pred             CceeccccccccccCc-------eecccCcHhHHHhHHhcC----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECS-------KCTPCSHVYCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p-------~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      +.+.|+||++.+. ++       +.++|||.||..||..|.    .||.||..+..
T Consensus         2 ~~~~C~IC~~~~~-~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   56 (64)
T 2xeu_A            2 AMVSCPICMDGYS-EIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   56 (64)
T ss_dssp             CCCBCTTTCCBHH-HHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTT
T ss_pred             CCCCCCccChhhh-CccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCc
Confidence            4578999999987 55       889999999999999984    59999998764

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1

Probab=98.65  E-value=7e-09  Score=75.63  Aligned_cols=45  Identities=36%  Similarity=0.817  Sum_probs=38.8

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhc----CCCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~----~~CP~C~~~~~~  132 (392)
                      ....|+||++.+.++++.++|||.||..|+..|    ..||.||..+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            457899999998844589999999999999988    359999998765

>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=98.64  E-value=4.3e-08  Score=103.78  Aligned_cols=133  Identities=16%  Similarity=0.246  Sum_probs=84.4

Q ss_pred             HHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          226 LCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNV  305 (392)
Q Consensus       226 ~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i  305 (392)
                      .||.|.+.+.++|.++..+|++.+|+.+++++.+.    .+..       ..++.++|.++..+|++++|+..|+++|++
T Consensus         4 s~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l----~P~~-------~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l   72 (723)
T 4gyw_A            4 SCPTHADSLNNLANIKREQGNIEEAVRLYRKALEV----FPEF-------AAAHSNLASVLQQQGKLQEALMHYKEAIRI   72 (723)
T ss_dssp             --CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CSCC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CCCC-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            46777788888888877888888888888777544    2222       245677788888888888888888877764


Q ss_pred             HHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhcc
Q 016262          306 RRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQ  385 (392)
Q Consensus       306 ~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~  385 (392)
                      .       +.       .+..+.++|.++..+|++++|+..|+++++      .+|..+....+++.  ++..++++.+|
T Consensus        73 ~-------P~-------~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~------l~P~~~~a~~~Lg~--~~~~~g~~~eA  130 (723)
T 4gyw_A           73 S-------PT-------FADAYSNMGNTLKEMQDVQGALQCYTRAIQ------INPAFADAHSNLAS--IHKDSGNIPEA  130 (723)
T ss_dssp             C-------TT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH------HCTTCHHHHHHHHH--HHHHTTCHHHH
T ss_pred             C-------CC-------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH------hCCCCHHHHHHHHH--HHHHcCCHHHH
Confidence            2       11       144555666666666666666666666553      24555555555555  55555555666


Q ss_pred             ccchhc
Q 016262          386 LPKFRS  391 (392)
Q Consensus       386 l~~~~~  391 (392)
                      +.+|++
T Consensus       131 i~~~~~  136 (723)
T 4gyw_A          131 IASYRT  136 (723)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555554

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.63  E-value=1.7e-07  Score=86.70  Aligned_cols=146  Identities=15%  Similarity=0.127  Sum_probs=118.2

Q ss_pred             hhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhh
Q 016262          232 AVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVK  311 (392)
Q Consensus       232 ~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~  311 (392)
                      ..+..++.++...|++..|+.+++++.+.......     ...+...+..++.++...|++++|+.+|++++++..... 
T Consensus       184 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~-  257 (338)
T 3ro2_A          184 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGD-----KAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLK-  257 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC-----HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCC-----hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhc-
Confidence            34555666666788999999999998877766543     344567889999999999999999999999998876531 


Q ss_pred             cCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          312 RHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       312 ~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                             .....+..+..+|.++..+|++++|+.+|++++++.......+........++.  ++..++++.+|+.+|++
T Consensus       258 -------~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~--~~~~~g~~~~A~~~~~~  328 (338)
T 3ro2_A          258 -------DRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGN--AYTALGNHDQAMHFAEK  328 (338)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HHHHHTCHHHHHHHHHH
T ss_pred             -------chhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHH--HHHHcCChHHHHHHHHH
Confidence                   123457778899999999999999999999999999988655566666677777  88899999999999886


Q ss_pred             C
Q 016262          392 A  392 (392)
Q Consensus       392 ~  392 (392)
                      |
T Consensus       329 a  329 (338)
T 3ro2_A          329 H  329 (338)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.62  E-value=1.7e-07  Score=86.72  Aligned_cols=182  Identities=16%  Similarity=0.114  Sum_probs=123.8

Q ss_pred             hHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCC
Q 016262          187 VQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPM  266 (392)
Q Consensus       187 ~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~  266 (392)
                      ...+.-.+..|++++|...+..+.......    ..    -+.....+..++..+...|++..|+.+++++.+.......
T Consensus        47 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~----~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~  118 (338)
T 3ro2_A           47 SQLGNAYFYLHDYAKALEYHHHDLTLARTI----GD----QLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELND  118 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHH----TC----HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHhhcc----cc----cHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcC
Confidence            334444677888888888886554433221    11    1222344555666666789999999999999888777654


Q ss_pred             CchHHHHHHHHHHHHHHHHHHhcCC--------------------HHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHH
Q 016262          267 DDLEIIHTLSVSLNKIGDLKYYGGD--------------------LQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVS  326 (392)
Q Consensus       267 ~~~e~~~~l~~~l~~lg~l~~~~g~--------------------l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~s  326 (392)
                           ..........++.++...|+                    +++|+.+|++++.+.+....        ....+..
T Consensus       119 -----~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~--------~~~~~~~  185 (338)
T 3ro2_A          119 -----KVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGD--------RAAQGRA  185 (338)
T ss_dssp             -----HHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTC--------HHHHHHH
T ss_pred             -----chHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCC--------HHHHHHH
Confidence                 34456788999999999999                    99999999988887655321        1244566


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          327 LAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       327 l~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      +.++|.++..+|++++|+.+|++++++.......+..+.....++.  ++..++++.+++.+|++
T Consensus       186 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~--~~~~~g~~~~A~~~~~~  248 (338)
T 3ro2_A          186 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGN--AYIFLGEFETASEYYKK  248 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHH--HHHHcCCHHHHHHHHHH
Confidence            7777888888888888888888888777766443344445555555  66666677777666654

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A

Probab=98.60  E-value=1.2e-08  Score=71.08  Aligned_cols=44  Identities=27%  Similarity=0.760  Sum_probs=37.7

Q ss_pred             Cceecccccccccc---CceecccCcHhHHHhHHhc----CCCCCCCcCCc
Q 016262           88 GPLSCMICQALLFE---CSKCTPCSHVYCKACISRF----KDCPLCGADIE  131 (392)
Q Consensus        88 ~~~~C~iC~~~~~~---~p~~~~C~h~fC~~Ci~~~----~~CP~C~~~~~  131 (392)
                      ....|+||++.+.+   .++.++|+|.||..||..|    ..||.||..+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            35789999999863   3889999999999999999    46999998764

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens}

Probab=98.60  E-value=2.2e-08  Score=73.15  Aligned_cols=45  Identities=36%  Similarity=0.905  Sum_probs=38.2

Q ss_pred             Cceeccccccccc--cCceecccCcHhHHHhHHhc----CCCCCCCcCCcc
Q 016262           88 GPLSCMICQALLF--ECSKCTPCSHVYCKACISRF----KDCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~--~~p~~~~C~h~fC~~Ci~~~----~~CP~C~~~~~~  132 (392)
                      ....|+||++.+.  +.++.++|+|.||..||..|    ..||.||..+..
T Consensus        13 ~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   63 (69)
T 2kiz_A           13 TEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEA   63 (69)
T ss_dssp             CCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCS
T ss_pred             CCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccC
Confidence            4578999999875  25788999999999999998    359999998765

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.59  E-value=1.7e-06  Score=74.72  Aligned_cols=166  Identities=20%  Similarity=0.182  Sum_probs=122.0

Q ss_pred             hHhHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhC
Q 016262          185 FLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKL  264 (392)
Q Consensus       185 cl~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L  264 (392)
                      .+...+.-.+..|++++|...+..+.......    . ..   +.....+..++.++..+|++..++.+++++.+.....
T Consensus        28 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~----~-~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~   99 (203)
T 3gw4_A           28 ARFMLGYVYAFMDRFDEARASFQALQQQAQKS----G-DH---TAEHRALHQVGMVERMAGNWDAARRCFLEERELLASL   99 (203)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT----C-CH---HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHc----C-Cc---HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHc
Confidence            34445555678899999998887554433221    1 11   2223455566777778899999999999998888877


Q ss_pred             CCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHH
Q 016262          265 PMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAV  344 (392)
Q Consensus       265 ~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~  344 (392)
                      +..    .......+.+++.++..+|++++|+.+|++++++.+...        .....+..+.++|.++..+|++++|+
T Consensus       100 ~~~----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~--------~~~~~~~~~~~la~~~~~~g~~~~A~  167 (203)
T 3gw4_A          100 PED----PLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQAD--------DQVAIACAFRGLGDLAQQEKNLLEAQ  167 (203)
T ss_dssp             CCC----HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             Ccc----HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcc--------chHHHHHHHHHHHHHHHHCcCHHHHH
Confidence            632    224567889999999999999999999999999865521        12345777899999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCCchhHHHhh
Q 016262          345 DGFQEAIKRLESLTLKPEEAGLEQRC  370 (392)
Q Consensus       345 ~~~~~al~ile~l~~~~~~a~l~~~~  370 (392)
                      .+|++++++.+.+......+.++..+
T Consensus       168 ~~~~~al~~~~~~~~~~~~~~~~~~~  193 (203)
T 3gw4_A          168 QHWLRARDIFAELEDSEAVNELMTRL  193 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHhcc
Confidence            99999999999985544444444433

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=98.58  E-value=1.8e-08  Score=70.11  Aligned_cols=44  Identities=27%  Similarity=0.754  Sum_probs=36.7

Q ss_pred             Cceecccccccccc--Cceecc-cCcHhHHHhHHhcC----CCCCCCcCCc
Q 016262           88 GPLSCMICQALLFE--CSKCTP-CSHVYCKACISRFK----DCPLCGADIE  131 (392)
Q Consensus        88 ~~~~C~iC~~~~~~--~p~~~~-C~h~fC~~Ci~~~~----~CP~C~~~~~  131 (392)
                      +...|+||++.+.+  .++.++ |+|.||..||..|.    .||.||..+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            45789999999873  167776 99999999999994    4999998764

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=98.57  E-value=1.7e-08  Score=75.71  Aligned_cols=45  Identities=24%  Similarity=0.719  Sum_probs=37.4

Q ss_pred             CceeccccccccccC--ceecccCcHhHHHhHHhcC----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFEC--SKCTPCSHVYCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~--p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      ..+.|+||++.+.+.  .+.++|+|.||..||.+|+    .||.||..+..
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   64 (78)
T 2ect_A           14 SGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTG   64 (78)
T ss_dssp             SSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCC
T ss_pred             CCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCC
Confidence            468999999998732  3567999999999999994    59999998765

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.56  E-value=2.9e-06  Score=69.55  Aligned_cols=148  Identities=12%  Similarity=0.115  Sum_probs=111.7

Q ss_pred             HHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCc
Q 016262          189 QAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDD  268 (392)
Q Consensus       189 ~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~  268 (392)
                      .+.-.+..|++++|...+..+.+......    ..    ......+..++..+...|++..|+.+++.+.........  
T Consensus        15 l~~~~~~~~~~~~A~~~~~~al~~~~~~~----~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~--   84 (164)
T 3ro3_A           15 LGNTHYLLGNFRDAVIAHEQRLLIAKEFG----DK----AAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKD--   84 (164)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHT----CH----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC--
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHHhC----Cc----hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCC--
Confidence            34445778899999988876554433211    10    111335556667776889999999999999888777644  


Q ss_pred             hHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHH
Q 016262          269 LEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQ  348 (392)
Q Consensus       269 ~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~  348 (392)
                         ..........++.++...|++++|+.+|++++++.+...        .....+..+.++|.++..+|++++|+.+|+
T Consensus        85 ---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~--------~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  153 (164)
T 3ro3_A           85 ---RAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELK--------DRIGEGRACWSLGNAYTALGNHDQAMHFAE  153 (164)
T ss_dssp             ---HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             ---cHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHcc--------chHhHHHHHHHHHHHHHHccCHHHHHHHHH
Confidence               334567788999999999999999999999999876532        123557778899999999999999999999


Q ss_pred             HHHHHHHHh
Q 016262          349 EAIKRLESL  357 (392)
Q Consensus       349 ~al~ile~l  357 (392)
                      +++++.+.+
T Consensus       154 ~a~~~~~~~  162 (164)
T 3ro3_A          154 KHLEISREV  162 (164)
T ss_dssp             HHHHHHTTC
T ss_pred             HHHHHHHHh
Confidence            999987654

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens}

Probab=98.55  E-value=1.9e-08  Score=77.91  Aligned_cols=43  Identities=28%  Similarity=0.717  Sum_probs=37.3

Q ss_pred             CceeccccccccccC---ceecccCcHhHHHhHHhcC----CCCCCCcCCc
Q 016262           88 GPLSCMICQALLFEC---SKCTPCSHVYCKACISRFK----DCPLCGADIE  131 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~---p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~  131 (392)
                      +...|+||++.+. .   ++.++|+|.||..||..|.    .||.||..+.
T Consensus        39 ~~~~C~IC~~~~~-~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   88 (91)
T 2l0b_A           39 QEMCCPICCSEYV-KGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFP   88 (91)
T ss_dssp             SCSEETTTTEECC-TTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSS
T ss_pred             CCCCCcccChhhc-CCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCC
Confidence            5688999999877 4   7789999999999999994    4999998765

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.54  E-value=8.8e-09  Score=75.58  Aligned_cols=43  Identities=28%  Similarity=0.822  Sum_probs=37.9

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      +.+.|+||++.+. + ++++|||.||..||..|.    .||.||..+..
T Consensus        14 ~~~~C~IC~~~~~-~-~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   60 (70)
T 2ecn_A           14 DEEECCICMDGRA-D-LILPCAHSFCQKCIDKWSDRHRNCPICRLQMTG   60 (70)
T ss_dssp             CCCCCSSSCCSCC-S-EEETTTEEECHHHHHHSSCCCSSCHHHHHCTTC
T ss_pred             CCCCCeeCCcCcc-C-cccCCCCcccHHHHHHHHHCcCcCCCcCCcccC
Confidence            4689999999988 5 999999999999999994    49999987764

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.53  E-value=3.8e-08  Score=71.84  Aligned_cols=44  Identities=27%  Similarity=0.814  Sum_probs=40.6

Q ss_pred             CceeccccccccccCceecccCcH-hHHHhHHhcCCCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHV-YCKACISRFKDCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~-fC~~Ci~~~~~CP~C~~~~~~  132 (392)
                      +...|.||++... +++.+||||. ||..|+...+.||.||..+..
T Consensus        14 ~~~~C~IC~~~~~-~~v~~pCgH~~~C~~C~~~~~~CP~CR~~i~~   58 (68)
T 2ea5_A           14 NSKDCVVCQNGTV-NWVLLPCRHTCLCDGCVKYFQQCPMCRQFVQE   58 (68)
T ss_dssp             CSSCCSSSSSSCC-CCEETTTTBCCSCTTHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCCcCcCCC-CEEEECCCChhhhHHHHhcCCCCCCCCcchhc
Confidence            4678999999988 9999999999 999999999999999998876

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.53  E-value=3.3e-07  Score=90.48  Aligned_cols=139  Identities=13%  Similarity=0.053  Sum_probs=96.1

Q ss_pred             ccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHH
Q 016262          244 MGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDV  323 (392)
Q Consensus       244 ~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dl  323 (392)
                      +++...++...++......++.+.     .......+.||.++..+|++++|+.+|++++++.+.......+     ...
T Consensus        24 l~~~~~~l~~~e~~~~~~~~~~~~-----~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~-----~~~   93 (472)
T 4g1t_A           24 LMEGENSLDDFEDKVFYRTEFQNR-----EFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAE-----IRS   93 (472)
T ss_dssp             TTTTCCCHHHHHHHHHHHTTSCC--------CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCT-----TTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCC-----hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccc-----hHH
Confidence            444444455555544433333321     2234578999999999999999999999999998876543322     145


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh--hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          324 AVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL--TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       324 a~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l--~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +.++.++|.++..+|++++|+.+|++++++.+.+  ..++..+.+....+..-+....++|.+|+.+|++|
T Consensus        94 ~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~ka  164 (472)
T 4g1t_A           94 LVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKA  164 (472)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHH
Confidence            7889999999999999999999999999999988  44555555555544311111234677888888764

>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=98.51  E-value=4.3e-07  Score=77.56  Aligned_cols=114  Identities=12%  Similarity=0.062  Sum_probs=92.9

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 016262          275 LSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRL  354 (392)
Q Consensus       275 l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~il  354 (392)
                      .+..+.++|......|++++|+..|.++|++.-......  .......-+..+.|+|.++..+|++++|+..|+++++++
T Consensus        10 ~a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~--a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~   87 (159)
T 2hr2_A           10 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEE--AFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYF   87 (159)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTS--CCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchh--hhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhh
Confidence            467788999999999999999999999998865411111  000111124578999999999999999999999999996


Q ss_pred             HHh-hcCCCchhHH----HhhcchhHHHHHHhhhccccchhcC
Q 016262          355 ESL-TLKPEEAGLE----QRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       355 e~l-~~~~~~a~l~----~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ... +.+|+.+...    .+++.  .+..|+++..||..|++|
T Consensus        88 n~~~e~~pd~~~A~~~~~~~rG~--aL~~lgr~eEAl~~y~kA  128 (159)
T 2hr2_A           88 NRRGELNQDEGKLWISAVYSRAL--ALDGLGRGAEAMPEFKKV  128 (159)
T ss_dssp             HHHCCTTSTHHHHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             hccccCCCchHHHHHHHHHhHHH--HHHHCCCHHHHHHHHHHH
Confidence            665 8899999888    89999  999999999999999875

>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=98.50  E-value=1.7e-07  Score=99.21  Aligned_cols=156  Identities=16%  Similarity=0.185  Sum_probs=121.6

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCch
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDL  269 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~  269 (392)
                      +.-....|++++|...+..+-       ...+..       ...+..++.++..+|++.+|+..++++.+.    .+.. 
T Consensus        16 G~~~~~~G~~~eAi~~~~kAl-------~l~P~~-------~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l----~P~~-   76 (723)
T 4gyw_A           16 ANIKREQGNIEEAVRLYRKAL-------EVFPEF-------AAAHSNLASVLQQQGKLQEALMHYKEAIRI----SPTF-   76 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHH-------HHCSCC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTC-
T ss_pred             HHHHHHcCCHHHHHHHHHHHH-------HhCCCC-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CCCC-
Confidence            334678899999998887442       222332       334455666666889999999999887654    2322 


Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 016262          270 EIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQE  349 (392)
Q Consensus       270 e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~  349 (392)
                            ...+.++|.++..+|++++|+..|+++|++       .+.       .+..+.++|.++..+|++++|+..|++
T Consensus        77 ------~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l-------~P~-------~~~a~~~Lg~~~~~~g~~~eAi~~~~~  136 (723)
T 4gyw_A           77 ------ADAYSNMGNTLKEMQDVQGALQCYTRAIQI-------NPA-------FADAHSNLASIHKDSGNIPEAIASYRT  136 (723)
T ss_dssp             ------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTT-------CHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------CCC-------CHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                  357899999999999999999999999876       222       266789999999999999999999999


Q ss_pred             HHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          350 AIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       350 al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +++      ..|+.+....+++.  ++..++++.+++..|++|
T Consensus       137 Al~------l~P~~~~a~~~L~~--~l~~~g~~~~A~~~~~ka  171 (723)
T 4gyw_A          137 ALK------LKPDFPDAYCNLAH--CLQIVCDWTDYDERMKKL  171 (723)
T ss_dssp             HHH------HCSCCHHHHHHHHH--HHHHTTCCTTHHHHHHHH
T ss_pred             HHH------hCCCChHHHhhhhh--HHHhcccHHHHHHHHHHH
Confidence            985      47888888888888  899999999998888753

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.49  E-value=6.1e-07  Score=73.20  Aligned_cols=100  Identities=15%  Similarity=0.086  Sum_probs=85.5

Q ss_pred             HHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 016262          271 IIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEA  350 (392)
Q Consensus       271 ~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~a  350 (392)
                      +....+...++.|..+...|++++|+..|++++++       .+.       -+..+.++|.++..+|++++|+..|+++
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~-------~p~-------~~~~~~~~~~~~~~~~~~~~A~~~~~~a   73 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKR-------DPE-------NAILYSNRAACLTKLMEFQRALDDCDTC   73 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------CCC-------CHHHHHHHhhHHHhhccHHHHHHHHHHH
Confidence            45667888999999999999999999999999865       222       1567789999999999999999999999


Q ss_pred             HHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          351 IKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       351 l~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ++      .+|........++.  ++..++++.+|+..|++|
T Consensus        74 l~------~~p~~~~a~~~lg~--~~~~~~~~~~A~~~~~~a  107 (126)
T 4gco_A           74 IR------LDSKFIKGYIRKAA--CLVAMREWSKAQRAYEDA  107 (126)
T ss_dssp             HH------HCTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HH------hhhhhhHHHHHHHH--HHHHCCCHHHHHHHHHHH
Confidence            85      47788888888888  899999999999999864

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.49  E-value=5.8e-08  Score=71.93  Aligned_cols=44  Identities=23%  Similarity=0.639  Sum_probs=36.4

Q ss_pred             CceeccccccccccCce---ecccCcHhHHHhHHhcC----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSK---CTPCSHVYCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~---~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      ....|+||++.+. .+.   +++|+|.||..||..|.    .||.||..+..
T Consensus        14 ~~~~C~IC~~~~~-~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2ep4_A           14 LHELCAVCLEDFK-PRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQ   64 (74)
T ss_dssp             CSCBCSSSCCBCC-SSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSS
T ss_pred             CCCCCcCCCcccC-CCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCccccc
Confidence            4578999999987 443   34999999999999983    59999998765

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.47  E-value=2.6e-08  Score=82.33  Aligned_cols=44  Identities=34%  Similarity=0.780  Sum_probs=39.3

Q ss_pred             CceeccccccccccCc-------eecccCcHhHHHhHHhcC----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECS-------KCTPCSHVYCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p-------~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      +.+.|+||++.+. +|       ++++|||+||..||.+|+    .||.||..+..
T Consensus         6 ~~~~C~IC~~~~~-~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   60 (133)
T 4ap4_A            6 GTVSCPICMDGYS-EIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   60 (133)
T ss_dssp             CSCBCTTTCCBHH-HHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTT
T ss_pred             CCCCCcccChhhh-CccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcc
Confidence            5689999999988 66       999999999999999994    59999998765

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1

Probab=98.46  E-value=4.2e-08  Score=79.19  Aligned_cols=43  Identities=28%  Similarity=0.644  Sum_probs=36.3

Q ss_pred             ceeccccccccccCce------------------ecccCcHhHHHhHHhcC---------CCCCCCcCCcc
Q 016262           89 PLSCMICQALLFECSK------------------CTPCSHVYCKACISRFK---------DCPLCGADIEK  132 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~------------------~~~C~h~fC~~Ci~~~~---------~CP~C~~~~~~  132 (392)
                      +..|+||++.|. .+.                  .++|+|.||..||..|.         .||+||..+..
T Consensus        25 ~~~C~ICl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           25 EEDCIICMEKLA-VASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETT-SCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCcCccCChhhc-CcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            468999999986 433                  78999999999999985         49999987754

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.42  E-value=3.8e-07  Score=89.01  Aligned_cols=189  Identities=13%  Similarity=0.098  Sum_probs=138.3

Q ss_pred             HHHHHHhhhchhhHHHHhhhcHHHHHHHHHhc---CCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCC
Q 016262          189 QAMRAFRAQNVESAKSRLSLCTEDIRDQIERM---GNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLP  265 (392)
Q Consensus       189 ~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~---~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~  265 (392)
                      .+.+.+..|++++|...+..........-...   ......-....+.+..++.+|...|++.+++.++.........+.
T Consensus        10 ~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~   89 (434)
T 4b4t_Q           10 EARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFA   89 (434)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcc
Confidence            34467888999999888753221100000000   000112233345677788888899999999999998888887764


Q ss_pred             CCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHH
Q 016262          266 MDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVD  345 (392)
Q Consensus       266 ~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~  345 (392)
                      .     ........+.++.++...|++++|+.+|.+++.+.......        +..+....++|.++..+|++.+|+.
T Consensus        90 ~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--------~~~~~~~~~la~~~~~~g~~~~A~~  156 (434)
T 4b4t_Q           90 K-----SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRV--------FLKHSLSIKLATLHYQKKQYKDSLA  156 (434)
T ss_dssp             H-----HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCC--------SSHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             c-----hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCcc--------HHHHHHHHHHHHHHHHccChHHHHH
Confidence            3     23345667889999999999999999999999887653211        2347778899999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          346 GFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       346 ~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .+++++........++..+.+....+.  ++..++++.++..+|++|
T Consensus       157 ~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~A~~~~~~a  201 (434)
T 4b4t_Q          157 LINDLLREFKKLDDKPSLVDVHLLESK--VYHKLRNLAKSKASLTAA  201 (434)
T ss_dssp             HHHHHHHHHTTSSCSTHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccchhHHHHHHHHHH--HHHHhCcHHHHHHHHHHH
Confidence            999999888888777777777777777  888999999999988764

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.40  E-value=6.9e-07  Score=76.58  Aligned_cols=154  Identities=17%  Similarity=0.157  Sum_probs=103.3

Q ss_pred             HHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHH
Q 016262          192 RAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEI  271 (392)
Q Consensus       192 ~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~  271 (392)
                      -.+..|++++|...+..+-+       ..+.+.       ..+..++.++...|++..++..++.....    ....   
T Consensus        14 ~~~~~g~~~~A~~~~~~al~-------~~p~~~-------~~~~~la~~~~~~~~~~~a~~~~~~~~~~----~~~~---   72 (184)
T 3vtx_A           14 KKRTKGDFDGAIRAYKKVLK-------ADPNNV-------ETLLKLGKTYMDIGLPNDAIESLKKFVVL----DTTS---   72 (184)
T ss_dssp             HHHHHTCHHHHHHHHHHHHH-------HCTTCH-------HHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CCCC---
T ss_pred             HHHHcCCHHHHHHHHHHHHH-------hCCCCH-------HHHHHHHHHHHHCCCHHHHHHHHHHHHhc----Cchh---
Confidence            45678999999998874432       222222       33444455555677777777776655332    2222   


Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                          ......++.+....++++.|+..+.+++.+       .+..       ...+..+|.++..+|++++|+..|++++
T Consensus        73 ----~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~-------~~~~-------~~~~~~lg~~~~~~g~~~~A~~~~~~~l  134 (184)
T 3vtx_A           73 ----AEAYYILGSANFMIDEKQAAIDALQRAIAL-------NTVY-------ADAYYKLGLVYDSMGEHDKAIEAYEKTI  134 (184)
T ss_dssp             ----HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------Cccc-------hHHHHHHHHHHHHhCCchhHHHHHHHHH
Confidence                234566777787888888888888777654       1211       3455677888888888888888888877


Q ss_pred             HHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          352 KRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       352 ~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +      .+|.++.....++.  ++..++++.+|+.+|++|
T Consensus       135 ~------~~p~~~~~~~~lg~--~~~~~g~~~~A~~~~~~a  167 (184)
T 3vtx_A          135 S------IKPGFIRAYQSIGL--AYEGKGLRDEAVKYFKKA  167 (184)
T ss_dssp             H------HCTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             H------hcchhhhHHHHHHH--HHHHCCCHHHHHHHHHHH
Confidence            4      36777777777877  888888888888888764

>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=98.39  E-value=1.7e-06  Score=76.91  Aligned_cols=158  Identities=13%  Similarity=0.031  Sum_probs=109.8

Q ss_pred             HhHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCC
Q 016262          186 LVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLP  265 (392)
Q Consensus       186 l~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~  265 (392)
                      +...+...+..|++++|...+....+.      .+....       ..+.+++.++..+|++..|+.+++.+.+    +.
T Consensus        10 ~~~~g~~~~~~~~~~~A~~~~~~al~~------~~~~~~-------~~~~~~~~~~~~~~~~~~A~~~~~~al~----~~   72 (228)
T 4i17_A           10 LKNEGNDALNAKNYAVAFEKYSEYLKL------TNNQDS-------VTAYNCGVCADNIKKYKEAADYFDIAIK----KN   72 (228)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH------TTTCCH-------HHHHHHHHHHHHTTCHHHHHHHHHHHHH----TT
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHhc------cCCCCc-------HHHHHHHHHHHHhhcHHHHHHHHHHHHH----hC
Confidence            344455678899999999988744321      110121       2333455566678899999988887753    22


Q ss_pred             CCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHH
Q 016262          266 MDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVD  345 (392)
Q Consensus       266 ~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~  345 (392)
                      +.       ....+..+|.++..+|++++|+..|++++++       .+.+......++..+.++|.++..+|++++|+.
T Consensus        73 p~-------~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-------~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~  138 (228)
T 4i17_A           73 YN-------LANAYIGKSAAYRDMKNNQEYIATLTEGIKA-------VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEE  138 (228)
T ss_dssp             CS-------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cc-------hHHHHHHHHHHHHHcccHHHHHHHHHHHHHH-------CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHH
Confidence            32       2356788999999999999999999988865       334443444677888999999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCC--chhHHHhhcchhHHHHHHhh
Q 016262          346 GFQEAIKRLESLTLKPE--EAGLEQRCWNSSTTNFQKNH  382 (392)
Q Consensus       346 ~~~~al~ile~l~~~~~--~a~l~~~~~~~~~~~~l~~~  382 (392)
                      .|+++++      .+|.  .+.....++.  ++..+++.
T Consensus       139 ~~~~al~------~~p~~~~~~~~~~l~~--~~~~~~~~  169 (228)
T 4i17_A          139 NYKHATD------VTSKKWKTDALYSLGV--LFYNNGAD  169 (228)
T ss_dssp             HHHHHTT------SSCHHHHHHHHHHHHH--HHHHHHHH
T ss_pred             HHHHHHh------cCCCcccHHHHHHHHH--HHHHHHHH
Confidence            9999884      4566  5555555555  55444444

>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4, UIP4, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.34  E-value=8.1e-08  Score=74.79  Aligned_cols=60  Identities=18%  Similarity=0.621  Sum_probs=42.6

Q ss_pred             CceeccccccccccCceec---ccCcHhHHHhHHhcC------------CCCC--CCcC--Ccc-cchhhHHHHHHHHHH
Q 016262           88 GPLSCMICQALLFECSKCT---PCSHVYCKACISRFK------------DCPL--CGAD--IEK-IEADTTLQDVVDRFI  147 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~---~C~h~fC~~Ci~~~~------------~CP~--C~~~--~~~-~~~n~~l~~~~~~~~  147 (392)
                      +.+.|+||++.+. .+.++   +|||.||..||..++            .||.  |+..  +.. ...+....+++++|.
T Consensus         4 ~~~~C~IC~~~~~-~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~~~i~~ll~~~~~~ky~   82 (94)
T 1wim_A            4 GSSGCKLCLGEYP-VEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQENEIECMVAAEIMQRYK   82 (94)
T ss_dssp             SBCCCSSSCCCCB-GGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHHHHHHHSCHHHHHHHH
T ss_pred             CCcCCcccCcccc-cccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCHHHHHHHCCHHHHHHHH
Confidence            4688999999987 55543   799999999998763            3999  9988  554 222233345666665


Q ss_pred             h
Q 016262          148 E  148 (392)
Q Consensus       148 ~  148 (392)
                      .
T Consensus        83 ~   83 (94)
T 1wim_A           83 K   83 (94)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B*

Probab=98.33  E-value=9.1e-08  Score=68.73  Aligned_cols=44  Identities=25%  Similarity=0.586  Sum_probs=38.6

Q ss_pred             CceeccccccccccCceec--ccCcH-hHHHhHHhcC----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCT--PCSHV-YCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~--~C~h~-fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      ....|+||++... +++.+  ||||. ||..|+..++    .||.||.++..
T Consensus         6 ~~~~C~IC~~~~~-~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   56 (63)
T 2vje_B            6 LLKPCSLCEKRPR-DGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQL   56 (63)
T ss_dssp             GGSBCTTTSSSBS-CEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCCE
T ss_pred             cCCCCcccCCcCC-CeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhhc
Confidence            3568999999987 77777  99998 9999999987    79999998875

>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=98.32  E-value=2.7e-06  Score=69.27  Aligned_cols=102  Identities=12%  Similarity=0.195  Sum_probs=82.3

Q ss_pred             hhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhc
Q 016262          233 VLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKR  312 (392)
Q Consensus       233 ~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~  312 (392)
                      ..+.+|..++..|++.+|+.+++++.+.    .+..       ...+.++|.++..+|++++|+..|++++++.....  
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~----~p~~-------~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~--   76 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIEL----DPSN-------ITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETR--   76 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh----CCCC-------HHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccc--
Confidence            3445677777899999999999988654    3322       34688999999999999999999999998865521  


Q ss_pred             CCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          313 HSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       313 ~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                           .....++..+.++|.++..+|++++|+..|+++++
T Consensus        77 -----~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           77 -----ADYKLIAKAMSRAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             -----CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -----hhhHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence                 22335788899999999999999999999999985

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.32  E-value=4.4e-06  Score=70.34  Aligned_cols=111  Identities=14%  Similarity=0.039  Sum_probs=89.2

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCch----hhHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 016262          274 TLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQ----VLDVAVSLAKVADVDRSIGNEDVAVDGFQE  349 (392)
Q Consensus       274 ~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~----~~dla~sl~~l~~v~~~lg~~~~A~~~~~~  349 (392)
                      .....+..+|..+...|++++|+..|.+++.+..............    ....+..+.++|.++..+|++++|+..+++
T Consensus         9 ~~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~   88 (162)
T 3rkv_A            9 KSVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSE   88 (162)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            3467889999999999999999999999999876654322211111    123466788999999999999999999999


Q ss_pred             HHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          350 AIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       350 al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ++++      +|..+....+++.  ++..++++..|+.+|++|
T Consensus        89 al~~------~p~~~~a~~~~g~--~~~~~g~~~~A~~~~~~a  123 (162)
T 3rkv_A           89 VLKR------EETNEKALFRRAK--ARIAAWKLDEAEEDLKLL  123 (162)
T ss_dssp             HHHH------STTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHhc------CCcchHHHHHHHH--HHHHHhcHHHHHHHHHHH
Confidence            9865      6788888888888  899999999999988764

>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=98.31  E-value=5.6e-06  Score=76.98  Aligned_cols=119  Identities=8%  Similarity=0.038  Sum_probs=98.2

Q ss_pred             hhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhc
Q 016262          233 VLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKR  312 (392)
Q Consensus       233 ~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~  312 (392)
                      .+..+|.++..+|++..|+.+++.+.+....+..    ........+.++|.++..+|++++|+.+|++++++.....  
T Consensus       157 ~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~----~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~--  230 (293)
T 3u3w_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHD----NEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRIN--  230 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSC----CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhccc----chhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcC--
Confidence            4566777777899999999999999988887743    2445677899999999999999999999999999876631  


Q ss_pred             CCCCCchhhHHHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHHHHHhhcCCCc
Q 016262          313 HSNVPSQVLDVAVSLAKVADVDRSIGN-EDVAVDGFQEAIKRLESLTLKPEE  363 (392)
Q Consensus       313 ~~~~~~~~~dla~sl~~l~~v~~~lg~-~~~A~~~~~~al~ile~l~~~~~~  363 (392)
                            ....++..+.++|.++..+|+ +++|+.+|++|+.+.+.+....-.
T Consensus       231 ------~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~i~~~~~~~~~~  276 (293)
T 3u3w_A          231 ------SMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFFFDILEMHAYK  276 (293)
T ss_dssp             ------BCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCTGGG
T ss_pred             ------cHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHHH
Confidence                  122568889999999999995 699999999999999988554333

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.30  E-value=3.7e-07  Score=68.96  Aligned_cols=45  Identities=27%  Similarity=0.671  Sum_probs=35.1

Q ss_pred             CceeccccccccccC-------------ceec-ccCcHhHHHhHHhcC----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFEC-------------SKCT-PCSHVYCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~-------------p~~~-~C~h~fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      +...|+||++.|.+.             ++.+ +|+|.|+..||.+|.    .||+||..+..
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            456788888887631             4455 499999999999994    49999987653

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.30  E-value=2e-06  Score=84.75  Aligned_cols=142  Identities=13%  Similarity=0.085  Sum_probs=98.9

Q ss_pred             hcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcC
Q 016262          234 LGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRH  313 (392)
Q Consensus       234 L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~  313 (392)
                      +..++.+....|++.+|+..++++.+..........  .......+.++|.++..+|++++|+.+|++++++.+......
T Consensus        54 yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~--~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~  131 (472)
T 4g1t_A           54 CNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQA--EIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPY  131 (472)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGC--TTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSS
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCcccc--chHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccccc
Confidence            345566666889999999999999887766544222  233456789999999999999999999999999988754332


Q ss_pred             CCCCchhhHHHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHH---HHHhhhccccc
Q 016262          314 SNVPSQVLDVAVSLAKVADVDRSI--GNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTN---FQKNHLNQLPK  388 (392)
Q Consensus       314 ~~~~~~~~dla~sl~~l~~v~~~l--g~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~---~l~~~~~~l~~  388 (392)
                      ..      +.+..+.++|.++..+  +++++|+..|++++++      +|.++.+...++.  ++.   .++++.++|.+
T Consensus       132 ~~------~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~------~p~~~~~~~~~~~--~~~~l~~~~~~~~al~~  197 (472)
T 4g1t_A          132 RI------ESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK------KPKNPEFTSGLAI--ASYRLDNWPPSQNAIDP  197 (472)
T ss_dssp             CC------CCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH------STTCHHHHHHHHH--HHHHHHHSCCCCCTHHH
T ss_pred             ch------hhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh------CCCCHHHHHHHHH--HHHHhcCchHHHHHHHH
Confidence            22      3356677777665555  5688999999998854      5666655555544  322   33344556666


Q ss_pred             hhc
Q 016262          389 FRS  391 (392)
Q Consensus       389 ~~~  391 (392)
                      |++
T Consensus       198 ~~~  200 (472)
T 4g1t_A          198 LRQ  200 (472)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.29  E-value=1.2e-07  Score=91.15  Aligned_cols=44  Identities=25%  Similarity=0.766  Sum_probs=41.1

Q ss_pred             CceeccccccccccCceecccCcH-hHHHhHHhcCCCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHV-YCKACISRFKDCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~-fC~~Ci~~~~~CP~C~~~~~~  132 (392)
                      +.+.|+||++.+. +|+.+||||. ||..|+..|..||.||..+..
T Consensus       294 ~~~~C~IC~~~~~-~~v~lpCgH~~fC~~C~~~~~~CP~CR~~i~~  338 (345)
T 3t6p_A          294 EERTCKVCMDKEV-SVVFIPCGHLVVCQECAPSLRKCPICRGIIKG  338 (345)
T ss_dssp             TTCBCTTTSSSBC-CEEEETTCCEEECTTTGGGCSBCTTTCCBCCE
T ss_pred             CCCCCCccCCcCC-ceEEcCCCChhHhHHHHhcCCcCCCCCCCccC
Confidence            4689999999988 9999999999 999999999999999998876

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.28  E-value=9.9e-07  Score=78.62  Aligned_cols=155  Identities=15%  Similarity=0.097  Sum_probs=99.2

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccc-----------cchhHHHhHHHHHH
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAM-----------GDADAAVAYFADSV  258 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~-----------gdhh~a~~~~e~~~  258 (392)
                      +.-.++.|++++|...+....       ...+....       .+..++.++..+           |++.+|+..++.+.
T Consensus        46 g~~~~~~g~~~~A~~~~~~al-------~~~P~~~~-------a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al  111 (217)
T 2pl2_A           46 ARTQLKLGLVNPALENGKTLV-------ARTPRYLG-------GYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAE  111 (217)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHH-------HHCTTCHH-------HHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHH-------HhCCCcHH-------HHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHH
Confidence            333566777777777765332       22232222       222333333345           77777777776664


Q ss_pred             HHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcC
Q 016262          259 EFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIG  338 (392)
Q Consensus       259 ~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg  338 (392)
                      +.    .+...       .....+|.++..+|++++|+..|++++++. .      .        ...+.++|.++..+|
T Consensus       112 ~~----~P~~~-------~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~------~--------~~~~~~la~~~~~~g  165 (217)
T 2pl2_A          112 RV----NPRYA-------PLHLQRGLVYALLGERDKAEASLKQALALE-D------T--------PEIRSALAELYLSMG  165 (217)
T ss_dssp             HH----CTTCH-------HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-C------C--------HHHHHHHHHHHHHHT
T ss_pred             Hh----CcccH-------HHHHHHHHHHHHcCChHHHHHHHHHHHhcc-c------c--------hHHHHHHHHHHHHcC
Confidence            43    33332       456789999999999999999999998773 1      1        455678999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          339 NEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       339 ~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ++++|+..|+++++      ..|.+..+...++.  ++..++++.+++.+|+++
T Consensus       166 ~~~~A~~~~~~al~------~~P~~~~~~~~la~--~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          166 RLDEALAQYAKALE------QAPKDLDLRVRYAS--ALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             CHHHHHHHHHHHHH------HSTTCHHHHHHHHH--HHTC--------------
T ss_pred             CHHHHHHHHHHHHH------hCCCChHHHHHHHH--HHHHccCHHHHHHHHHHH
Confidence            99999999999885      47888888888888  888999999999999864

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.26  E-value=1.5e-05  Score=76.12  Aligned_cols=179  Identities=13%  Similarity=0.052  Sum_probs=124.1

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCch
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDL  269 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~  269 (392)
                      +.-.+..|++++|...+.....       ..+....  ......+..++..+...|++..+..+++++.......+.   
T Consensus        21 a~~~~~~g~~~~A~~~~~~al~-------~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~---   88 (373)
T 1hz4_A           21 AQVAINDGNPDEAERLAKLALE-------ELPPGWF--YSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDV---   88 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH-------TCCTTCH--HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTC---
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH-------cCCCCch--hHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCc---
Confidence            4446778999988887753321       1111110  111223445555555788999999999998887777544   


Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 016262          270 EIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQE  349 (392)
Q Consensus       270 e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~  349 (392)
                        .......+..++.++...|++++|+.+|++++++.+.......      ...+..+.++|.++..+|++++|+.+|++
T Consensus        89 --~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~------~~~~~~~~~la~~~~~~g~~~~A~~~~~~  160 (373)
T 1hz4_A           89 --WHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQL------PMHEFLVRIRAQLLWAWARLDEAEASARS  160 (373)
T ss_dssp             --HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTS------THHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccC------cHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence              2334567889999999999999999999999998776432211      14566778899999999999999999999


Q ss_pred             HHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          350 AIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       350 al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      ++++.+..... ........++.  ++...+++.+++.+|++
T Consensus       161 al~~~~~~~~~-~~~~~~~~la~--~~~~~g~~~~A~~~l~~  199 (373)
T 1hz4_A          161 GIEVLSSYQPQ-QQLQCLAMLIQ--CSLARGDLDNARSQLNR  199 (373)
T ss_dssp             HHHHTTTSCGG-GGHHHHHHHHH--HHHHHTCHHHHHHHHHH
T ss_pred             HHHHhhccCcH-HHHHHHHHHHH--HHHHcCCHHHHHHHHHH
Confidence            99887665221 12333444555  67777888888877765

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=98.26  E-value=1.2e-07  Score=68.30  Aligned_cols=44  Identities=27%  Similarity=0.612  Sum_probs=38.2

Q ss_pred             CceeccccccccccCceec--ccCcH-hHHHhHHhcC----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCT--PCSHV-YCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~--~C~h~-fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      +...|.||++.+. +++.+  ||||. ||..|+..|+    .||.||..+..
T Consensus         7 ~~~~C~IC~~~~~-~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~   57 (64)
T 2vje_A            7 AIEPCVICQGRPK-NGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQM   57 (64)
T ss_dssp             GGSCCTTTSSSCS-CEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCCE
T ss_pred             CcCCCCcCCCCCC-CEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchhc
Confidence            4578999999988 77776  99999 8999999885    49999998875

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=98.24  E-value=6.2e-06  Score=78.41  Aligned_cols=168  Identities=11%  Similarity=0.070  Sum_probs=107.6

Q ss_pred             HhHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCC
Q 016262          186 LVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLP  265 (392)
Q Consensus       186 l~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~  265 (392)
                      ++-.+...++.|++++|...+.....       ..+..       ...+..++..+...|++..|+.+++.+.+.    .
T Consensus        68 ~~~~~~~~~~~g~~~~A~~~~~~al~-------~~p~~-------~~~~~~lg~~~~~~g~~~~A~~~~~~al~~----~  129 (365)
T 4eqf_A           68 AFEEGLKRLKEGDLPVTILFMEAAIL-------QDPGD-------AEAWQFLGITQAENENEQAAIVALQRCLEL----Q  129 (365)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHH-------HCTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----C
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH-------hCcCC-------HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc----C
Confidence            45556668889999999998874422       12222       334455566666788888999888877554    2


Q ss_pred             CCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhh----------------------------------
Q 016262          266 MDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVK----------------------------------  311 (392)
Q Consensus       266 ~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~----------------------------------  311 (392)
                      +..       ...+..++.++...|++++|+..|++++++......                                  
T Consensus       130 p~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  202 (365)
T 4eqf_A          130 PNN-------LKALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLE  202 (365)
T ss_dssp             TTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHH
T ss_pred             CCC-------HHHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            222       346788899999999999999999988875433211                                  


Q ss_pred             ---cCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccc
Q 016262          312 ---RHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPK  388 (392)
Q Consensus       312 ---~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~  388 (392)
                         ..+...     .+..+.++|.++..+|++++|+..|++++++      .|..+.+...++.  ++..++++.+|+.+
T Consensus       203 al~~~p~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~------~p~~~~~~~~l~~--~~~~~g~~~~A~~~  269 (365)
T 4eqf_A          203 AAHQNGDMI-----DPDLQTGLGVLFHLSGEFNRAIDAFNAALTV------RPEDYSLWNRLGA--TLANGDRSEEAVEA  269 (365)
T ss_dssp             HHHHSCSSC-----CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHTTCHHHHHHH
T ss_pred             HHHhCcCcc-----CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh------CCCCHHHHHHHHH--HHHHcCCHHHHHHH
Confidence               111100     1445667788888888888888888777643      3444445555555  55555555555555


Q ss_pred             hhc
Q 016262          389 FRS  391 (392)
Q Consensus       389 ~~~  391 (392)
                      |++
T Consensus       270 ~~~  272 (365)
T 4eqf_A          270 YTR  272 (365)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=98.20  E-value=2e-05  Score=70.09  Aligned_cols=168  Identities=18%  Similarity=0.157  Sum_probs=107.9

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCch
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDL  269 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~  269 (392)
                      +.-.+..|++++|...+......       . ..       ...+..++..+..+|++..|+.+++.+.+........  
T Consensus        12 g~~~~~~~~~~~A~~~~~~a~~~-------~-~~-------~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~--   74 (258)
T 3uq3_A           12 GNKFYKARQFDEAIEHYNKAWEL-------H-KD-------ITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRAD--   74 (258)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH-------S-CC-------THHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCC--
T ss_pred             HHHHHHhccHHHHHHHHHHHHHh-------h-cc-------HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccc--
Confidence            44567889999999988744321       1 11       1233445555557889999999999887776654332  


Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH-------------------HHHhhcCCCCCchhhHHHHHHHHH
Q 016262          270 EIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVR-------------------RDAVKRHSNVPSQVLDVAVSLAKV  330 (392)
Q Consensus       270 e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~-------------------~~~~~~~~~~~~~~~dla~sl~~l  330 (392)
                        ...+......++.++...|++++|+.+|++++++.                   +.+....       .+....+.++
T Consensus        75 --~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~  145 (258)
T 3uq3_A           75 --YKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVN-------PEKAEEARLE  145 (258)
T ss_dssp             --HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCC-------HHHHHHHHHH
T ss_pred             --hHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcC-------cchHHHHHHH
Confidence              22346788999999999999999999999999841                   1111111       1334556667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          331 ADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       331 ~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      |.++..+|++++|+..|++++++      .|....+...++.  .+..++++..|+.+|++
T Consensus       146 ~~~~~~~~~~~~A~~~~~~a~~~------~~~~~~~~~~l~~--~~~~~~~~~~A~~~~~~  198 (258)
T 3uq3_A          146 GKEYFTKSDWPNAVKAYTEMIKR------APEDARGYSNRAA--ALAKLMSFPEAIADCNK  198 (258)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHhc------CcccHHHHHHHHH--HHHHhCCHHHHHHHHHH
Confidence            77777778887777777776643      3344444444444  45555555555555543

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A*

Probab=98.19  E-value=4.3e-07  Score=87.93  Aligned_cols=43  Identities=30%  Similarity=0.813  Sum_probs=38.6

Q ss_pred             ceeccccccccccCceecccCcHhHHHhHHhc-----CCCCCCCcCCcc
Q 016262           89 PLSCMICQALLFECSKCTPCSHVYCKACISRF-----KDCPLCGADIEK  132 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~-----~~CP~C~~~~~~  132 (392)
                      ...|+||++.+. +|+.++|||.||..|+..|     ..||.||..+..
T Consensus       332 ~~~C~ICle~~~-~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~  379 (389)
T 2y1n_A          332 FQLCKICAENDK-DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG  379 (389)
T ss_dssp             SSBCTTTSSSBC-CEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCE
T ss_pred             CCCCCccCcCCC-CeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCC
Confidence            378999999988 9999999999999999987     359999998775

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.17  E-value=4.3e-07  Score=74.82  Aligned_cols=45  Identities=33%  Similarity=0.771  Sum_probs=39.0

Q ss_pred             cCceeccccccccccCc-------eecccCcHhHHHhHHhc----CCCCCCCcCCcc
Q 016262           87 IGPLSCMICQALLFECS-------KCTPCSHVYCKACISRF----KDCPLCGADIEK  132 (392)
Q Consensus        87 ~~~~~C~iC~~~~~~~p-------~~~~C~h~fC~~Ci~~~----~~CP~C~~~~~~  132 (392)
                      .+.+.|+||++.+. .+       +.++|||.||..||.+|    ..||.||..+..
T Consensus        70 ~~~~~C~iC~~~~~-~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~  125 (133)
T 4ap4_A           70 SGTVSCPICMDGYS-EIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH  125 (133)
T ss_dssp             SSSCBCTTTCCBHH-HHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCCCCccc-cccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCCh
Confidence            35689999999987 55       89999999999999998    469999998765

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=98.15  E-value=1.8e-05  Score=75.16  Aligned_cols=125  Identities=11%  Similarity=0.052  Sum_probs=94.9

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV  316 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~  316 (392)
                      ++..+...|++.+|+.+++++.+..    +...     -...+..+|.++...|++++|+..|++++++.       +. 
T Consensus       183 l~~~~~~~g~~~~A~~~~~~al~~~----p~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-------p~-  245 (365)
T 4eqf_A          183 MSKSPVDSSVLEGVKELYLEAAHQN----GDMI-----DPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-------PE-  245 (365)
T ss_dssp             ------CCHHHHHHHHHHHHHHHHS----CSSC-----CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-------TT-
T ss_pred             HHHHHhhhhhHHHHHHHHHHHHHhC----cCcc-----CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-------CC-
Confidence            3566667788888888888776542    2200     12357789999999999999999999998762       22 


Q ss_pred             CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          317 PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       317 ~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                            ....+.++|.++..+|++++|+..|++++++      +|..+.....++.  ++..++++.+|+.+|++|
T Consensus       246 ------~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~------~p~~~~~~~~l~~--~~~~~g~~~~A~~~~~~a  307 (365)
T 4eqf_A          246 ------DYSLWNRLGATLANGDRSEEAVEAYTRALEI------QPGFIRSRYNLGI--SCINLGAYREAVSNFLTA  307 (365)
T ss_dssp             ------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHHTCCHHHHHHHHHH
T ss_pred             ------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc------CCCchHHHHHHHH--HHHHCCCHHHHHHHHHHH
Confidence                  1557789999999999999999999998865      6777888888888  889999999999998864

>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=98.15  E-value=2.6e-06  Score=71.37  Aligned_cols=122  Identities=17%  Similarity=0.175  Sum_probs=86.1

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV  316 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~  316 (392)
                      +|.+.+..|+..+++..++.+      +..     ...-....-.++.++...|++++|+.+|++++++       .+.+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a------~~~-----~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~-------~p~~   64 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGS------TPS-----PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV-------QERD   64 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHH------SCS-----HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHh------ccc-----CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------CCCC
Confidence            344444556666666555433      211     2223345568999999999999999999999876       2221


Q ss_pred             CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccch-hc
Q 016262          317 PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKF-RS  391 (392)
Q Consensus       317 ~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~-~~  391 (392)
                             ...+.++|.++..+|++++|+..|+++++      ..|.+......++.  ++..++++.+++.+| ++
T Consensus        65 -------~~a~~~lg~~~~~~~~~~~A~~~~~~al~------~~p~~~~~~~~la~--~~~~~~~~~~aa~~~~~~  125 (150)
T 4ga2_A           65 -------PKAHRFLGLLYELEENTDKAVECYRRSVE------LNPTQKDLVLKIAE--LLCKNDVTDGRAKYWVER  125 (150)
T ss_dssp             -------HHHHHHHHHHHHHTTCHHHHHHHHHHHHH------HCTTCHHHHHHHHH--HHHHHCSSSSHHHHHHHH
T ss_pred             -------HHHHHHHHHHHHHcCchHHHHHHHHHHHH------hCCCCHHHHHHHHH--HHHHcCChHHHHHHHHHH
Confidence                   56678899999999999999999999884      47788888888887  777788777766654 44

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.11  E-value=2.6e-05  Score=63.29  Aligned_cols=112  Identities=12%  Similarity=0.097  Sum_probs=86.2

Q ss_pred             HHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          229 QLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRD  308 (392)
Q Consensus       229 ~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~  308 (392)
                      ...+.+...|..+...|++..|+..++++.+.    .+..       ...+.++|.++..+|++++|+..|++++++   
T Consensus        11 ~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~----~p~~-------~~~~~~~~~~~~~~~~~~~A~~~~~~al~~---   76 (126)
T 4gco_A           11 ELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKR----DPEN-------AILYSNRAACLTKLMEFQRALDDCDTCIRL---   76 (126)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CCCC-------HHHHHHHhhHHHhhccHHHHHHHHHHHHHh---
Confidence            34445556677777899999999999887643    2322       346789999999999999999999999875   


Q ss_pred             HhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhc
Q 016262          309 AVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCW  371 (392)
Q Consensus       309 ~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~  371 (392)
                          .+.       -...+.++|.++..+|++++|+..|+++++      ..|.+......++
T Consensus        77 ----~p~-------~~~a~~~lg~~~~~~~~~~~A~~~~~~al~------l~P~~~~a~~~l~  122 (126)
T 4gco_A           77 ----DSK-------FIKGYIRKAACLVAMREWSKAQRAYEDALQ------VDPSNEEAREGVR  122 (126)
T ss_dssp             ----CTT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH------HCTTCHHHHHHHH
T ss_pred             ----hhh-------hhHHHHHHHHHHHHCCCHHHHHHHHHHHHH------HCcCCHHHHHHHH
Confidence                222       155678899999999999999999999985      4677766655544

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.09  E-value=1.2e-05  Score=67.92  Aligned_cols=98  Identities=11%  Similarity=-0.018  Sum_probs=81.7

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          273 HTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       273 ~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      ..-...+..+|.++...|++++|+..|++++++       .+.+       ...+.++|.++..+|++++|+..|++++ 
T Consensus        33 p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~-------~P~~-------~~~~~~lg~~~~~~g~~~~Ai~~~~~al-   97 (151)
T 3gyz_A           33 DDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY-------DFYN-------VDYIMGLAAIYQIKEQFQQAADLYAVAF-   97 (151)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------CCCC-------HHHHHHHHHHHHHHccHHHHHHHHHHHH-
Confidence            344567889999999999999999999988765       3332       4567889999999999999999999988 


Q ss_pred             HHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          353 RLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       353 ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                           ...|.++.....++.  ++..++++.+|+..|++|
T Consensus        98 -----~l~P~~~~~~~~lg~--~~~~lg~~~eA~~~~~~a  130 (151)
T 3gyz_A           98 -----ALGKNDYTPVFHTGQ--CQLRLKAPLKAKECFELV  130 (151)
T ss_dssp             -----HHSSSCCHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             -----hhCCCCcHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence                 457888888888888  999999999999998864

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.09  E-value=2.2e-05  Score=72.86  Aligned_cols=116  Identities=9%  Similarity=0.087  Sum_probs=93.1

Q ss_pred             hhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhh
Q 016262          232 AVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVK  311 (392)
Q Consensus       232 ~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~  311 (392)
                      ..+..+|.++...|++..|+.+++++.+.........    ......+.++|.++..+|++++|+.+|++++++....  
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~----~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~--  229 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNE----EFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRI--  229 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCH----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT--
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccc----cchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhc--
Confidence            3555677777789999999999999988877765421    1122688999999999999999999999999987431  


Q ss_pred             cCCCCCchhhHHHHHHHHHHHHHHhcCCHHHH-HHHHHHHHHHHHHhhc
Q 016262          312 RHSNVPSQVLDVAVSLAKVADVDRSIGNEDVA-VDGFQEAIKRLESLTL  359 (392)
Q Consensus       312 ~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A-~~~~~~al~ile~l~~  359 (392)
                      ..      ...++..+.++|.++..+|++++| ..+|++|+.+.+.+..
T Consensus       230 ~~------~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~~~~~~~  272 (293)
T 2qfc_A          230 NS------MALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFFFDILEM  272 (293)
T ss_dssp             TB------CSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             Cc------HHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhCc
Confidence            11      124578889999999999999999 8889999999988743

>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=98.08  E-value=0.00011  Score=62.47  Aligned_cols=128  Identities=11%  Similarity=0.029  Sum_probs=94.2

Q ss_pred             hcccccccccccchhHHHhHHHHHHHHHHhCCCCch-HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhc
Q 016262          234 LGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDL-EIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKR  312 (392)
Q Consensus       234 L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~-e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~  312 (392)
                      +...|......|++..|+..|+.+.+.......... .....-...+.++|.++..+|++++|+..|+++|++.....+-
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~   93 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL   93 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccC
Confidence            344455555789999999999999888766322110 1122334589999999999999999999999999986665544


Q ss_pred             CCCCCchhhHHHHHH----HHHHHHHHhcCCHHHHHHHHHHHHHHHHHh-hcCCCchhHHH
Q 016262          313 HSNVPSQVLDVAVSL----AKVADVDRSIGNEDVAVDGFQEAIKRLESL-TLKPEEAGLEQ  368 (392)
Q Consensus       313 ~~~~~~~~~dla~sl----~~l~~v~~~lg~~~~A~~~~~~al~ile~l-~~~~~~a~l~~  368 (392)
                      .+.       -+..+    .+.|.++..+|++++|+..|++++++--+- ..-++...+.+
T Consensus        94 ~pd-------~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~~  147 (159)
T 2hr2_A           94 NQD-------EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMME  147 (159)
T ss_dssp             TST-------HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHH
T ss_pred             CCc-------hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHH
Confidence            443       35566    999999999999999999999999887665 33344444443

>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=98.06  E-value=1.2e-05  Score=64.47  Aligned_cols=94  Identities=14%  Similarity=0.053  Sum_probs=65.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE  355 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile  355 (392)
                      +..+.++|..+...|++++|+..|++++++.       +..       ...+.++|.++..+|++++|+..|++++++  
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-------p~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--   67 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-------PED-------ARGYSNRAAALAKLMSFPEAIADCNKAIEK--   67 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-------CCC-------hHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--
Confidence            3456777777778888888888887777542       211       455667777777888888887777777743  


Q ss_pred             HhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          356 SLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       356 ~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                          .|........++.  ++..++++.+|+.+|++
T Consensus        68 ----~p~~~~~~~~lg~--~~~~~~~~~~A~~~~~~   97 (126)
T 3upv_A           68 ----DPNFVRAYIRKAT--AQIAVKEYASALETLDA   97 (126)
T ss_dssp             ----CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             ----CCCcHHHHHHHHH--HHHHHhCHHHHHHHHHH
Confidence                5666666666666  77777777777777765

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.03  E-value=6.4e-05  Score=66.67  Aligned_cols=156  Identities=13%  Similarity=0.038  Sum_probs=112.0

Q ss_pred             HHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCc
Q 016262          189 QAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDD  268 (392)
Q Consensus       189 ~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~  268 (392)
                      .+.-.+..|++++|...+...       +...+.+..       .+..++.++...|++.+|+..++...+.    .+..
T Consensus        11 lg~~~~~~g~~~~A~~~~~~a-------l~~~p~~~~-------a~~~lg~~~~~~g~~~~A~~~~~~al~~----~P~~   72 (217)
T 2pl2_A           11 LGVQLYALGRYDAALTLFERA-------LKENPQDPE-------ALYWLARTQLKLGLVNPALENGKTLVAR----TPRY   72 (217)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH-------HTTSSSCHH-------HHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHH-------HHhCCCCHH-------HHHHHHHHHHHcCCHHHHHHHHHHHHHh----CCCc
Confidence            344467888999988887622       223333332       3344555555788888898888776543    3333


Q ss_pred             hHHHHHHHHHHHHHHHHHHhc-----------CCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhc
Q 016262          269 LEIIHTLSVSLNKIGDLKYYG-----------GDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSI  337 (392)
Q Consensus       269 ~e~~~~l~~~l~~lg~l~~~~-----------g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~l  337 (392)
                      .       .....+|.++..+           |++++|+..|++++++       .+..       ...+.++|.++..+
T Consensus        73 ~-------~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~-------~P~~-------~~~~~~lg~~~~~~  131 (217)
T 2pl2_A           73 L-------GGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERV-------NPRY-------APLHLQRGLVYALL  131 (217)
T ss_dssp             H-------HHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH-------CTTC-------HHHHHHHHHHHHHT
T ss_pred             H-------HHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh-------Cccc-------HHHHHHHHHHHHHc
Confidence            3       3567778888877           8888898888888765       3321       45677899999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          338 GNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       338 g~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      |++++|+..|++++++-       ..+.+...++.  ++..++++..++..|++|
T Consensus       132 g~~~~A~~~~~~al~~~-------~~~~~~~~la~--~~~~~g~~~~A~~~~~~a  177 (217)
T 2pl2_A          132 GERDKAEASLKQALALE-------DTPEIRSALAE--LYLSMGRLDEALAQYAKA  177 (217)
T ss_dssp             TCHHHHHHHHHHHHHHC-------CCHHHHHHHHH--HHHHHTCHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHhcc-------cchHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            99999999999998763       45566677777  888999999999888764

>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=98.02  E-value=1.6e-05  Score=73.53  Aligned_cols=132  Identities=15%  Similarity=0.227  Sum_probs=97.3

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV  316 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~  316 (392)
                      ++..+...|++..|+.+++++.+.    .+..       ...+..++.++...|++++|+..|++++++.......... 
T Consensus       165 l~~~~~~~~~~~~A~~~~~~al~~----~~~~-------~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~-  232 (330)
T 3hym_B          165 IGLEYGLTNNSKLAERFFSQALSI----APED-------PFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTV-  232 (330)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTT----CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTT-
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHh----CCCC-------hHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccc-
Confidence            444555667777777776655332    2222       2467889999999999999999999999876543222110 


Q ss_pred             CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          317 PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       317 ~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                          ...+..+.++|.++..+|++++|+..|++++++      .|........++.  .+..++++.+|+.+|++|
T Consensus       233 ----~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~------~~~~~~~~~~la~--~~~~~g~~~~A~~~~~~a  296 (330)
T 3hym_B          233 ----DKWEPLLNNLGHVCRKLKKYAEALDYHRQALVL------IPQNASTYSAIGY--IHSLMGNFENAVDYFHTA  296 (330)
T ss_dssp             ----TTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------STTCSHHHHHHHH--HHHHHTCHHHHHHHHHTT
T ss_pred             ----cHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh------CccchHHHHHHHH--HHHHhccHHHHHHHHHHH
Confidence                122456788999999999999999999999865      5667777777887  888999999999999875

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.00  E-value=8.3e-06  Score=79.37  Aligned_cols=184  Identities=11%  Similarity=0.019  Sum_probs=123.4

Q ss_pred             hHhHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhC
Q 016262          185 FLVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKL  264 (392)
Q Consensus       185 cl~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L  264 (392)
                      ++...+---+..|++++|...+.........    ... .   .........++.+....|++..++.+++.+.......
T Consensus        57 al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~----~~~-~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  128 (434)
T 4b4t_Q           57 SILELGQLYVTMGAKDKLREFIPHSTEYMMQ----FAK-S---KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKRE  128 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTHHHHHT----SCH-H---HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH----ccc-h---HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHh
Confidence            3444443456788999888887654432211    000 0   1112233444555556778899999999998887776


Q ss_pred             CCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHH
Q 016262          265 PMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAV  344 (392)
Q Consensus       265 ~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~  344 (392)
                      .....     ......+++.++...|++++|+..+.+++.......    ..    ..++..+..++.++..+|++.+|.
T Consensus       129 ~~~~~-----~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~----~~----~~~~~~~~~~~~~~~~~~~~~~A~  195 (434)
T 4b4t_Q          129 KRVFL-----KHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLD----DK----PSLVDVHLLESKVYHKLRNLAKSK  195 (434)
T ss_dssp             SCCSS-----HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSS----CS----THHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CccHH-----HHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcc----cc----hhHHHHHHHHHHHHHHhCcHHHHH
Confidence            55332     245788999999999999999999999876654321    11    256788899999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCC-chhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          345 DGFQEAIKRLESLTLKPE-EAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       345 ~~~~~al~ile~l~~~~~-~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      ..|++++.+...+...+. .+.+...++.  ++...++|..+..+|.+
T Consensus       196 ~~~~~al~~~~~~~~~~~~~~~~~~~~g~--~~~~~~~y~~A~~~~~~  241 (434)
T 4b4t_Q          196 ASLTAARTAANSIYCPTQTVAELDLMSGI--LHCEDKDYKTAFSYFFE  241 (434)
T ss_dssp             HHHHHHHHHHHHSCCCHHHHHHHHHHHHH--HTTSSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcCCCchHHHHHHHHHHHH--HHHHHHhHHHHHHHHHH
Confidence            999999998887743322 2344444444  44555666666666654

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 4f52_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A

Probab=97.99  E-value=1.9e-06  Score=68.48  Aligned_cols=44  Identities=30%  Similarity=0.615  Sum_probs=35.6

Q ss_pred             CceeccccccccccC-----------------ceecccCcHhHHHhHHhcC----CCCCCCcCCc
Q 016262           88 GPLSCMICQALLFEC-----------------SKCTPCSHVYCKACISRFK----DCPLCGADIE  131 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~-----------------p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~  131 (392)
                      +...|+||++.|.+.                 .+.++|+|.|+..||..|.    .||+||..+.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            456799999987732                 2557999999999999993    5999998754

>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=97.99  E-value=4.1e-05  Score=72.30  Aligned_cols=95  Identities=16%  Similarity=0.126  Sum_probs=78.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE  355 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile  355 (392)
                      ...+..++.++...|++++|+..|++++++       .+.       ....+.++|.++..+|++++|+..|++++++  
T Consensus       217 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-------~~~-------~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--  280 (368)
T 1fch_A          217 PDVQCGLGVLFNLSGEYDKAVDCFTAALSV-------RPN-------DYLLWNKLGATLANGNQSEEAVAAYRRALEL--  280 (368)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------CcC-------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--
Confidence            356788999999999999999999998876       122       1456788999999999999999999998864  


Q ss_pred             HhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          356 SLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       356 ~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                          .|........++.  ++..++++.+|+.+|++|
T Consensus       281 ----~~~~~~~~~~l~~--~~~~~g~~~~A~~~~~~a  311 (368)
T 1fch_A          281 ----QPGYIRSRYNLGI--SCINLGAHREAVEHFLEA  311 (368)
T ss_dssp             ----CTTCHHHHHHHHH--HHHHHTCHHHHHHHHHHH
T ss_pred             ----CCCcHHHHHHHHH--HHHHCCCHHHHHHHHHHH
Confidence                5777777788888  888999999999998764

>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=97.98  E-value=5.4e-05  Score=72.21  Aligned_cols=136  Identities=13%  Similarity=0.088  Sum_probs=104.7

Q ss_pred             HHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCC----chHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          228 SQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMD----DLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSL  303 (392)
Q Consensus       228 ~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~----~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL  303 (392)
                      +.....+..++..+...|++..|+..++.+..........    ..++.......+.+++.++..+|++++|+.+|+++|
T Consensus       144 p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al  223 (336)
T 1p5q_A          144 LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKAL  223 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444556667777778899999999999887665443211    123345556789999999999999999999999999


Q ss_pred             HHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhh
Q 016262          304 NVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHL  383 (392)
Q Consensus       304 ~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~  383 (392)
                      ++.       +.       .+..+.++|.++..+|++++|+..|++++++      .|.+......++.  ++..++++.
T Consensus       224 ~~~-------p~-------~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l------~P~~~~a~~~l~~--~~~~~~~~~  281 (336)
T 1p5q_A          224 ELD-------SN-------NEKGLSRRGEAHLAVNDFELARADFQKVLQL------YPNNKAAKTQLAV--CQQRIRRQL  281 (336)
T ss_dssp             HHC-------TT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------CSSCHHHHHHHHH--HHHHHHHHH
T ss_pred             HhC-------CC-------cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH------CCCCHHHHHHHHH--HHHHHHHHH
Confidence            762       22       2567789999999999999999999999854      6777777777777  777788777


Q ss_pred             cc
Q 016262          384 NQ  385 (392)
Q Consensus       384 ~~  385 (392)
                      ++
T Consensus       282 ~a  283 (336)
T 1p5q_A          282 AR  283 (336)
T ss_dssp             HH
T ss_pred             HH
Confidence            66

>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=97.95  E-value=9.7e-05  Score=74.13  Aligned_cols=129  Identities=11%  Similarity=0.117  Sum_probs=97.4

Q ss_pred             HhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q 016262          231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAV  310 (392)
Q Consensus       231 ~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~  310 (392)
                      ...+..++..+...|++.+|+.+++++.+.    .+..       ...+.+++.++..+|++++|+.+|++++++     
T Consensus         6 a~~~~~lg~~~~~~g~~~~A~~~~~~Al~~----~p~~-------~~~~~~lg~~~~~~g~~~~A~~~~~~al~l-----   69 (477)
T 1wao_1            6 AEELKTQANDYFKAKDYENAIKFYSQAIEL----NPSN-------AIYYGNRSLAYLRTECYGYALGDATRAIEL-----   69 (477)
T ss_dssp             HTTSSSSSSSTTTTTCHHHHHHHHHHHHHH----CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHS-----
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHh----CCcc-------HHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-----
Confidence            455677788877889999999999888665    2222       457889999999999999999999999876     


Q ss_pred             hcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchh
Q 016262          311 KRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFR  390 (392)
Q Consensus       311 ~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~  390 (392)
                        .+.       .+..+.++|.++..+|++++|+..|++++++      .|........++.-..+..++++.+|+.+|+
T Consensus        70 --~p~-------~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~------~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           70 --DKK-------YIKGYYRRAASNMALGKFRAALRDYETVVKV------KPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             --CTT-------CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH------STTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             --CCC-------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------CCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence              222       2567889999999999999999999999865      5666666666666223667799999999988

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.95  E-value=1.8e-05  Score=66.59  Aligned_cols=94  Identities=14%  Similarity=0.092  Sum_probs=62.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE  355 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile  355 (392)
                      ...+..+|.++...|++++|+..|++++++.       +.       ....+.++|.++..+|++++|+..|++++++  
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-------p~-------~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--   74 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIA-------PA-------NPIYLSNRAAAYSASGQHEKAAEDAELATVV--   74 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-------TT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------Cc-------CHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--
Confidence            4556777777777777777777777776542       11       1445666777777777777777777777643  


Q ss_pred             HhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          356 SLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       356 ~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                          .|........++.  ++..++++.+|+.+|++
T Consensus        75 ----~p~~~~~~~~lg~--~~~~~g~~~~A~~~~~~  104 (164)
T 3sz7_A           75 ----DPKYSKAWSRLGL--ARFDMADYKGAKEAYEK  104 (164)
T ss_dssp             ----CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             ----CCCCHHHHHHHHH--HHHHccCHHHHHHHHHH
Confidence                4566666666666  66677777777777664

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=97.94  E-value=2.8e-05  Score=69.22  Aligned_cols=139  Identities=15%  Similarity=0.185  Sum_probs=105.9

Q ss_pred             hhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhc
Q 016262          233 VLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKR  312 (392)
Q Consensus       233 ~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~  312 (392)
                      .+..++..+...|++..|+.+++.+.+..     ..       ...+..++.++...|++++|+..|++++++.....  
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~-----~~-------~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~--   72 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELH-----KD-------ITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMR--   72 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-----CC-------THHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhh-----cc-------HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccc--
Confidence            44455566667888999999998876553     11       24678899999999999999999999998765421  


Q ss_pred             CCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH-------------------HHHh-hcCCCchhHHHhhcc
Q 016262          313 HSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR-------------------LESL-TLKPEEAGLEQRCWN  372 (392)
Q Consensus       313 ~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i-------------------le~l-~~~~~~a~l~~~~~~  372 (392)
                           .....++..+..+|.++..+|++++|+..|++++++                   ++.. ...|....+...++.
T Consensus        73 -----~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  147 (258)
T 3uq3_A           73 -----ADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGK  147 (258)
T ss_dssp             -----CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             -----cchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHH
Confidence                 111234677889999999999999999999999983                   3333 466777777777777


Q ss_pred             hhHHHHHHhhhccccchhcC
Q 016262          373 SSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       373 ~~~~~~l~~~~~~l~~~~~~  392 (392)
                        ++..++++.+++.+|++|
T Consensus       148 --~~~~~~~~~~A~~~~~~a  165 (258)
T 3uq3_A          148 --EYFTKSDWPNAVKAYTEM  165 (258)
T ss_dssp             --HHHHTTCHHHHHHHHHHH
T ss_pred             --HHHHhcCHHHHHHHHHHH
Confidence              788888999999888763

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A

Probab=97.93  E-value=2.5e-06  Score=60.62  Aligned_cols=43  Identities=9%  Similarity=0.236  Sum_probs=38.2

Q ss_pred             ceeccccccccccCceec-ccCcHhHHHhHHhcC----CCCCCCcCCcc
Q 016262           89 PLSCMICQALLFECSKCT-PCSHVYCKACISRFK----DCPLCGADIEK  132 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~-~C~h~fC~~Ci~~~~----~CP~C~~~~~~  132 (392)
                      .+.|+|+++++. +|+++ ++||+|++.||.+|.    .||..+.++..
T Consensus         3 ~~~CpIs~~~m~-dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~   50 (61)
T 2bay_A            3 HMLCAISGKVPR-RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   50 (61)
T ss_dssp             -CCCTTTCSCCS-SEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             eEEecCCCCCCC-CCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCCh
Confidence            478999999999 99999 999999999999993    59999988765

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.92  E-value=3.1e-05  Score=73.93  Aligned_cols=145  Identities=14%  Similarity=0.036  Sum_probs=108.5

Q ss_pred             hhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhh
Q 016262          232 AVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVK  311 (392)
Q Consensus       232 ~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~  311 (392)
                      +.+...+.+....|++..++.+++++....   ....   .......+..++.++...|++++|+..|++++++..... 
T Consensus        15 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~---~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~-   87 (373)
T 1hz4_A           15 EFNALRAQVAINDGNPDEAERLAKLALEEL---PPGW---FYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHD-   87 (373)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTC---CTTC---HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcC---CCCc---hhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcC-
Confidence            333444445556788888888887775432   2211   123455788999999999999999999999999876621 


Q ss_pred             cCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhc--CCCchhHHHhhcchhHHHHHHhhhccccch
Q 016262          312 RHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTL--KPEEAGLEQRCWNSSTTNFQKNHLNQLPKF  389 (392)
Q Consensus       312 ~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~--~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~  389 (392)
                             .....+..+.++|.++..+|++.+|+.+|++++++.+....  +|........++.  ++..++++..++.+|
T Consensus        88 -------~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~--~~~~~g~~~~A~~~~  158 (373)
T 1hz4_A           88 -------VWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQ--LLWAWARLDEAEASA  158 (373)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHH--HHHHTTCHHHHHHHH
T ss_pred             -------cHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHH--HHHHhcCHHHHHHHH
Confidence                   12245677889999999999999999999999999998733  2556666667777  788889999998888


Q ss_pred             hcC
Q 016262          390 RSA  392 (392)
Q Consensus       390 ~~~  392 (392)
                      ++|
T Consensus       159 ~~a  161 (373)
T 1hz4_A          159 RSG  161 (373)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            753

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.92  E-value=0.00014  Score=60.97  Aligned_cols=131  Identities=15%  Similarity=0.085  Sum_probs=94.9

Q ss_pred             hhcccccccccccchhHHHhHHHHHHHHHHhCC----CCch---HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          233 VLGMLGDCCRAMGDADAAVAYFADSVEFLMKLP----MDDL---EIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNV  305 (392)
Q Consensus       233 ~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~----~~~~---e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i  305 (392)
                      .+...|..+...|++..|+..+..+........    ....   .+.......+.+++.++..+|++++|+.+|+++|.+
T Consensus        13 ~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~   92 (162)
T 3rkv_A           13 ALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR   92 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Confidence            344455555578999999999998877654431    1111   124445678899999999999999999999999977


Q ss_pred             HHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCch-hHHHhhcchhHHHHHHhhhc
Q 016262          306 RRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEA-GLEQRCWNSSTTNFQKNHLN  384 (392)
Q Consensus       306 ~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a-~l~~~~~~~~~~~~l~~~~~  384 (392)
                             .+.       -+..+-++|.++..+|++++|+..|++++++      .|.+. .+...+..  +...++++.+
T Consensus        93 -------~p~-------~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l------~p~~~~~~~~~l~~--~~~~~~~~~~  150 (162)
T 3rkv_A           93 -------EET-------NEKALFRRAKARIAAWKLDEAEEDLKLLLRN------HPAAASVVAREMKI--VTERRAEKKA  150 (162)
T ss_dssp             -------STT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------CGGGHHHHHHHHHH--HHHHHHHHTT
T ss_pred             -------CCc-------chHHHHHHHHHHHHHhcHHHHHHHHHHHHhc------CCCCHHHHHHHHHH--HHHHHHHHHH
Confidence                   222       1566788999999999999999999999855      66766 55655555  5555555544


Q ss_pred             c
Q 016262          385 Q  385 (392)
Q Consensus       385 ~  385 (392)
                      +
T Consensus       151 ~  151 (162)
T 3rkv_A          151 D  151 (162)
T ss_dssp             S
T ss_pred             H
Confidence            4

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.89  E-value=0.00017  Score=55.45  Aligned_cols=93  Identities=12%  Similarity=0.074  Sum_probs=74.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+..+|.++...|++++|+..|++++++       .+..       ...+.++|.++..+|++++|+..|++++     
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~-------~p~~-------~~~~~~lg~~~~~~g~~~~A~~~~~~al-----   65 (111)
T 2l6j_A            5 EKQKEQGNSLFKQGLYREAVHCYDQLITA-------QPQN-------PVGYSNKAMALIKLGEYTQAIQMCQQGL-----   65 (111)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHH-------CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHH-----
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc-------CCCC-------HHHHHHHHHHHHHhcCHHHHHHHHHHHH-----
Confidence            46788999999999999999999999876       2221       4567899999999999999999999988     


Q ss_pred             hhcCCCc------hhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          357 LTLKPEE------AGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       357 l~~~~~~------a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                       ...|..      ..+...++.  .+..++.+..++..|++
T Consensus        66 -~~~p~~~~~~~~~~~~~~~~~--~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           66 -RYTSTAEHVAIRSKLQYRLEL--AQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             -TSCSSTTSHHHHHHHHHHHHH--HHHHHHCCCCCSSSSSS
T ss_pred             -HhCCCccHHHHHHHHHHHHHH--HHHHHHhHhhhHhHHHH
Confidence             445555      555666666  77788888888887765

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=97.89  E-value=5.3e-05  Score=65.80  Aligned_cols=157  Identities=12%  Similarity=0.078  Sum_probs=92.5

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCch
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDL  269 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~  269 (392)
                      +.-.+..|++++|...+.....       ..+..       ...+..++.++...|++..|+.+++...+.    .+.. 
T Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~-------~~~~~-------~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~----~~~~-   75 (225)
T 2vq2_A           15 AMEYMRGQDYRQATASIEDALK-------SDPKN-------ELAWLVRAEIYQYLKVNDKAQESFRQALSI----KPDS-   75 (225)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH-------HCTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTC-
T ss_pred             HHHHHHHhhHHHHHHHHHHHHH-------hCccc-------hHHHHHHHHHHHHcCChHHHHHHHHHHHHh----CCCC-
Confidence            4446778899999888863321       11111       123333444454667777777777666443    1111 


Q ss_pred             HHHHHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHH
Q 016262          270 EIIHTLSVSLNKIGDLKYYG-GDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQ  348 (392)
Q Consensus       270 e~~~~l~~~l~~lg~l~~~~-g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~  348 (392)
                            ......++.++... |++++|+..|+++++        .+..+    +....+..+|.++..+|++++|+..|+
T Consensus        76 ------~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~--------~~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~  137 (225)
T 2vq2_A           76 ------AEINNNYGWFLCGRLNRPAESMAYFDKALA--------DPTYP----TPYIANLNKGICSAKQGQFGLAEAYLK  137 (225)
T ss_dssp             ------HHHHHHHHHHHHTTTCCHHHHHHHHHHHHT--------STTCS----CHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ------hHHHHHHHHHHHHhcCcHHHHHHHHHHHHc--------CcCCc----chHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence                  23456777777778 888888888777664        01111    224455667777777777777777777


Q ss_pred             HHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          349 EAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       349 ~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      +++++      .|........++.  .+..++++.+++.+|++
T Consensus       138 ~~~~~------~~~~~~~~~~la~--~~~~~~~~~~A~~~~~~  172 (225)
T 2vq2_A          138 RSLAA------QPQFPPAFKELAR--TKMLAGQLGDADYYFKK  172 (225)
T ss_dssp             HHHHH------STTCHHHHHHHHH--HHHHHTCHHHHHHHHHH
T ss_pred             HHHHh------CCCCchHHHHHHH--HHHHcCCHHHHHHHHHH
Confidence            76643      3444444555555  55566666666666654

>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=97.89  E-value=0.00018  Score=57.26  Aligned_cols=114  Identities=10%  Similarity=0.063  Sum_probs=86.8

Q ss_pred             hcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcC
Q 016262          234 LGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRH  313 (392)
Q Consensus       234 L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~  313 (392)
                      +...|..+...|++..|+.+++++.+..    +..       ...+.++|.++..+|++++|+..|++++++       .
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~----p~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~al~~-------~   68 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRA----PED-------ARGYSNRAAALAKLMSFPEAIADCNKAIEK-------D   68 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC----TTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------C
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC----CCC-------hHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-------C
Confidence            3444555557888999999988775542    222       357889999999999999999999999876       2


Q ss_pred             CCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcc
Q 016262          314 SNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       314 ~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~  372 (392)
                      +.       ....+.++|.++..+|++++|+..|++++++-......|.+..+...+..
T Consensus        69 p~-------~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~  120 (126)
T 3upv_A           69 PN-------FVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYK  120 (126)
T ss_dssp             TT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred             CC-------cHHHHHHHHHHHHHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHH
Confidence            22       14567889999999999999999999999988666555666655554443

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.87  E-value=5.6e-05  Score=73.34  Aligned_cols=113  Identities=16%  Similarity=0.133  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCC-C-CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSN-V-PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQE  349 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~-~-~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~  349 (392)
                      .......+..+|..+...|++++|+..|++++++.......... . .......+..+.++|.++..+|++++|+.+|++
T Consensus       219 ~~~~a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~  298 (370)
T 1ihg_A          219 ILLISEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLE  298 (370)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHH
Confidence            34456678999999999999999999999999976553211000 0 001124577888999999999999999999999


Q ss_pred             HHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          350 AIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       350 al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +++      ..|..+....+++.  .+..++++.+|+.+|++|
T Consensus       299 al~------~~p~~~~a~~~lg~--~~~~~g~~~eA~~~l~~A  333 (370)
T 1ihg_A          299 ALE------IDPSNTKALYRRAQ--GWQGLKEYDQALADLKKA  333 (370)
T ss_dssp             HHT------TCTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHH------hCchhHHHHHHHHH--HHHHccCHHHHHHHHHHH
Confidence            884      56788888888888  888999999999998864

>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=97.87  E-value=4.3e-05  Score=68.24  Aligned_cols=93  Identities=15%  Similarity=0.110  Sum_probs=45.5

Q ss_pred             HhHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCC
Q 016262          186 LVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLP  265 (392)
Q Consensus       186 l~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~  265 (392)
                      +...+.-.+..|++++|...+......       .+...       ..+..++.++...|++..|+.++++..+..    
T Consensus        40 ~~~~a~~~~~~~~~~~A~~~~~~al~~-------~~~~~-------~~~~~la~~~~~~~~~~~A~~~~~~a~~~~----  101 (252)
T 2ho1_A           40 YIQLGLGYLQRGNTEQAKVPLRKALEI-------DPSSA-------DAHAALAVVFQTEMEPKLADEEYRKALASD----  101 (252)
T ss_dssp             HHHHHHHHHHTTCTGGGHHHHHHHHHH-------CTTCH-------HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhc-------CCChH-------HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC----
Confidence            344454567888999988888643221       11111       122223333334555555555555443321    


Q ss_pred             CCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          266 MDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSL  303 (392)
Q Consensus       266 ~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL  303 (392)
                      ...       ......++.++...|++++|+.+|++++
T Consensus       102 ~~~-------~~~~~~la~~~~~~g~~~~A~~~~~~~~  132 (252)
T 2ho1_A          102 SRN-------ARVLNNYGGFLYEQKRYEEAYQRLLEAS  132 (252)
T ss_dssp             TTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             cCc-------HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            111       1234455555555555555555555544

>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=97.86  E-value=2.2e-05  Score=75.32  Aligned_cols=60  Identities=17%  Similarity=0.127  Sum_probs=44.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          325 VSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       325 ~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ..+..+|.++..+|++++|+..|+++++      ..|..+.....++.  ++...+++..++.+|++|
T Consensus       136 ~~~~~l~~~~~~~g~~~~A~~~~~~al~------~~p~~~~~~~~l~~--~~~~~g~~~~A~~~~~~a  195 (388)
T 1w3b_A          136 CVRSDLGNLLKALGRLEEAKACYLKAIE------TQPNFAVAWSNLGC--VFNAQGEIWLAIHHFEKA  195 (388)
T ss_dssp             HHHHHHHHHHHTTSCHHHHHHHHHHHHH------HCTTCHHHHHHHHH--HHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHH------hCCCCHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            3455677777777888877777777664      36777777777777  777888888888888764

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=97.84  E-value=9.2e-05  Score=63.01  Aligned_cols=101  Identities=19%  Similarity=0.210  Sum_probs=70.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK---  352 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~---  352 (392)
                      .....+||.++..+|++++|+..|+++|++       .+.+       ...+.++|.++..+|++++|+..+++++.   
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~~-------~p~~-------~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~   70 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLKA-------DPNN-------VETLLKLGKTYMDIGLPNDAIESLKKFVVLDT   70 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-------CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------CCCC-------HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc
Confidence            456789999999999999999999999865       2222       34455666666666666666665544432   


Q ss_pred             ------------------------HHHHh-hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          353 ------------------------RLESL-TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       353 ------------------------ile~l-~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                                              .++.. ...|........++.  ++..++++.+|+.+|+++
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~--~~~~~g~~~~A~~~~~~~  133 (184)
T 3vtx_A           71 TSAEAYYILGSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGL--VYDSMGEHDKAIEAYEKT  133 (184)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHH--HHHHhCCchhHHHHHHHH
Confidence                                    12222 446666666667777  788888899999888763

>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=97.84  E-value=0.00011  Score=69.36  Aligned_cols=160  Identities=16%  Similarity=0.063  Sum_probs=113.2

Q ss_pred             HhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHH
Q 016262          194 FRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIH  273 (392)
Q Consensus       194 ~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~  273 (392)
                      +..|++++|...+....       ...+...     ....+..++.++...|++..|+.+++++...    .+..     
T Consensus       192 ~~~~~~~~A~~~~~~a~-------~~~p~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~----~~~~-----  250 (368)
T 1fch_A          192 LSDSLFLEVKELFLAAV-------RLDPTSI-----DPDVQCGLGVLFNLSGEYDKAVDCFTAALSV----RPND-----  250 (368)
T ss_dssp             HHHHHHHHHHHHHHHHH-------HHSTTSC-----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTC-----
T ss_pred             hhcccHHHHHHHHHHHH-------HhCcCcc-----cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CcCC-----
Confidence            46677888877775332       1122200     1123344555555788889999988877554    2222     


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          274 TLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       274 ~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                        ...+..++.++...|++++|+..|++++++.       +.       ....+.++|.++..+|++++|+..|++++++
T Consensus       251 --~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-------~~-------~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          251 --YLLWNKLGATLANGNQSEEAVAAYRRALELQ-------PG-------YIRSRYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             --HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TT-------CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------CC-------cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence              2467899999999999999999999998762       21       2556788999999999999999999999988


Q ss_pred             HHHh-----hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          354 LESL-----TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       354 le~l-----~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ....     ..++........++.  ++..++++..+...++.+
T Consensus       315 ~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~g~~~~A~~~~~~~  356 (368)
T 1fch_A          315 QRKSRGPRGEGGAMSENIWSTLRL--ALSMLGQSDAYGAADARD  356 (368)
T ss_dssp             HHTC------CCCCCHHHHHHHHH--HHHHHTCGGGHHHHHTTC
T ss_pred             CCCCCCccccccchhhHHHHHHHH--HHHHhCChHhHHHhHHHH
Confidence            7655     233445666667777  888888888887777653

>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=97.83  E-value=0.00033  Score=60.67  Aligned_cols=134  Identities=12%  Similarity=0.060  Sum_probs=96.5

Q ss_pred             HhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCc-----hHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDD-----LEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNV  305 (392)
Q Consensus       231 ~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~-----~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i  305 (392)
                      ...+...+..+...|++..|+.+++.+...........     ..........+.+++.++..+|++++|+.+|++++++
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  117 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI  117 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            34455566666688999999999988865433321100     0111122467889999999999999999999999976


Q ss_pred             HHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhcc
Q 016262          306 RRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQ  385 (392)
Q Consensus       306 ~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~  385 (392)
                             .+.       ....+.++|.++..+|++++|+..|++++++      .|.+..+...++.  ++..++++.++
T Consensus       118 -------~p~-------~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~------~p~~~~~~~~l~~--~~~~~~~~~~~  175 (198)
T 2fbn_A          118 -------DKN-------NVKALYKLGVANMYFGFLEEAKENLYKAASL------NPNNLDIRNSYEL--CVNKLKEARKK  175 (198)
T ss_dssp             -------STT-------CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH------STTCHHHHHHHHH--HHHHHHHHHC-
T ss_pred             -------Ccc-------cHHHHHHHHHHHHHcccHHHHHHHHHHHHHH------CCCcHHHHHHHHH--HHHHHHHHHHH
Confidence                   222       2456788999999999999999999998854      6777777777777  77777777766


Q ss_pred             c
Q 016262          386 L  386 (392)
Q Consensus       386 l  386 (392)
                      .
T Consensus       176 ~  176 (198)
T 2fbn_A          176 D  176 (198)
T ss_dssp             -
T ss_pred             H
Confidence            6

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=97.82  E-value=4.6e-05  Score=69.13  Aligned_cols=175  Identities=8%  Similarity=-0.049  Sum_probs=114.2

Q ss_pred             HhHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCC
Q 016262          186 LVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLP  265 (392)
Q Consensus       186 l~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~  265 (392)
                      ++-.+...+..|++++|...+....       ...+...    .....+.+++.++..+|++..|+..++......    
T Consensus        18 ~~~~a~~~~~~g~~~~A~~~~~~~l-------~~~p~~~----~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~----   82 (261)
T 3qky_A           18 AFERAMEFYNQGKYDRAIEYFKAVF-------TYGRTHE----WAADAQFYLARAYYQNKEYLLAASEYERFIQIY----   82 (261)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHG-------GGCSCST----THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHH-------HhCCCCc----chHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHC----
Confidence            4555667889999999999886331       2222221    012345556666668899999999888775542    


Q ss_pred             CCchHHHHHHHHHHHHHHHHHHh--------cCCHHHHHHHHHHHHHHHHHHhhcCCCCCchh----------hHHHHHH
Q 016262          266 MDDLEIIHTLSVSLNKIGDLKYY--------GGDLQAARSYYVRSLNVRRDAVKRHSNVPSQV----------LDVAVSL  327 (392)
Q Consensus       266 ~~~~e~~~~l~~~l~~lg~l~~~--------~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~----------~dla~sl  327 (392)
                      +...    ....++..+|.++..        .|++++|+..|+++++..       +.+....          -.++...
T Consensus        83 p~~~----~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-------p~~~~~~~a~~~~~~~~~~~~~~~  151 (261)
T 3qky_A           83 QIDP----RVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY-------PNHELVDDATQKIRELRAKLARKQ  151 (261)
T ss_dssp             TTCT----THHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC-------TTCTTHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCc----hhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC-------cCchhHHHHHHHHHHHHHHHHHHH
Confidence            2111    234578889999998        999999999999887642       2221110          0123333


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHH----------Hhhhccccchhc
Q 016262          328 AKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQ----------KNHLNQLPKFRS  391 (392)
Q Consensus       328 ~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l----------~~~~~~l~~~~~  391 (392)
                      -++|.++..+|++++|+..|+++++..   ...+........++.  .+..+          +++.+|+.+|++
T Consensus       152 ~~la~~~~~~g~~~~A~~~~~~~l~~~---p~~~~~~~a~~~l~~--~~~~~g~~~~~~~~~~~~~~A~~~~~~  220 (261)
T 3qky_A          152 YEAARLYERRELYEAAAVTYEAVFDAY---PDTPWADDALVGAMR--AYIAYAEQSVRARQPERYRRAVELYER  220 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC---TTSTTHHHHHHHHHH--HHHHHHHTSCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHC---CCCchHHHHHHHHHH--HHHHhcccchhhcccchHHHHHHHHHH
Confidence            678999999999999999999988532   122223445555555  66655          778888888875

>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=97.82  E-value=1.8e-05  Score=77.28  Aligned_cols=127  Identities=9%  Similarity=-0.041  Sum_probs=66.0

Q ss_pred             HhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHHHHHH
Q 016262          231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGD-LQAARSYYVRSLNVRRDA  309 (392)
Q Consensus       231 ~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~-l~~A~~~~e~aL~i~~~~  309 (392)
                      ...+.+++.+....|++.+|+..++.+...    .+..       ...+..+|.++..+|+ +++|+..|++++++.   
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l----~P~~-------~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~---  162 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIEL----NAAN-------YTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ---  162 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHH----CTTC-------HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHh----CccC-------HHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC---
Confidence            334444454444566667777776655432    2222       2356677777777775 777777777766531   


Q ss_pred             hhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccch
Q 016262          310 VKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKF  389 (392)
Q Consensus       310 ~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~  389 (392)
                          +.       -...+.++|.++..+|++++|+..|++++      ..+|.+......++.  ++..++++.++|.+|
T Consensus       163 ----P~-------~~~a~~~~g~~~~~~g~~~eAl~~~~kal------~ldP~~~~a~~~lg~--~~~~~g~~~eAl~~~  223 (382)
T 2h6f_A          163 ----PK-------NYQVWHHRRVLVEWLRDPSQELEFIADIL------NQDAKNYHAWQHRQW--VIQEFKLWDNELQYV  223 (382)
T ss_dssp             ----TT-------CHHHHHHHHHHHHHHTCCTTHHHHHHHHH------HHCTTCHHHHHHHHH--HHHHHTCCTTHHHHH
T ss_pred             ----CC-------CHHHHHHHHHHHHHccCHHHHHHHHHHHH------HhCccCHHHHHHHHH--HHHHcCChHHHHHHH
Confidence                11       13334445555555555555555555544      233444444444444  444444444444444


Q ss_pred             h
Q 016262          390 R  390 (392)
Q Consensus       390 ~  390 (392)
                      +
T Consensus       224 ~  224 (382)
T 2h6f_A          224 D  224 (382)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=97.81  E-value=3.1e-05  Score=73.97  Aligned_cols=113  Identities=10%  Similarity=0.006  Sum_probs=87.0

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCc-hhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPS-QVLDVAVSLAKVADVDRSIGNEDVAVDGFQEA  350 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~-~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~a  350 (392)
                      .......+.++|.++...|++++|+..|++++++.........+... .....+..+.++|.++..+|++++|+..|+++
T Consensus       143 ~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~a  222 (336)
T 1p5q_A          143 KLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKA  222 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44556788999999999999999999999999874321100000000 01123677889999999999999999999999


Q ss_pred             HHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          351 IKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       351 l~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +++      .|.++....+++.  ++..++++.+|+.+|++|
T Consensus       223 l~~------~p~~~~a~~~lg~--~~~~~g~~~~A~~~~~~a  256 (336)
T 1p5q_A          223 LEL------DSNNEKGLSRRGE--AHLAVNDFELARADFQKV  256 (336)
T ss_dssp             HHH------CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHh------CCCcHHHHHHHHH--HHHHCCCHHHHHHHHHHH
Confidence            864      6788888888888  899999999999999864

>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=97.81  E-value=3.6e-05  Score=64.22  Aligned_cols=93  Identities=9%  Similarity=0.060  Sum_probs=58.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+..+|.++...|++++|+..|++++.+       .+.+       ...+.++|.++..+|++++|+..|++++.    
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~-------~p~~-------~~~~~~lg~~~~~~g~~~~A~~~~~~al~----   83 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVL-------DHYD-------SRFFLGLGACRQAMGQYDLAIHSYSYGAV----   83 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHc-------Cccc-------HHHHHHHHHHHHHHhhHHHHHHHHHHHHh----
Confidence            34566677777777777777777666543       2221       33445667777777777777777776663    


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                        ..|.++.....++.  ++..++++.+|+.+|++
T Consensus        84 --l~p~~~~~~~~lg~--~~~~~g~~~~A~~~~~~  114 (148)
T 2vgx_A           84 --MDIXEPRFPFHAAE--CLLQXGELAEAESGLFL  114 (148)
T ss_dssp             --HSTTCTHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             --cCCCCchHHHHHHH--HHHHcCCHHHHHHHHHH
Confidence              34555555666666  66666666666666654

>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=97.80  E-value=0.00024  Score=58.68  Aligned_cols=130  Identities=11%  Similarity=0.109  Sum_probs=93.3

Q ss_pred             HhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q 016262          231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAV  310 (392)
Q Consensus       231 ~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~  310 (392)
                      ...+..++..+...|++..|+.+++.+....    +..       ...+..++.++...|++++|+.+|++++++.    
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~----~~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~----   77 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN----PSN-------AIYYGNRSLAYLRTECYGYALGDATRAIELD----   77 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS----TTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC----CCC-------hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----
Confidence            4455556666667888899998888775532    212       3467889999999999999999999988762    


Q ss_pred             hcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchh
Q 016262          311 KRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFR  390 (392)
Q Consensus       311 ~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~  390 (392)
                         +.       ....+.++|.++..+|++++|+..|++++++      .|........+.....+..++++.+++.+|+
T Consensus        78 ---~~-------~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~------~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  141 (166)
T 1a17_A           78 ---KK-------YIKGYYRRAASNMALGKFRAALRDYETVVKV------KPHDKDAKMKYQECNKIVKQKAFERAIAGDE  141 (166)
T ss_dssp             ---TT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------STTCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ---cc-------cHHHHHHHHHHHHHhccHHHHHHHHHHHHHh------CCCCHHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence               22       1456778999999999999999999998854      4444444433333223556788888888776


Q ss_pred             c
Q 016262          391 S  391 (392)
Q Consensus       391 ~  391 (392)
                      +
T Consensus       142 ~  142 (166)
T 1a17_A          142 H  142 (166)
T ss_dssp             H
T ss_pred             c
Confidence            4

>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=97.79  E-value=5.2e-05  Score=63.53  Aligned_cols=156  Identities=16%  Similarity=0.116  Sum_probs=107.7

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCch
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDL  269 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~  269 (392)
                      +.-.+..|++++|...+.....       ..+...       ..+..++..+...|++..|+.+++.....    .+.. 
T Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~-------~~~~~~-------~~~~~~~~~~~~~~~~~~A~~~~~~~~~~----~~~~-   75 (186)
T 3as5_A           15 GISHAKAGRYSQAVMLLEQVYD-------ADAFDV-------DVALHLGIAYVKTGAVDRGTELLERSLAD----APDN-   75 (186)
T ss_dssp             HHHHHHHTCHHHHHHHHTTTCC-------TTSCCH-------HHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTC-
T ss_pred             HHHHHHhcCHHHHHHHHHHHHH-------hCccCh-------HHHHHHHHHHHHcCCHHHHHHHHHHHHhc----CCCC-
Confidence            3345678888888888863321       111121       22333444555678888888888776544    2222 


Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 016262          270 EIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQE  349 (392)
Q Consensus       270 e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~  349 (392)
                            ......++.++...|++++|+..|++++++.       +..       ...+..+|.++..+|++++|+..|++
T Consensus        76 ------~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-------~~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~  135 (186)
T 3as5_A           76 ------VKVATVLGLTYVQVQKYDLAVPLLIKVAEAN-------PIN-------FNVRFRLGVALDNLGRFDEAIDSFKI  135 (186)
T ss_dssp             ------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-------TTC-------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ------HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-------cHh-------HHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence                  2456788899999999999999999888651       211       34567789999999999999999999


Q ss_pred             HHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          350 AIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       350 al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ++++      .|........++.  ++..++++.+++.+|+++
T Consensus       136 ~~~~------~~~~~~~~~~la~--~~~~~~~~~~A~~~~~~~  170 (186)
T 3as5_A          136 ALGL------RPNEGKVHRAIAF--SYEQMGRHEEALPHFKKA  170 (186)
T ss_dssp             HHHH------CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHhc------CccchHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            8754      4556666666666  777888888888888753

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=97.78  E-value=1.4e-05  Score=72.28  Aligned_cols=128  Identities=13%  Similarity=0.091  Sum_probs=82.7

Q ss_pred             HHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCC
Q 016262          188 QQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMD  267 (392)
Q Consensus       188 c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~  267 (392)
                      ..+.-.+..|++++|...+....       ...+...       ..+..++.++...|++..|+.+++.+.+ .   .. 
T Consensus         8 ~~a~~~~~~~~~~~A~~~~~~~l-------~~~p~~~-------~~~~~l~~~~~~~~~~~~A~~~~~~a~~-~---~~-   68 (272)
T 3u4t_A            8 RYADFLFKNNNYAEAIEVFNKLE-------AKKYNSP-------YIYNRRAVCYYELAKYDLAQKDIETYFS-K---VN-   68 (272)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHH-------HTTCCCS-------TTHHHHHHHHHHTTCHHHHHHHHHHHHT-T---SC-
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHH-------HhCCCcH-------HHHHHHHHHHHHHhhHHHHHHHHHHHHh-c---cC-
Confidence            34445788899999998886432       1122211       2333444455577888888888876654 1   11 


Q ss_pred             chHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHH
Q 016262          268 DLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGF  347 (392)
Q Consensus       268 ~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~  347 (392)
                      ...   .....+..+|.++...|++++|+.+|++++++.       +..       ...+..+|.++..+|++++|+..|
T Consensus        69 ~~~---~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~-------~~~-------~~~~~~l~~~~~~~~~~~~A~~~~  131 (272)
T 3u4t_A           69 ATK---AKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD-------TTR-------LDMYGQIGSYFYNKGNFPLAIQYM  131 (272)
T ss_dssp             TTT---CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-------TTC-------THHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             chh---HHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC-------ccc-------HHHHHHHHHHHHHccCHHHHHHHH
Confidence            111   134567889999999999999999999888741       211       235667777777778877777777


Q ss_pred             HHHH
Q 016262          348 QEAI  351 (392)
Q Consensus       348 ~~al  351 (392)
                      ++++
T Consensus       132 ~~al  135 (272)
T 3u4t_A          132 EKQI  135 (272)
T ss_dssp             GGGC
T ss_pred             HHHh
Confidence            6654

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=97.78  E-value=5e-05  Score=67.10  Aligned_cols=154  Identities=14%  Similarity=0.077  Sum_probs=104.4

Q ss_pred             HHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHH
Q 016262          192 RAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEI  271 (392)
Q Consensus       192 ~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~  271 (392)
                      -.+..|++++|...+.....       ..+..       ...+..++.++...|++..|+.+++...+..    +..   
T Consensus        66 ~~~~~~~~~~A~~~~~~~~~-------~~~~~-------~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~----~~~---  124 (243)
T 2q7f_A           66 LLSSVNELERALAFYDKALE-------LDSSA-------ATAYYGAGNVYVVKEMYKEAKDMFEKALRAG----MEN---  124 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH-------HCTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT----CCS---
T ss_pred             HHHHcCCHHHHHHHHHHHHH-------cCCcc-------hHHHHHHHHHHHHhccHHHHHHHHHHHHHhC----CCC---
Confidence            35667777777777653321       11112       2223334445556788888888887765432    222   


Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                          ......++.++...|++++|+.+|++++++.       +.       -...+..+|.++..+|++++|+..|++++
T Consensus       125 ----~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-------~~-------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  186 (243)
T 2q7f_A          125 ----GDLFYMLGTVLVKLEQPKLALPYLQRAVELN-------EN-------DTEARFQFGMCLANEGMLDEALSQFAAVT  186 (243)
T ss_dssp             ----HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-------TT-------CHHHHHHHHHHHHHHTCCHHHHHHHHHHH
T ss_pred             ----HHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-------Cc-------cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence                2356778889999999999999999888652       11       13456778899999999999999988887


Q ss_pred             HHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          352 KRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       352 ~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ++      .|....+...++.  ++..++++.+++.+|+++
T Consensus       187 ~~------~~~~~~~~~~la~--~~~~~~~~~~A~~~~~~~  219 (243)
T 2q7f_A          187 EQ------DPGHADAFYNAGV--TYAYKENREKALEMLDKA  219 (243)
T ss_dssp             HH------CTTCHHHHHHHHH--HHHHTTCTTHHHHHHHHH
T ss_pred             Hh------CcccHHHHHHHHH--HHHHccCHHHHHHHHHHH
Confidence            54      4566666666776  777888888888888753

>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=97.78  E-value=3.8e-05  Score=78.30  Aligned_cols=127  Identities=14%  Similarity=0.129  Sum_probs=97.5

Q ss_pred             hhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhc
Q 016262          233 VLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKR  312 (392)
Q Consensus       233 ~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~  312 (392)
                      .+..++..+...|++.+|+.+++++.+.    .+..       ...+.++|.++..+|++++|+.+|++++++.      
T Consensus        25 ~~~~lg~~~~~~g~~~~A~~~~~~al~~----~p~~-------~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~------   87 (568)
T 2vsy_A           25 AWLMLADAELGMGDTTAGEMAVQRGLAL----HPGH-------PEAVARLGRVRWTQQRHAEAAVLLQQASDAA------   87 (568)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHTT----STTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh----CCCC-------HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC------
Confidence            4445555655778888888888776542    2322       3467899999999999999999999998752      


Q ss_pred             CCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHH---Hhhhccccch
Q 016262          313 HSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQ---KNHLNQLPKF  389 (392)
Q Consensus       313 ~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l---~~~~~~l~~~  389 (392)
                       +.       -...+.++|.++..+|++++|+..|++++++      .|........++.  ++..+   +++.+++.+|
T Consensus        88 -p~-------~~~~~~~la~~~~~~g~~~~A~~~~~~al~~------~p~~~~~~~~l~~--~~~~~~~~g~~~~A~~~~  151 (568)
T 2vsy_A           88 -PE-------HPGIALWLGHALEDAGQAEAAAAAYTRAHQL------LPEEPYITAQLLN--WRRRLCDWRALDVLSAQV  151 (568)
T ss_dssp             -TT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHTTCCTTHHHHHHHH
T ss_pred             -CC-------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------CCCCHHHHHHHHH--HHHHhhccccHHHHHHHH
Confidence             22       1556788999999999999999999998854      6677777777777  77788   8888888888


Q ss_pred             hcC
Q 016262          390 RSA  392 (392)
Q Consensus       390 ~~~  392 (392)
                      ++|
T Consensus       152 ~~a  154 (568)
T 2vsy_A          152 RAA  154 (568)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            753

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=97.78  E-value=8.6e-05  Score=74.30  Aligned_cols=124  Identities=18%  Similarity=0.161  Sum_probs=96.9

Q ss_pred             cccccccccccch-hHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcC
Q 016262          235 GMLGDCCRAMGDA-DAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRH  313 (392)
Q Consensus       235 ~~fC~~C~~~gdh-h~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~  313 (392)
                      ..++..+...|++ .+|+.+++++.+.    .+..       ...+..+|.++...|++++|+.+|++++++.       
T Consensus       106 ~~lg~~~~~~g~~~~~A~~~~~~al~~----~p~~-------~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-------  167 (474)
T 4abn_A          106 MLKGKALNVTPDYSPEAEVLLSKAVKL----EPEL-------VEAWNQLGEVYWKKGDVTSAHTCFSGALTHC-------  167 (474)
T ss_dssp             HHHHHHHTSSSSCCHHHHHHHHHHHHH----CTTC-------HHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC-------
T ss_pred             HHHHHHHHhccccHHHHHHHHHHHHhh----CCCC-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-------
Confidence            3444555578888 9999999877654    2222       3478899999999999999999999988652       


Q ss_pred             CCCCchhhHHHHHHHHHHHHHHhc---------CCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHH-----
Q 016262          314 SNVPSQVLDVAVSLAKVADVDRSI---------GNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQ-----  379 (392)
Q Consensus       314 ~~~~~~~~dla~sl~~l~~v~~~l---------g~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l-----  379 (392)
                      +.        ...+.++|.++..+         |++++|+..|+++++      ..|.+......++.  ++..+     
T Consensus       168 p~--------~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~------~~p~~~~~~~~lg~--~~~~~~~~~~  231 (474)
T 4abn_A          168 KN--------KVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQ------MDVLDGRSWYILGN--AYLSLYFNTG  231 (474)
T ss_dssp             CC--------HHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHH------HCTTCHHHHHHHHH--HHHHHHHHTT
T ss_pred             CC--------HHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHH------hCCCCHHHHHHHHH--HHHHHHHhhc
Confidence            22        36678899999999         888888877777774      47888888888888  88888     


Q ss_pred             ---HhhhccccchhcC
Q 016262          380 ---KNHLNQLPKFRSA  392 (392)
Q Consensus       380 ---~~~~~~l~~~~~~  392 (392)
                         +++.+|+.+|++|
T Consensus       232 ~~~g~~~~A~~~~~~a  247 (474)
T 4abn_A          232 QNPKISQQALSAYAQA  247 (474)
T ss_dssp             CCHHHHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHH
Confidence               9999999999874

>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=97.78  E-value=1.7e-05  Score=73.36  Aligned_cols=128  Identities=15%  Similarity=0.140  Sum_probs=87.9

Q ss_pred             ccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 016262          238 GDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVP  317 (392)
Q Consensus       238 C~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~  317 (392)
                      +..+...|++..|+.+++.+.+....    ..       .....++.++...|++++|+..|++++++       .+.  
T Consensus       132 ~~~~~~~~~~~~A~~~~~~a~~~~~~----~~-------~~~~~l~~~~~~~~~~~~A~~~~~~al~~-------~~~--  191 (330)
T 3hym_B          132 GHSFAVESEHDQAMAAYFTAAQLMKG----CH-------LPMLYIGLEYGLTNNSKLAERFFSQALSI-------APE--  191 (330)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHTTT----CS-------HHHHHHHHHHHHTTCHHHHHHHHHHHHTT-------CTT--
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhccc----cH-------HHHHHHHHHHHHHhhHHHHHHHHHHHHHh-------CCC--
Confidence            33444555666666666555433211    11       23444777777777777777777766643       222  


Q ss_pred             chhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhc---CCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          318 SQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTL---KPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       318 ~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~---~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                           -...+..+|.++..+|++++|+..|++++++......   .+..+.+...++.  ++..++++.+|+.+|++|
T Consensus       192 -----~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~--~~~~~g~~~~A~~~~~~a  262 (330)
T 3hym_B          192 -----DPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGH--VCRKLKKYAEALDYHRQA  262 (330)
T ss_dssp             -----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             -----ChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHH--HHHHhcCHHHHHHHHHHH
Confidence                 1456788999999999999999999999999887722   2555667777777  888899999999988763

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=97.77  E-value=4.9e-05  Score=64.06  Aligned_cols=101  Identities=10%  Similarity=0.075  Sum_probs=79.6

Q ss_pred             HHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          228 SQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRR  307 (392)
Q Consensus       228 ~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~  307 (392)
                      |.+...+..++......|++.+|+.+++.....    .+...       ..+.++|.++..+|++++|+..|++++++  
T Consensus        33 p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~----~P~~~-------~~~~~lg~~~~~~g~~~~Ai~~~~~al~l--   99 (151)
T 3gyz_A           33 DDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY----DFYNV-------DYIMGLAAIYQIKEQFQQAADLYAVAFAL--   99 (151)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTCH-------HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CCCCH-------HHHHHHHHHHHHHccHHHHHHHHHHHHhh--
Confidence            455556666677666889999999999876543    33333       46789999999999999999999999876  


Q ss_pred             HHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          308 DAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       308 ~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                           .+.+       ...+.++|.++..+|++++|+..|++++++
T Consensus       100 -----~P~~-------~~~~~~lg~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          100 -----GKND-------YTPVFHTGQCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             -----SSSC-------CHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -----CCCC-------cHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                 2333       345778999999999999999999999965

>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=97.77  E-value=8.9e-05  Score=71.00  Aligned_cols=91  Identities=14%  Similarity=0.118  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      .+..++.++...|++++|+..|++++++       .+.       ....+.++|.++..+|++++|+..|++++.+    
T Consensus       171 ~~~~l~~~~~~~g~~~~A~~~~~~al~~-------~p~-------~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~----  232 (388)
T 1w3b_A          171 AWSNLGCVFNAQGEIWLAIHHFEKAVTL-------DPN-------FLDAYINLGNVLKEARIFDRAVAAYLRALSL----  232 (388)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHH-------CTT-------CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc-------CCC-------cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh----
Confidence            4555666666666666666666665543       121       1445667777777888887777777666543    


Q ss_pred             hcCCCchhHHHhhcchhHHHHHHhhhccccchh
Q 016262          358 TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFR  390 (392)
Q Consensus       358 ~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~  390 (392)
                        .|....+...++.  ++..++++..++.+|+
T Consensus       233 --~p~~~~~~~~l~~--~~~~~g~~~~A~~~~~  261 (388)
T 1w3b_A          233 --SPNHAVVHGNLAC--VYYEQGLIDLAIDTYR  261 (388)
T ss_dssp             --CTTCHHHHHHHHH--HHHHTTCHHHHHHHHH
T ss_pred             --CcCCHHHHHHHHH--HHHHcCCHHHHHHHHH
Confidence              3344444444443  4444444444444443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=97.77  E-value=4.9e-05  Score=76.08  Aligned_cols=117  Identities=19%  Similarity=0.087  Sum_probs=90.5

Q ss_pred             cchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhc--------CCHHHHHHHHHHHHHHHHHHhhcCCCC
Q 016262          245 GDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYG--------GDLQAARSYYVRSLNVRRDAVKRHSNV  316 (392)
Q Consensus       245 gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~--------g~l~~A~~~~e~aL~i~~~~~~~~~~~  316 (392)
                      |++.+|+.+++++.+.    .+..       ...+.++|.++..+        |++++|+.+|++++++.-.        
T Consensus       193 g~~~~A~~~~~~al~~----~p~~-------~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~--------  253 (474)
T 4abn_A          193 RHVMDSVRQAKLAVQM----DVLD-------GRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRK--------  253 (474)
T ss_dssp             HHHHHHHHHHHHHHHH----CTTC-------HHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGG--------
T ss_pred             hhHHHHHHHHHHHHHh----CCCC-------HHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCC--------
Confidence            7777788877776553    2322       24677888888888        8999999999999876210        


Q ss_pred             CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          317 PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       317 ~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                         ..+.+..+.++|.++..+|++++|+..|+++++      ..|........++.  ++..++++.+++..|++
T Consensus       254 ---~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~------l~p~~~~a~~~l~~--~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          254 ---ASSNPDLHLNRATLHKYEESYGEALEGFSQAAA------LDPAWPEPQQREQQ--LLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             ---GGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH------HCTTCHHHHHHHHH--HHHHHHHHHHHHHHTTT
T ss_pred             ---cccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH------hCCCCHHHHHHHHH--HHHHHHHHHHHHHHhcc
Confidence               112266788999999999999999999999985      46777777777777  88899999999887764

>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=97.75  E-value=0.00024  Score=69.06  Aligned_cols=137  Identities=9%  Similarity=0.091  Sum_probs=93.2

Q ss_pred             hcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHH-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          234 LGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTL-----SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRD  308 (392)
Q Consensus       234 L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l-----~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~  308 (392)
                      +..++.++...|++..|+.+++.....    .+........+     ......++.++...|++++|+..|++++++.  
T Consensus       214 ~~~l~~~~~~~g~~~~A~~~~~~~~~~----~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--  287 (450)
T 2y4t_A          214 FYKISTLYYQLGDHELSLSEVRECLKL----DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--  287 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh----CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--
Confidence            344455555678888888888766532    23332222211     1123445888889999999999999988642  


Q ss_pred             HhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccc
Q 016262          309 AVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPK  388 (392)
Q Consensus       309 ~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~  388 (392)
                           +.+.   ......+..+|.++..+|++++|+..|++++++      .|..+.+...++.  .+..++++.+|+.+
T Consensus       288 -----p~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~------~p~~~~~~~~l~~--~~~~~~~~~~A~~~  351 (450)
T 2y4t_A          288 -----PSIA---EYTVRSKERICHCFSKDEKPVEAIRVCSEVLQM------EPDNVNALKDRAE--AYLIEEMYDEAIQD  351 (450)
T ss_dssp             -----CSSH---HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHTTCHHHHHHH
T ss_pred             -----Ccch---HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh------CcccHHHHHHHHH--HHHHhcCHHHHHHH
Confidence                 2211   122456778899999999999999999888754      5666777777777  77788888888888


Q ss_pred             hhcC
Q 016262          389 FRSA  392 (392)
Q Consensus       389 ~~~~  392 (392)
                      |++|
T Consensus       352 ~~~a  355 (450)
T 2y4t_A          352 YETA  355 (450)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7753

>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=97.75  E-value=0.00015  Score=58.29  Aligned_cols=93  Identities=13%  Similarity=0.092  Sum_probs=63.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+..+|.++...|++++|+..|.+++.+.       +.       ....+.++|.++..+|++++|+..|++++++   
T Consensus        10 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-------~~-------~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---   72 (137)
T 3q49_B           10 QELKEQGNRLFVGRKYPEAAACYGRAITRN-------PL-------VAVYYTNRALCYLKMQQPEQALADCRRALEL---   72 (137)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-------cC-------cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh---
Confidence            456677777777888888888887777641       11       1345667777777788887777777777643   


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                         .|........++.  ++..++++..++.+|++
T Consensus        73 ---~p~~~~~~~~l~~--~~~~~~~~~~A~~~~~~  102 (137)
T 3q49_B           73 ---DGQSVKAHFFLGQ--CQLEMESYDEAIANLQR  102 (137)
T ss_dssp             ---CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             ---CchhHHHHHHHHH--HHHHHhhHHHHHHHHHH
Confidence               4556666666666  67777777777777765

>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=97.74  E-value=0.00018  Score=63.50  Aligned_cols=152  Identities=16%  Similarity=0.161  Sum_probs=103.7

Q ss_pred             HHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCc
Q 016262          189 QAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDD  268 (392)
Q Consensus       189 ~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~  268 (392)
                      .+.-.+..|++++|...+..+.       ...+.       ....+..++.++..+|++..|+..++.+.+.    .+..
T Consensus        48 ~~~~~~~~~~~~~A~~~~~~al-------~~~p~-------~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~----~p~~  109 (228)
T 4i17_A           48 CGVCADNIKKYKEAADYFDIAI-------KKNYN-------LANAYIGKSAAYRDMKNNQEYIATLTEGIKA----VPGN  109 (228)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH-------HTTCS-------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----STTC
T ss_pred             HHHHHHHhhcHHHHHHHHHHHH-------HhCcc-------hHHHHHHHHHHHHHcccHHHHHHHHHHHHHH----CCCc
Confidence            3444677888888888876332       11121       2334455666666889999999888877543    4555


Q ss_pred             hHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhH--HHHHHHHHHHHHHhcCCH------
Q 016262          269 LEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLD--VAVSLAKVADVDRSIGNE------  340 (392)
Q Consensus       269 ~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~d--la~sl~~l~~v~~~lg~~------  340 (392)
                      ..+...+...+..+|.++...|++++|+..|++++++       .+       +  .+..+.++|.++..+|+.      
T Consensus       110 ~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~-------~p-------~~~~~~~~~~l~~~~~~~~~~~~~~a~  175 (228)
T 4i17_A          110 ATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV-------TS-------KKWKTDALYSLGVLFYNNGADVLRKAT  175 (228)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-------SC-------HHHHHHHHHHHHHHHHHHHHHHHHHHG
T ss_pred             HHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc-------CC-------CcccHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6677778889999999999999999999999998864       12       2  244555666666655555      


Q ss_pred             --------------HHHHHHHHHHHHHHHHh-hcCCCchhHHHhhcc
Q 016262          341 --------------DVAVDGFQEAIKRLESL-TLKPEEAGLEQRCWN  372 (392)
Q Consensus       341 --------------~~A~~~~~~al~ile~l-~~~~~~a~l~~~~~~  372 (392)
                                    ..+...|++|+..+++. ...|.+..+...+..
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~  222 (228)
T 4i17_A          176 PLASSNKEKYASEKAKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQ  222 (228)
T ss_dssp             GGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHH
Confidence                          45556667777777776 777887766655443

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus}

Probab=97.73  E-value=4.3e-06  Score=67.45  Aligned_cols=44  Identities=30%  Similarity=0.615  Sum_probs=0.9

Q ss_pred             CceeccccccccccC-----------------ceecccCcHhHHHhHHhcC----CCCCCCcCCc
Q 016262           88 GPLSCMICQALLFEC-----------------SKCTPCSHVYCKACISRFK----DCPLCGADIE  131 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~-----------------p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~  131 (392)
                      ..-.|+||++.|.+.                 .+.++|+|.|+..||.+|.    .||+||..+.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CC---------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            456899999998631                 1235899999999999994    4999998643

>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=97.72  E-value=0.00015  Score=72.31  Aligned_cols=137  Identities=12%  Similarity=0.053  Sum_probs=100.2

Q ss_pred             HHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCC----chHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          228 SQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMD----DLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSL  303 (392)
Q Consensus       228 ~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~----~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL  303 (392)
                      +.....+..++..+...|++..|+..++++.+........    ..++.......+.+++.++..+|++++|+.+|.++|
T Consensus       265 ~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al  344 (457)
T 1kt0_A          265 LEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKAL  344 (457)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            4445556667777768999999999999887765543211    122344556788999999999999999999999999


Q ss_pred             HHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhh
Q 016262          304 NVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHL  383 (392)
Q Consensus       304 ~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~  383 (392)
                      ++.       +.       -+..+.++|.++..+|++++|+..|+++++      ..|.+......++.  ++..++++.
T Consensus       345 ~~~-------p~-------~~~a~~~~g~a~~~~g~~~~A~~~~~~al~------l~P~~~~a~~~l~~--~~~~~~~~~  402 (457)
T 1kt0_A          345 GLD-------SA-------NEKGLYRRGEAQLLMNEFESAKGDFEKVLE------VNPQNKAARLQISM--CQKKAKEHN  402 (457)
T ss_dssp             HHS-------TT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHT------TC----CHHHHHHH--HHHHHHHHH
T ss_pred             hcC-------Cc-------cHHHHHHHHHHHHHccCHHHHHHHHHHHHH------hCCCCHHHHHHHHH--HHHHHHHHH
Confidence            752       22       156788999999999999999999999884      46666666767776  666676665


Q ss_pred             ccc
Q 016262          384 NQL  386 (392)
Q Consensus       384 ~~l  386 (392)
                      ++.
T Consensus       403 ~a~  405 (457)
T 1kt0_A          403 ERD  405 (457)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>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=97.72  E-value=0.00011  Score=63.67  Aligned_cols=109  Identities=9%  Similarity=-0.016  Sum_probs=83.8

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCch-h-----hHHHHHHHHHHHHHHhcCCHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQ-V-----LDVAVSLAKVADVDRSIGNEDVAVD  345 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~-~-----~dla~sl~~l~~v~~~lg~~~~A~~  345 (392)
                      .......+..+|..+...|++++|+..|.+++++...    .+..... .     .-.+..+.++|.++..+|++++|+.
T Consensus        34 ~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~----~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  109 (198)
T 2fbn_A           34 KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIH----TEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAID  109 (198)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTT----CTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhc----ccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            3445667889999999999999999999999875322    1110000 0     0023667889999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          346 GFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       346 ~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .|++++++      .|........++.  ++..++++.+|+.+|++|
T Consensus       110 ~~~~al~~------~p~~~~~~~~lg~--~~~~~~~~~~A~~~~~~a  148 (198)
T 2fbn_A          110 HASKVLKI------DKNNVKALYKLGV--ANMYFGFLEEAKENLYKA  148 (198)
T ss_dssp             HHHHHHHH------STTCHHHHHHHHH--HHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHh------CcccHHHHHHHHH--HHHHcccHHHHHHHHHHH
Confidence            99999865      6777777778888  889999999999998864

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=97.70  E-value=0.00011  Score=74.36  Aligned_cols=98  Identities=13%  Similarity=0.068  Sum_probs=71.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      ....++.++...|++++|+..|++++++       .+.+       ...+..++.++...|++++|+..|++++++....
T Consensus       443 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  508 (597)
T 2xpi_A          443 PYLFLGMQHMQLGNILLANEYLQSSYAL-------FQYD-------PLLLNELGVVAFNKSDMQTAINHFQNALLLVKKT  508 (597)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH-------CCCC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh-------CCCC-------hHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhcc
Confidence            4556666676777777777777766643       1221       3557889999999999999999999999987776


Q ss_pred             hcCCCc-hhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          358 TLKPEE-AGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       358 ~~~~~~-a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      ...|.. ......++.  .+..++++.+|+.+|++
T Consensus       509 ~~~p~~~~~~~~~l~~--~~~~~g~~~~A~~~~~~  541 (597)
T 2xpi_A          509 QSNEKPWAATWANLGH--AYRKLKMYDAAIDALNQ  541 (597)
T ss_dssp             CCCSGGGHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             ccchhhHHHHHHHHHH--HHHHhcCHHHHHHHHHH
Confidence            556664 455666666  67777888888777765

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.70  E-value=7.1e-05  Score=61.49  Aligned_cols=93  Identities=13%  Similarity=0.085  Sum_probs=50.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+..++..+...|++++|+..|++++.+       .+.+       ...+.++|.++..+|++++|+..|++++.    
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~-------~p~~-------~~~~~~lg~~~~~~g~~~~A~~~~~~al~----   80 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCML-------DHYD-------ARYFLGLGACRQSLGLYEQALQSYSYGAL----   80 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHh-------CCcc-------HHHHHHHHHHHHHHhhHHHHHHHHHHHHh----
Confidence            34455566666666666666666655532       1211       23344556666666666666666666553    


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                        ..|.+......++.  ++..++++.+|+.+|++
T Consensus        81 --~~p~~~~~~~~lg~--~~~~~g~~~~A~~~~~~  111 (142)
T 2xcb_A           81 --MDINEPRFPFHAAE--CHLQLGDLDGAESGFYS  111 (142)
T ss_dssp             --HCTTCTHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             --cCCCCcHHHHHHHH--HHHHcCCHHHHHHHHHH
Confidence              24455555555555  55556666666555543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=97.70  E-value=0.00011  Score=66.19  Aligned_cols=127  Identities=9%  Similarity=0.019  Sum_probs=96.4

Q ss_pred             ccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCC
Q 016262          236 MLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSN  315 (392)
Q Consensus       236 ~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~  315 (392)
                      .++......|++..|+.++++..+.    .+...       ..+..++.++...|++++|+..|+++++.-     ..+.
T Consensus         8 ~~a~~~~~~~~~~~A~~~~~~~l~~----~p~~~-------~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-----~~~~   71 (272)
T 3u4t_A            8 RYADFLFKNNNYAEAIEVFNKLEAK----KYNSP-------YIYNRRAVCYYELAKYDLAQKDIETYFSKV-----NATK   71 (272)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHT----TCCCS-------TTHHHHHHHHHHTTCHHHHHHHHHHHHTTS-----CTTT
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHh----CCCcH-------HHHHHHHHHHHHHhhHHHHHHHHHHHHhcc-----Cchh
Confidence            3444445778888899888877543    22222       256788899999999999999999887521     1111


Q ss_pred             CCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          316 VPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       316 ~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                            -++..+..+|.++..+|++++|+..|+++++      ..|....+...++.  ++..++++.+|+.+|++|
T Consensus        72 ------~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~------~~~~~~~~~~~l~~--~~~~~~~~~~A~~~~~~a  134 (272)
T 3u4t_A           72 ------AKSADFEYYGKILMKKGQDSLAIQQYQAAVD------RDTTRLDMYGQIGS--YFYNKGNFPLAIQYMEKQ  134 (272)
T ss_dssp             ------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH------HSTTCTHHHHHHHH--HHHHTTCHHHHHHHHGGG
T ss_pred             ------HHHHHHHHHHHHHHHcccHHHHHHHHHHHHh------cCcccHHHHHHHHH--HHHHccCHHHHHHHHHHH
Confidence                  1256678899999999999999999999886      45667777778888  888999999999998864

>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=97.69  E-value=0.00016  Score=56.93  Aligned_cols=101  Identities=13%  Similarity=0.072  Sum_probs=77.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE  355 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile  355 (392)
                      ...+..+|.++...|++++|+.+|+++++..       +.       ....+.++|.++..+|++++|+..|++++++..
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-------~~-------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~   69 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-------PT-------NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGR   69 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TT-------CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-------Cc-------cHHHHHHHHHHHHHhccHHHHHHHHHHHHhhcc
Confidence            4577889999999999999999999998752       21       145677889999999999999999999998776


Q ss_pred             Hh-hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          356 SL-TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       356 ~l-~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .. ...+....+...++.  .+..++++.+++.+|+++
T Consensus        70 ~~~~~~~~~~~~~~~la~--~~~~~~~~~~A~~~~~~~  105 (131)
T 1elr_A           70 ENREDYRQIAKAYARIGN--SYFKEEKYKDAIHFYNKS  105 (131)
T ss_dssp             HSTTCHHHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             ccchhHHHHHHHHHHHHH--HHHHhccHHHHHHHHHHH
Confidence            53 221112445556666  777888888888888753

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=97.68  E-value=0.00019  Score=66.81  Aligned_cols=135  Identities=10%  Similarity=0.094  Sum_probs=93.5

Q ss_pred             ccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHH-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q 016262          236 MLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTL-----SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAV  310 (392)
Q Consensus       236 ~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l-----~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~  310 (392)
                      .++.++...|++..|+.+++...+.    .+........+     ....-.++.++...|++++|+..|++++++.    
T Consensus       193 ~la~~~~~~~~~~~A~~~~~~a~~~----~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~----  264 (359)
T 3ieg_A          193 KISTLYYQLGDHELSLSEVRECLKL----DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE----  264 (359)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh----CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC----
Confidence            3444555677777777777766433    22222211111     1123345888889999999999999888642    


Q ss_pred             hcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchh
Q 016262          311 KRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFR  390 (392)
Q Consensus       311 ~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~  390 (392)
                         +...   ......+..+|.++..+|++++|+..|++++++      .|....+...++.  ++..++++.+|+.+|+
T Consensus       265 ---~~~~---~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~------~~~~~~~~~~~~~--~~~~~g~~~~A~~~~~  330 (359)
T 3ieg_A          265 ---PSVA---EYTVRSKERICHCFSKDEKPVEAIRICSEVLQM------EPDNVNALKDRAE--AYLIEEMYDEAIQDYE  330 (359)
T ss_dssp             ---CSSH---HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHTTCHHHHHHHHH
T ss_pred             ---CCch---HHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh------CcccHHHHHHHHH--HHHHcCCHHHHHHHHH
Confidence               2211   123344667899999999999999999998865      6777777778888  8888999999999887


Q ss_pred             cC
Q 016262          391 SA  392 (392)
Q Consensus       391 ~~  392 (392)
                      +|
T Consensus       331 ~a  332 (359)
T 3ieg_A          331 AA  332 (359)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=97.68  E-value=0.00023  Score=62.59  Aligned_cols=93  Identities=16%  Similarity=0.227  Sum_probs=66.6

Q ss_pred             cccchhHHHhHHHHHHHHHH---------hCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcC
Q 016262          243 AMGDADAAVAYFADSVEFLM---------KLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRH  313 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~---------~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~  313 (392)
                      ..|++..|+.+++++.+...         .+....    ........++|.++...|++++|+..|++++++       .
T Consensus        16 ~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-------~   84 (208)
T 3urz_A           16 EAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNS----EISSKLATELALAYKKNRNYDKAYLFYKELLQK-------A   84 (208)
T ss_dssp             HTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTS----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------C
T ss_pred             HCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchh----hhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-------C
Confidence            67788888888877644311         111100    011222345999999999999999999998865       2


Q ss_pred             CCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          314 SNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       314 ~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      +.+       ...+.++|.++..+|++++|+..|++++++
T Consensus        85 p~~-------~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  117 (208)
T 3urz_A           85 PNN-------VDCLEACAEMQVCRGQEKDALRMYEKILQL  117 (208)
T ss_dssp             TTC-------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCC-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            322       566788999999999999999999998864

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.68  E-value=0.00011  Score=58.94  Aligned_cols=92  Identities=11%  Similarity=0.044  Sum_probs=76.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhh
Q 016262          279 LNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLT  358 (392)
Q Consensus       279 l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~  358 (392)
                      .-.+|..+...|++++|+..|++++++       .+.+       +..+..+|.++..+|++++|+..|++++      .
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~-------~P~~-------~~a~~~lg~~~~~~g~~~~A~~~~~~al------~   79 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQK-------EPER-------EEAWRSLGLTQAENEKDGLAIIALNHAR------M   79 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH-------STTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHH------H
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH-------CCCC-------HHHHHHHHHHHHHcCCHHHHHHHHHHHH------H
Confidence            456788888999999999999988864       3332       5567789999999999999999999988      4


Q ss_pred             cCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          359 LKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       359 ~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ..|........++.  ++..++++.+|+.+|++|
T Consensus        80 l~P~~~~~~~~la~--~~~~~g~~~~A~~~~~~a  111 (121)
T 1hxi_A           80 LDPKDIAVHAALAV--SHTNEHNANAALASLRAW  111 (121)
T ss_dssp             HCTTCHHHHHHHHH--HHHHHHHHHHHHHHHHHH
T ss_pred             hCCCCHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            57888888888888  899999999999998763

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=97.67  E-value=2.7e-05  Score=68.82  Aligned_cols=153  Identities=10%  Similarity=0.112  Sum_probs=100.8

Q ss_pred             HHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHH
Q 016262          192 RAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEI  271 (392)
Q Consensus       192 ~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~  271 (392)
                      ..+..|++++|...+....       ...+..       ...+..++..+...|++..|+.+++...+.    ....   
T Consensus        32 ~~~~~~~~~~A~~~~~~~l-------~~~~~~-------~~~~~~la~~~~~~~~~~~A~~~~~~~~~~----~~~~---   90 (243)
T 2q7f_A           32 RGSEFGDYEKAAEAFTKAI-------EENKED-------AIPYINFANLLSSVNELERALAFYDKALEL----DSSA---   90 (243)
T ss_dssp             ----------CCTTHHHHH-------TTCTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTC---
T ss_pred             HHHHhhCHHHHHHHHHHHH-------HhCccc-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCcc---
Confidence            4567778888877775332       112222       223344455555788888888888877544    2211   


Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                          ......++.++...|++++|+..|++++++.       +..       ...+..+|.++..+|++++|+..|++++
T Consensus        91 ----~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-------~~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~~~  152 (243)
T 2q7f_A           91 ----ATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-------MEN-------GDLFYMLGTVLVKLEQPKLALPYLQRAV  152 (243)
T ss_dssp             ----HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-------CCS-------HHHHHHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred             ----hHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-------CCC-------HHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence                3467788999999999999999999988752       211       3456778999999999999999999988


Q ss_pred             HHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          352 KRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       352 ~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      ++      .|....+...++.  .+..++++.+++.+|++
T Consensus       153 ~~------~~~~~~~~~~l~~--~~~~~~~~~~A~~~~~~  184 (243)
T 2q7f_A          153 EL------NENDTEARFQFGM--CLANEGMLDEALSQFAA  184 (243)
T ss_dssp             HH------CTTCHHHHHHHHH--HHHHHTCCHHHHHHHHH
T ss_pred             Hh------CCccHHHHHHHHH--HHHHcCCHHHHHHHHHH
Confidence            54      4556666666666  77788888888888875

>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=97.66  E-value=0.00015  Score=64.55  Aligned_cols=159  Identities=11%  Similarity=-0.031  Sum_probs=107.7

Q ss_pred             HHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCC
Q 016262          188 QQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMD  267 (392)
Q Consensus       188 c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~  267 (392)
                      ..+.-.+..|++++|...+.....       ..+...       ..+..++..+...|++.+|+.+++....    . +.
T Consensus        76 ~la~~~~~~~~~~~A~~~~~~a~~-------~~~~~~-------~~~~~la~~~~~~g~~~~A~~~~~~~~~----~-~~  136 (252)
T 2ho1_A           76 ALAVVFQTEMEPKLADEEYRKALA-------SDSRNA-------RVLNNYGGFLYEQKRYEEAYQRLLEASQ----D-TL  136 (252)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH-------HCTTCH-------HHHHHHHHHHHHTTCHHHHHHHHHHHTT----C-TT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH-------HCcCcH-------HHHHHHHHHHHHHhHHHHHHHHHHHHHh----C-cc
Confidence            334445678888888888864422       122222       2333444555567888888888876644    1 11


Q ss_pred             chHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHH
Q 016262          268 DLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGF  347 (392)
Q Consensus       268 ~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~  347 (392)
                          ..........++.++...|++++|+..|++++++.       +..       ...+..++.++..+|++++|+..|
T Consensus       137 ----~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-------~~~-------~~~~~~la~~~~~~g~~~~A~~~~  198 (252)
T 2ho1_A          137 ----YPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-------RNQ-------PSVALEMADLLYKEREYVPARQYY  198 (252)
T ss_dssp             ----CTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------SCC-------HHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ----CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-------ccc-------HHHHHHHHHHHHHcCCHHHHHHHH
Confidence                11123567889999999999999999999988652       221       445678899999999999999999


Q ss_pred             HHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          348 QEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       348 ~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      +++++      ..|........+..  ++..++++.+++.+|++
T Consensus       199 ~~~~~------~~~~~~~~~~~~~~--~~~~~g~~~~A~~~~~~  234 (252)
T 2ho1_A          199 DLFAQ------GGGQNARSLLLGIR--LAKVFEDRDTAASYGLQ  234 (252)
T ss_dssp             HHHHT------TSCCCHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             HHHHH------hCcCcHHHHHHHHH--HHHHccCHHHHHHHHHH
Confidence            98763      45555555555555  67777888888877765

>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=97.65  E-value=1.7e-05  Score=77.49  Aligned_cols=145  Identities=10%  Similarity=-0.039  Sum_probs=98.4

Q ss_pred             HhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccc-hhHHHhHHHHHHHHHHhCCCCchHHH
Q 016262          194 FRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGD-ADAAVAYFADSVEFLMKLPMDDLEII  272 (392)
Q Consensus       194 ~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gd-hh~a~~~~e~~~~~~~~L~~~~~e~~  272 (392)
                      +..|++++|+..+..+-       ...+.+       ...+..++.+...+|+ +.+|+..++++...    .+..    
T Consensus       108 ~~~g~~~~Al~~~~~al-------~l~P~~-------~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l----~P~~----  165 (382)
T 2h6f_A          108 QRDERSERAFKLTRDAI-------ELNAAN-------YTVWHFRRVLLKSLQKDLHEEMNYITAIIEE----QPKN----  165 (382)
T ss_dssp             HHTCCCHHHHHHHHHHH-------HHCTTC-------HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH----CTTC----
T ss_pred             HHCCChHHHHHHHHHHH-------HhCccC-------HHHHHHHHHHHHHcccCHHHHHHHHHHHHHH----CCCC----
Confidence            45677788887776332       222222       2333444445446775 88888888777543    3323    


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          273 HTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       273 ~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                         ...+.++|.++..+|++++|+..|+++|++       .+.+       ...+.++|.++..+|++++|+..|+++++
T Consensus       166 ---~~a~~~~g~~~~~~g~~~eAl~~~~kal~l-------dP~~-------~~a~~~lg~~~~~~g~~~eAl~~~~~al~  228 (382)
T 2h6f_A          166 ---YQVWHHRRVLVEWLRDPSQELEFIADILNQ-------DAKN-------YHAWQHRQWVIQEFKLWDNELQYVDQLLK  228 (382)
T ss_dssp             ---HHHHHHHHHHHHHHTCCTTHHHHHHHHHHH-------CTTC-------HHHHHHHHHHHHHHTCCTTHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHccCHHHHHHHHHHHHHh-------CccC-------HHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence               246788999999999999999999998864       2221       55678899999999999999999999884


Q ss_pred             HHHHhhcCCCchhHHHhhcchhHHHHHHhh-hcc
Q 016262          353 RLESLTLKPEEAGLEQRCWNSSTTNFQKNH-LNQ  385 (392)
Q Consensus       353 ile~l~~~~~~a~l~~~~~~~~~~~~l~~~-~~~  385 (392)
                            .+|.+......++.  ++..++.+ .++
T Consensus       229 ------l~P~~~~a~~~lg~--~l~~l~~~~~eA  254 (382)
T 2h6f_A          229 ------EDVRNNSVWNQRYF--VISNTTGYNDRA  254 (382)
T ss_dssp             ------HCTTCHHHHHHHHH--HHHHTTCSCSHH
T ss_pred             ------hCCCCHHHHHHHHH--HHHHhcCcchHH
Confidence                  46677766666666  55553333 444

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=97.64  E-value=0.00017  Score=73.02  Aligned_cols=129  Identities=16%  Similarity=0.187  Sum_probs=96.4

Q ss_pred             ccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 016262          238 GDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVP  317 (392)
Q Consensus       238 C~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~  317 (392)
                      +..|...|++.+|+.+++...+.    .+..       ...+..++.++...|++++|+..|++++++..+.    ...+
T Consensus       448 ~~~~~~~g~~~~A~~~~~~~~~~----~~~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~p  512 (597)
T 2xpi_A          448 GMQHMQLGNILLANEYLQSSYAL----FQYD-------PLLLNELGVVAFNKSDMQTAINHFQNALLLVKKT----QSNE  512 (597)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH----CCCC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS----CCCS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh----CCCC-------hHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhcc----ccch
Confidence            34555666777777777655432    2222       2457899999999999999999999999875532    1111


Q ss_pred             chhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          318 SQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       318 ~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .   ..+..+..++.++..+|++++|+..|++++++      .|.+......++.  .+..++++.+|+.+|+++
T Consensus       513 ~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~p~~~~~~~~l~~--~~~~~g~~~~A~~~~~~~  576 (597)
T 2xpi_A          513 K---PWAATWANLGHAYRKLKMYDAAIDALNQGLLL------STNDANVHTAIAL--VYLHKKIPGLAITHLHES  576 (597)
T ss_dssp             G---GGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------SSCCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             h---hHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh------CCCChHHHHHHHH--HHHHhCCHHHHHHHHHHH
Confidence            1   23567889999999999999999999998854      4777777777877  888999999999988764

>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=97.64  E-value=0.00035  Score=64.28  Aligned_cols=166  Identities=13%  Similarity=0.078  Sum_probs=98.9

Q ss_pred             HhHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCC
Q 016262          186 LVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLP  265 (392)
Q Consensus       186 l~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~  265 (392)
                      ++..+...+..|++++|...+.....       ..+...       ..+..++..+...|++..|+.+++...+.    .
T Consensus        24 ~~~~a~~~~~~~~~~~A~~~~~~~~~-------~~~~~~-------~~~~~l~~~~~~~~~~~~A~~~~~~a~~~----~   85 (327)
T 3cv0_A           24 PMEEGLSMLKLANLAEAALAFEAVCQ-------AAPERE-------EAWRSLGLTQAENEKDGLAIIALNHARML----D   85 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH-------HCTTCH-------HHHHHHHHHHHHTTCHHHHHHHHHHHHHH----C
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHH-------hCCCCH-------HHHHHHHHHHHHcCCHHHHHHHHHHHHhc----C
Confidence            34555567889999999988864322       122222       22333445555678888888888776544    2


Q ss_pred             CCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH-------------------------------------
Q 016262          266 MDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRD-------------------------------------  308 (392)
Q Consensus       266 ~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~-------------------------------------  308 (392)
                      +..       ...+..++.++...|++++|+..|++++++...                                     
T Consensus        86 ~~~-------~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~  158 (327)
T 3cv0_A           86 PKD-------IAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECR  158 (327)
T ss_dssp             TTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHH
T ss_pred             cCC-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHH
Confidence            222       235677888888888888888888887753111                                     


Q ss_pred             -----HhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhh
Q 016262          309 -----AVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHL  383 (392)
Q Consensus       309 -----~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~  383 (392)
                           +....+.       ....+..+|.++..+|++++|+..|++++++      .|........++.  ++..++++.
T Consensus       159 ~~~~~~~~~~~~-------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~------~~~~~~~~~~l~~--~~~~~~~~~  223 (327)
T 3cv0_A          159 TLLHAALEMNPN-------DAQLHASLGVLYNLSNNYDSAAANLRRAVEL------RPDDAQLWNKLGA--TLANGNRPQ  223 (327)
T ss_dssp             HHHHHHHHHSTT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHTTCHH
T ss_pred             HHHHHHHhhCCC-------CHHHHHHHHHHHHHhccHHHHHHHHHHHHHh------CCCcHHHHHHHHH--HHHHcCCHH
Confidence                 1111111       1344556778888888888888888777643      3344444444444  444555555


Q ss_pred             ccccchhc
Q 016262          384 NQLPKFRS  391 (392)
Q Consensus       384 ~~l~~~~~  391 (392)
                      +++.+|++
T Consensus       224 ~A~~~~~~  231 (327)
T 3cv0_A          224 EALDAYNR  231 (327)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=97.61  E-value=0.00026  Score=61.30  Aligned_cols=128  Identities=10%  Similarity=-0.051  Sum_probs=95.5

Q ss_pred             hhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhc
Q 016262          233 VLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKR  312 (392)
Q Consensus       233 ~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~  312 (392)
                      .+..++..+...|++..|+.+++...+..    +..       ......++.++...|++++|+..|++++++.      
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~----~~~-------~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~------   72 (225)
T 2vq2_A           10 IKTQLAMEYMRGQDYRQATASIEDALKSD----PKN-------ELAWLVRAEIYQYLKVNDKAQESFRQALSIK------   72 (225)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC----TTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHhC----ccc-------hHHHHHHHHHHHHcCChHHHHHHHHHHHHhC------
Confidence            33444555557788888888887765432    222       2467889999999999999999999988652      


Q ss_pred             CCCCCchhhHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          313 HSNVPSQVLDVAVSLAKVADVDRSI-GNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       313 ~~~~~~~~~dla~sl~~l~~v~~~l-g~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                       +.       ....+..+|.++..+ |++++|+..|+++++    ....|....+...++.  .+..++++.+++.+|++
T Consensus        73 -~~-------~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~~~~~~l~~--~~~~~~~~~~A~~~~~~  138 (225)
T 2vq2_A           73 -PD-------SAEINNNYGWFLCGRLNRPAESMAYFDKALA----DPTYPTPYIANLNKGI--CSAKQGQFGLAEAYLKR  138 (225)
T ss_dssp             -TT-------CHHHHHHHHHHHHTTTCCHHHHHHHHHHHHT----STTCSCHHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             -CC-------ChHHHHHHHHHHHHhcCcHHHHHHHHHHHHc----CcCCcchHHHHHHHHH--HHHHcCCHHHHHHHHHH
Confidence             21       145677889999999 999999999999886    3345565666667776  77788888888888875

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.61  E-value=0.00065  Score=65.73  Aligned_cols=133  Identities=14%  Similarity=0.158  Sum_probs=99.0

Q ss_pred             hhhcccccccccccchhHHHhHHHHHHHHHHhCC-----CCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 016262          232 AVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLP-----MDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVR  306 (392)
Q Consensus       232 ~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~-----~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~  306 (392)
                      ..+..++..+...|++..|+..++.+.+......     .....+.......+.+++.++..+|++++|+.+|+++|++ 
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~-  302 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI-  302 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-
Confidence            3455566666688999999999998877544321     0001135556778999999999999999999999998864 


Q ss_pred             HHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccc
Q 016262          307 RDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQL  386 (392)
Q Consensus       307 ~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l  386 (392)
                            .+.       .+..+.++|.++..+|++++|+..|++++++      .|.+..+...+..  ++..++++.++.
T Consensus       303 ------~p~-------~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l------~P~~~~~~~~l~~--~~~~~~~~~~a~  361 (370)
T 1ihg_A          303 ------DPS-------NTKALYRRAQGWQGLKEYDQALADLKKAQEI------APEDKAIQAELLK--VKQKIKAQKDKE  361 (370)
T ss_dssp             ------CTT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHHHHHHHHH
T ss_pred             ------Cch-------hHHHHHHHHHHHHHccCHHHHHHHHHHHHHh------CCCCHHHHHHHHH--HHHHHHHHHHHH
Confidence                  222       2567889999999999999999999998854      5677777777776  666776666543

>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=97.60  E-value=1.5e-05  Score=66.59  Aligned_cols=90  Identities=11%  Similarity=0.059  Sum_probs=69.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcC
Q 016262          281 KIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLK  360 (392)
Q Consensus       281 ~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~  360 (392)
                      .||.++...|++++|+..|++++..-.+.              ....-.+|.++..+|++++|+..|+++++      .+
T Consensus         2 ~LG~~~~~~~~~e~ai~~~~~a~~~~p~~--------------~~~~~~la~~y~~~~~~~~A~~~~~~al~------~~   61 (150)
T 4ga2_A            2 PLGSMRRSKADVERYIASVQGSTPSPRQK--------------SIKGFYFAKLYYEAKEYDLAKKYICTYIN------VQ   61 (150)
T ss_dssp             -----CCCHHHHHHHHHHHHHHSCSHHHH--------------HTTHHHHHHHHHHTTCHHHHHHHHHHHHH------HC
T ss_pred             HhHHHHHHcChHHHHHHHHHHhcccCccc--------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHH------hC
Confidence            46777777788888888888776543331              22345689999999999999999999984      47


Q ss_pred             CCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          361 PEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       361 ~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      |.++.....++.  ++..++++.+|+.+|++|
T Consensus        62 p~~~~a~~~lg~--~~~~~~~~~~A~~~~~~a   91 (150)
T 4ga2_A           62 ERDPKAHRFLGL--LYELEENTDKAVECYRRS   91 (150)
T ss_dssp             TTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHH--HHHHcCchHHHHHHHHHH
Confidence            888888999999  999999999999999864

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=97.60  E-value=0.00039  Score=62.47  Aligned_cols=120  Identities=12%  Similarity=0.023  Sum_probs=83.1

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhH
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLD  322 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~d  322 (392)
                      ..+++..|+.++++..+.    ....   .......+..+|.++...|++++|+..|++++++       .+.       
T Consensus        17 ~~~~~~~A~~~~~~~~~~----~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-------~~~-------   75 (275)
T 1xnf_A           17 PTLQQEVILARMEQILAS----RALT---DDERAQLLYERGVLYDSLGLRALARNDFSQALAI-------RPD-------   75 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTS----SCCC---HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CCC-------
T ss_pred             ccchHHHHHHHHHHHHhc----cccc---CchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHc-------CCC-------
Confidence            456667777777655432    1111   2334567888999999999999999999988875       121       


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          323 VAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       323 la~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      ....+..+|.++..+|++++|+..|++++++      .|........++.  ++..++++.+++.+|++
T Consensus        76 ~~~~~~~la~~~~~~~~~~~A~~~~~~al~~------~~~~~~~~~~la~--~~~~~g~~~~A~~~~~~  136 (275)
T 1xnf_A           76 MPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL------DPTYNYAHLNRGI--ALYYGGRDKLAQDDLLA  136 (275)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------CTTCTHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhc------CccccHHHHHHHH--HHHHhccHHHHHHHHHH
Confidence            1445677788888888888888888887754      4555666666666  67777777777777765

>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=97.60  E-value=0.00012  Score=63.78  Aligned_cols=124  Identities=15%  Similarity=0.067  Sum_probs=92.9

Q ss_pred             cccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCc
Q 016262          239 DCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPS  318 (392)
Q Consensus       239 ~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~  318 (392)
                      ......|++..|+.+++++      +.. .       ...+.++|.++...|++++|+.+|++++++.       +.   
T Consensus        14 ~~~~~~~~~~~A~~~~~~a------~~~-~-------~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-------~~---   69 (213)
T 1hh8_A           14 VLAADKKDWKGALDAFSAV------QDP-H-------SRICFNIGCMYTILKNMTEAEKAFTRSINRD-------KH---   69 (213)
T ss_dssp             HHHHHTTCHHHHHHHHHTS------SSC-C-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TT---
T ss_pred             HHHHHhCCHHHHHHHHHHH------cCC-C-------hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------cc---
Confidence            3334667777777777644      221 1       2478899999999999999999999998762       21   


Q ss_pred             hhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhh----------cCCCchhHHHhhcchhHHHHHHhhhccccc
Q 016262          319 QVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLT----------LKPEEAGLEQRCWNSSTTNFQKNHLNQLPK  388 (392)
Q Consensus       319 ~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~----------~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~  388 (392)
                          .+..+.++|.++..+|++++|+..|++++++...-.          ..|........++.  ++..++++.+|+.+
T Consensus        70 ----~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~g~~~~A~~~  143 (213)
T 1hh8_A           70 ----LAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAF--MYAKKEEWKKAEEQ  143 (213)
T ss_dssp             ----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHH--HHHHTTCHHHHHHH
T ss_pred             ----chHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHH--HHHHccCHHHHHHH
Confidence                256678999999999999999999999987544322          34445566777777  88888999999988


Q ss_pred             hhcC
Q 016262          389 FRSA  392 (392)
Q Consensus       389 ~~~~  392 (392)
                      |++|
T Consensus       144 ~~~a  147 (213)
T 1hh8_A          144 LALA  147 (213)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8763

>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=97.59  E-value=8.1e-05  Score=74.18  Aligned_cols=113  Identities=10%  Similarity=0.011  Sum_probs=86.9

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC-CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV-PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEA  350 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~-~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~a  350 (392)
                      .......+.++|.++...|++++|+..|.+++++.........+. .......+..+.++|.++..+|++++|+..|+++
T Consensus       264 ~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~a  343 (457)
T 1kt0_A          264 KLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKA  343 (457)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            445667889999999999999999999999998643310000000 0011134677889999999999999999999999


Q ss_pred             HHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          351 IKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       351 l~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +++      .|.++....+++.  .+..++++.+|+.+|++|
T Consensus       344 l~~------~p~~~~a~~~~g~--a~~~~g~~~~A~~~~~~a  377 (457)
T 1kt0_A          344 LGL------DSANEKGLYRRGE--AQLLMNEFESAKGDFEKV  377 (457)
T ss_dssp             HHH------STTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             Hhc------CCccHHHHHHHHH--HHHHccCHHHHHHHHHHH
Confidence            854      6778888888888  899999999999999864

>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=97.59  E-value=0.00011  Score=67.73  Aligned_cols=158  Identities=18%  Similarity=0.110  Sum_probs=107.5

Q ss_pred             HhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHH
Q 016262          194 FRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIH  273 (392)
Q Consensus       194 ~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~  273 (392)
                      +..|++++|...+....       ...+..       ...+..++.++...|++..|+.+++...+.    .+..     
T Consensus       149 ~~~~~~~~A~~~~~~~~-------~~~~~~-------~~~~~~la~~~~~~~~~~~A~~~~~~~~~~----~~~~-----  205 (327)
T 3cv0_A          149 AAPNEYRECRTLLHAAL-------EMNPND-------AQLHASLGVLYNLSNNYDSAAANLRRAVEL----RPDD-----  205 (327)
T ss_dssp             TSHHHHHHHHHHHHHHH-------HHSTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTC-----
T ss_pred             HHcccHHHHHHHHHHHH-------hhCCCC-------HHHHHHHHHHHHHhccHHHHHHHHHHHHHh----CCCc-----
Confidence            45567777776665322       212222       223344555555788888888888877543    2222     


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          274 TLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       274 ~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                        ......++.++...|++++|+..|++++++.       +.       ....+..+|.++..+|++++|+..|++++++
T Consensus       206 --~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-------~~-------~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  269 (327)
T 3cv0_A          206 --AQLWNKLGATLANGNRPQEALDAYNRALDIN-------PG-------YVRVMYNMAVSYSNMSQYDLAAKQLVRAIYM  269 (327)
T ss_dssp             --HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-------CC-------CHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence              2467899999999999999999999988652       21       1446778899999999999999999999977


Q ss_pred             HHHhhcCCC------chhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          354 LESLTLKPE------EAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       354 le~l~~~~~------~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .........      .......++.  ++..++++..++.+|++|
T Consensus       270 ~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          270 QVGGTTPTGEASREATRSMWDFFRM--LLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HTTSCC-----CCTHHHHHHHHHHH--HHHHTTCHHHHHHHTTCC
T ss_pred             CCccccccccchhhcCHHHHHHHHH--HHHhcCCHHHHHHHHHHH
Confidence            544311111      4455566666  778888888888888764

>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=97.58  E-value=0.0005  Score=56.70  Aligned_cols=97  Identities=10%  Similarity=0.039  Sum_probs=79.5

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          274 TLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       274 ~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      .....+..+|.++...|++++|+..|++++++.       +.       -...+.++|.++..+|++++|+..|++++++
T Consensus        11 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-------~~-------~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~   76 (166)
T 1a17_A           11 KRAEELKTQANDYFKAKDYENAIKFYSQAIELN-------PS-------NAIYYGNRSLAYLRTECYGYALGDATRAIEL   76 (166)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-------TT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-------CC-------ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            445678899999999999999999999998752       21       1556788999999999999999999998865


Q ss_pred             HHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          354 LESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       354 le~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                            .|........++.  ++..++++.+|+.+|++|
T Consensus        77 ------~~~~~~~~~~~a~--~~~~~~~~~~A~~~~~~a  107 (166)
T 1a17_A           77 ------DKKYIKGYYRRAA--SNMALGKFRAALRDYETV  107 (166)
T ss_dssp             ------CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             ------CcccHHHHHHHHH--HHHHhccHHHHHHHHHHH
Confidence                  5666777777777  888889999999888763

>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=97.58  E-value=0.00023  Score=65.91  Aligned_cols=94  Identities=15%  Similarity=0.120  Sum_probs=71.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+..+|.++...|++++|+..|++++++       .+.       .+..+.++|.++..+|++++|+..|++++     
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~-------~p~-------~~~~~~~la~~~~~~~~~~~A~~~~~~al-----   65 (281)
T 2c2l_A            5 QELKEQGNRLFVGRKYPEAAACYGRAITR-------NPL-------VAVYYTNRALCYLKMQQPEQALADCRRAL-----   65 (281)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CSC-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHT-----
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------CCc-------cHHHHHHHHHHHHHhcCHHHHHHHHHHHH-----
Confidence            45677888888888888888888888765       222       14567788888888888888888888876     


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                       ...|.+......++.  ++..++++.+|+.+|++|
T Consensus        66 -~~~p~~~~~~~~lg~--~~~~~g~~~~A~~~~~~a   98 (281)
T 2c2l_A           66 -ELDGQSVKAHFFLGQ--CQLEMESYDEAIANLQRA   98 (281)
T ss_dssp             -TSCTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             -HhCCCCHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence             456777777777777  788888888888887753

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=97.57  E-value=0.00066  Score=53.06  Aligned_cols=94  Identities=18%  Similarity=0.217  Sum_probs=49.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE  355 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile  355 (392)
                      ...+..++.++...|++++|+..|++++.+       .+..       ...+..+|.++..+|++++|+..|++++.+  
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-------~~~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--   75 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIEL-------NPAN-------AVYFCNRAAAYSKLGNYAGAVQDCERAICI--   75 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc-------CCCC-------HHHHHHHHHHHHHhhchHHHHHHHHHHHhc--
Confidence            345555666666666666666666665543       1110       333455556666666666666666655532  


Q ss_pred             HhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          356 SLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       356 ~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                          .|........++.  ++..++++.+++.+|++
T Consensus        76 ----~~~~~~~~~~~~~--~~~~~~~~~~A~~~~~~  105 (131)
T 2vyi_A           76 ----DPAYSKAYGRMGL--ALSSLNKHVEAVAYYKK  105 (131)
T ss_dssp             ----CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             ----CccCHHHHHHHHH--HHHHhCCHHHHHHHHHH
Confidence                3344444444444  55555555555555543

>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=97.57  E-value=0.00031  Score=68.27  Aligned_cols=165  Identities=13%  Similarity=0.096  Sum_probs=99.1

Q ss_pred             HhHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCC
Q 016262          186 LVQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLP  265 (392)
Q Consensus       186 l~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~  265 (392)
                      +...+...++.|++++|...+.....       ..+..       ...+..++..+...|++..|+.+++...+.    .
T Consensus        29 ~~~~~~~~~~~g~~~~A~~~~~~~l~-------~~p~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~al~~----~   90 (450)
T 2y4t_A           29 HLELGKKLLAAGQLADALSQFHAAVD-------GDPDN-------YIAYYRRATVFLAMGKSKAALPDLTKVIQL----K   90 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH-------HCTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----C
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH-------hCCcc-------HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc----C
Confidence            34445567889999999998874432       12222       223344455555788888999888877544    2


Q ss_pred             CCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCC---chhhHH-----HHHHHHHHHHHHhc
Q 016262          266 MDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVP---SQVLDV-----AVSLAKVADVDRSI  337 (392)
Q Consensus       266 ~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~---~~~~dl-----a~sl~~l~~v~~~l  337 (392)
                      +..       ......++.++...|++++|+..|++++++       .+...   .....+     ......+|.++...
T Consensus        91 p~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  156 (450)
T 2y4t_A           91 MDF-------TAARLQRGHLLLKQGKLDEAEDDFKKVLKS-------NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGS  156 (450)
T ss_dssp             TTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHTS-------CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCc-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-------CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            222       356788999999999999999999988753       11111   111111     11233446667777


Q ss_pred             CCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchh
Q 016262          338 GNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFR  390 (392)
Q Consensus       338 g~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~  390 (392)
                      |++++|+..|++++++      .|....+...++.  ++..++++.+++.+|+
T Consensus       157 ~~~~~A~~~~~~~~~~------~~~~~~~~~~l~~--~~~~~g~~~~A~~~~~  201 (450)
T 2y4t_A          157 GDYTAAIAFLDKILEV------CVWDAELRELRAE--CFIKEGEPRKAISDLK  201 (450)
T ss_dssp             TCHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHTTCGGGGHHHHH
T ss_pred             CCHHHHHHHHHHHHHh------CCCChHHHHHHHH--HHHHCCCHHHHHHHHH
Confidence            7777777777776642      3344444444444  4445555555555544

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.57  E-value=0.00022  Score=56.47  Aligned_cols=93  Identities=14%  Similarity=0.132  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+..++.++...|++++|+..|++++++       .+..       ...+.++|.++..+|++++|+..|++++++   
T Consensus        17 ~~~~~~~~~~~~~~~~~~A~~~~~~al~~-------~~~~-------~~~~~~la~~~~~~~~~~~A~~~~~~a~~~---   79 (133)
T 2lni_A           17 LMVKNKGNECFQKGDYPQAMKHYTEAIKR-------NPKD-------AKLYSNRAACYTKLLEFQLALKDCEECIQL---   79 (133)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHHTT-------CTTC-------HHHHHHHHHHHTTTTCHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHc-------CCCc-------HHHHHHHHHHHHHhccHHHHHHHHHHHHHh---
Confidence            45566666666667777777666666543       1111       334556666666666666666666666643   


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                         .|........++.  ++..++++.+++.+|++
T Consensus        80 ---~~~~~~~~~~la~--~~~~~~~~~~A~~~~~~  109 (133)
T 2lni_A           80 ---EPTFIKGYTRKAA--ALEAMKDYTKAMDVYQK  109 (133)
T ss_dssp             ---CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             ---CCCchHHHHHHHH--HHHHHhhHHHHHHHHHH
Confidence               3444455555555  55566666666666554

>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=97.56  E-value=0.00011  Score=73.18  Aligned_cols=130  Identities=12%  Similarity=0.018  Sum_probs=91.6

Q ss_pred             ccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCC
Q 016262          236 MLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSN  315 (392)
Q Consensus       236 ~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~  315 (392)
                      .++.++...|++..|+.++++..+.    .+...       .....++.++...|++++|+..|++++++........  
T Consensus       349 ~la~~~~~~g~~~~A~~~~~~~~~~----~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~--  415 (537)
T 3fp2_A          349 QLACLLYKQGKFTESEAFFNETKLK----FPTLP-------EVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIH--  415 (537)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH----CTTCT-------HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCS--
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh----CCCCh-------HHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhH--
Confidence            3444555677777777777766543    22222       3567789999999999999999999988764321111  


Q ss_pred             CCchhhHHHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhcc
Q 016262          316 VPSQVLDVAVSLAKVADVDRSI----------GNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQ  385 (392)
Q Consensus       316 ~~~~~~dla~sl~~l~~v~~~l----------g~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~  385 (392)
                           .. ...+..++.++..+          |++++|+..|++++++      .|........++.  ++..++++.+|
T Consensus       416 -----~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~------~p~~~~~~~~l~~--~~~~~g~~~~A  481 (537)
T 3fp2_A          416 -----VG-IGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACEL------DPRSEQAKIGLAQ--LKLQMEKIDEA  481 (537)
T ss_dssp             -----ST-THHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHTTCHHHH
T ss_pred             -----HH-HHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHh------CCCCHHHHHHHHH--HHHHhccHHHH
Confidence                 11 12234567777777          9999999999988754      6777777777877  88899999999


Q ss_pred             ccchhcC
Q 016262          386 LPKFRSA  392 (392)
Q Consensus       386 l~~~~~~  392 (392)
                      +.+|++|
T Consensus       482 ~~~~~~a  488 (537)
T 3fp2_A          482 IELFEDS  488 (537)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988764

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.55  E-value=4.6e-05  Score=60.42  Aligned_cols=85  Identities=14%  Similarity=0.057  Sum_probs=59.1

Q ss_pred             cCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHH
Q 016262          289 GGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQ  368 (392)
Q Consensus       289 ~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~  368 (392)
                      +|++++|+..|++++++.       ..    -.+....+.++|.++..+|++++|+..|++++++      .|.+..+..
T Consensus         3 ~g~~~~A~~~~~~al~~~-------~~----~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~------~p~~~~~~~   65 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASG-------LQ----GKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQ------FPNHQALRV   65 (117)
T ss_dssp             ----CCCHHHHHHHHSSC-------CC----HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------CTTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcC-------CC----CccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------CCCchHHHH
Confidence            567778888888877641       00    0133566778888888889988888888888743      677777777


Q ss_pred             hhcchhHHHHHHhhhccccchhcC
Q 016262          369 RCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       369 ~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .++.  ++..++++.+|+.+|++|
T Consensus        66 ~l~~--~~~~~g~~~~A~~~~~~a   87 (117)
T 3k9i_A           66 FYAM--VLYNLGRYEQGVELLLKI   87 (117)
T ss_dssp             HHHH--HHHHHTCHHHHHHHHHHH
T ss_pred             HHHH--HHHHcCCHHHHHHHHHHH
Confidence            7777  778888888888877653

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.54  E-value=0.00077  Score=56.34  Aligned_cols=97  Identities=10%  Similarity=0.109  Sum_probs=76.3

Q ss_pred             hhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhc
Q 016262          233 VLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKR  312 (392)
Q Consensus       233 ~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~  312 (392)
                      .+..++..+...|++..|+.+++.+.+..    +..       ...+.+++.++..+|++++|+.+|++++++.      
T Consensus        13 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~----p~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~------   75 (164)
T 3sz7_A           13 KLKSEGNAAMARKEYSKAIDLYTQALSIA----PAN-------PIYLSNRAAAYSASGQHEKAAEDAELATVVD------   75 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS----TTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC----CcC-------HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC------
Confidence            44445555667889999999998776542    222       3568899999999999999999999998762      


Q ss_pred             CCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 016262          313 HSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRL  354 (392)
Q Consensus       313 ~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~il  354 (392)
                       +.       ....+.++|.++..+|++++|+..|++++++.
T Consensus        76 -p~-------~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           76 -PK-------YSKAWSRLGLARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             -TT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             -CC-------CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence             22       15567889999999999999999999998653

>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=97.53  E-value=0.00024  Score=54.73  Aligned_cols=93  Identities=13%  Similarity=0.130  Sum_probs=65.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+..++..+...|++++|+..|++++...       +..       ...+.++|.++..+|++++|+..|++++++   
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-------~~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---   67 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLD-------PHN-------HVLYSNRSAAYAKKGDYQKAYEDGCKTVDL---   67 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTC-------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC-------CCc-------HHHHHHHHHHHHhhccHHHHHHHHHHHHHh---
Confidence            456677888888888888888888777541       211       345667778888888888888888877754   


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                         .|....+...++.  ++..++++.+++.+|++
T Consensus        68 ---~~~~~~~~~~~a~--~~~~~~~~~~A~~~~~~   97 (118)
T 1elw_A           68 ---KPDWGKGYSRKAA--ALEFLNRFEEAKRTYEE   97 (118)
T ss_dssp             ---CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             ---CcccHHHHHHHHH--HHHHHhhHHHHHHHHHH
Confidence               4555566666666  67777777777777764

>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=97.53  E-value=0.00014  Score=76.18  Aligned_cols=159  Identities=11%  Similarity=0.016  Sum_probs=102.9

Q ss_pred             HHhhhchhhHHHHhhhcHH-HHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHH
Q 016262          193 AFRAQNVESAKSRLSLCTE-DIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEI  271 (392)
Q Consensus       193 ~~~~g~~~~A~~~l~~c~~-~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~  271 (392)
                      ++..|++++|...+....+ .+.......+....       .+..++.....+|++.+|+..++++.+..    +..   
T Consensus       401 a~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~-------~~~~~a~~~~~~g~~~~A~~~~~~al~~~----p~~---  466 (681)
T 2pzi_A          401 ATVLSQPVQTLDSLRAARHGALDADGVDFSESVE-------LPLMEVRALLDLGDVAKATRKLDDLAERV----GWR---  466 (681)
T ss_dssp             HTTTCCHHHHHHHHHHHHTC-------CCTTCSH-------HHHHHHHHHHHHTCHHHHHHHHHHHHHHH----CCC---
T ss_pred             cccccCHHHHHHHHHHhhhhcccccccccccchh-------HHHHHHHHHHhcCCHHHHHHHHHHHhccC----cch---
Confidence            4677888888777753320 00000012222222       22333444447788888888888775542    222   


Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                          ...+..+|.++..+|++++|+..|++++++.       +.+       ...+.++|.++..+|++++ +..|++++
T Consensus       467 ----~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-------P~~-------~~~~~~lg~~~~~~g~~~~-~~~~~~al  527 (681)
T 2pzi_A          467 ----WRLVWYRAVAELLTGDYDSATKHFTEVLDTF-------PGE-------LAPKLALAATAELAGNTDE-HKFYQTVW  527 (681)
T ss_dssp             ----HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-------TTC-------SHHHHHHHHHHHHHTCCCT-TCHHHHHH
T ss_pred             ----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------CCC-------hHHHHHHHHHHHHcCChHH-HHHHHHHH
Confidence                3467899999999999999999999988752       222       3345677777788888877 77777776


Q ss_pred             HHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          352 KRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       352 ~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                            ..+|..+....+++.  ++..++++.+|+.+|++|
T Consensus       528 ------~~~P~~~~a~~~lg~--~~~~~g~~~~A~~~~~~a  560 (681)
T 2pzi_A          528 ------STNDGVISAAFGLAR--ARSAEGDRVGAVRTLDEV  560 (681)
T ss_dssp             ------HHCTTCHHHHHHHHH--HHHHTTCHHHHHHHHHTS
T ss_pred             ------HhCCchHHHHHHHHH--HHHHcCCHHHHHHHHHhh
Confidence                  346667767777777  777777777777777764

>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=97.53  E-value=0.00019  Score=71.47  Aligned_cols=94  Identities=10%  Similarity=0.071  Sum_probs=68.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+..++.++...|++++|+..|++++++       .+..       ...+..+|.++..+|++++|+..|++++++   
T Consensus       311 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-------~~~~-------~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---  373 (537)
T 3fp2_A          311 PTYYHRGQMYFILQDYKNAKEDFQKAQSL-------NPEN-------VYPYIQLACLLYKQGKFTESEAFFNETKLK---  373 (537)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTTC-------SHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHh-------CCCC-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---
Confidence            35667777777777777777777777653       1221       234667888888888888888888887754   


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                         .|....+...++.  ++..++++.+|+.+|++|
T Consensus       374 ---~~~~~~~~~~l~~--~~~~~g~~~~A~~~~~~a  404 (537)
T 3fp2_A          374 ---FPTLPEVPTFFAE--ILTDRGDFDTAIKQYDIA  404 (537)
T ss_dssp             ---CTTCTHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             ---CCCChHHHHHHHH--HHHHhCCHHHHHHHHHHH
Confidence               5677777777777  888888999999888764

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=97.52  E-value=0.00033  Score=65.16  Aligned_cols=160  Identities=17%  Similarity=0.056  Sum_probs=104.3

Q ss_pred             HHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCC---Cc
Q 016262          192 RAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPM---DD  268 (392)
Q Consensus       192 ~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~---~~  268 (392)
                      -.+..|++++|...+.....       ..+..       ...+..++..+...|++..|+.+++....    +.+   ..
T Consensus        46 ~~~~~~~~~~A~~~~~~~~~-------~~~~~-------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~  107 (359)
T 3ieg_A           46 VFLAMGKSKAALPDLTKVIA-------LKMDF-------TAARLQRGHLLLKQGKLDEAEDDFKKVLK----SNPSEQEE  107 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHH-------HCTTC-------HHHHHHHHHHHHHHTCHHHHHHHHHHHHT----SCCCHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHH-------hCCCc-------chHHHHHHHHHHHcCChHHHHHHHHHHHh----cCCcccCh
Confidence            35566777777766653321       11212       22344455555577888888877776532    222   22


Q ss_pred             hHHHHHH-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHH
Q 016262          269 LEIIHTL-----SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVA  343 (392)
Q Consensus       269 ~e~~~~l-----~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A  343 (392)
                      ......+     ......++.++...|++++|+..|++++++       .+..       ...+..+|.++..+|++++|
T Consensus       108 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-------~~~~-------~~~~~~~~~~~~~~~~~~~A  173 (359)
T 3ieg_A          108 KEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEV-------CVWD-------AELRELRAECFIKEGEPRKA  173 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTTC-------HHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-------CCCc-------hHHHHHHHHHHHHCCCHHHH
Confidence            2222222     122344578888999999999999988764       2221       45577889999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          344 VDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       344 ~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      +..|++++      ...|........++.  ++..++++.+++.+|++
T Consensus       174 ~~~~~~~~------~~~~~~~~~~~~la~--~~~~~~~~~~A~~~~~~  213 (359)
T 3ieg_A          174 ISDLKAAS------KLKSDNTEAFYKIST--LYYQLGDHELSLSEVRE  213 (359)
T ss_dssp             HHHHHHHH------TTCSCCHHHHHHHHH--HHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHH------HhCCCCHHHHHHHHH--HHHHcCCHHHHHHHHHH
Confidence            99888877      346777777777777  78888888888888765

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.52  E-value=0.00022  Score=57.70  Aligned_cols=98  Identities=17%  Similarity=0.125  Sum_probs=72.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE  355 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile  355 (392)
                      ...+..++..+...|++++|+..|++++++       .+..    .+....+.++|.++..+|++++|+..|++++++  
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~-------~~~~----~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--   94 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGL-------DATP----QDQAVLHRNRAACHLKLEDYDKAETEASKAIEK--   94 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTS-------CCCH----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHH-------cccc----hHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--
Confidence            346678888888889999999988887753       1211    123566778888899999999999988888754  


Q ss_pred             HhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          356 SLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       356 ~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                          .|........++.  ++..++++.+++.+|++|
T Consensus        95 ----~~~~~~~~~~~a~--~~~~~~~~~~A~~~~~~a  125 (148)
T 2dba_A           95 ----DGGDVKALYRRSQ--ALEKLGRLDQAVLDLQRC  125 (148)
T ss_dssp             ----TSCCHHHHHHHHH--HHHHHTCHHHHHHHHHHH
T ss_pred             ----CccCHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence                5666666667777  777888888888887753

>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=97.50  E-value=0.00034  Score=63.54  Aligned_cols=86  Identities=15%  Similarity=0.265  Sum_probs=46.7

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhccccccccc----ccchhHHHhHHHHHHHHHHhCC
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRA----MGDADAAVAYFADSVEFLMKLP  265 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~----~gdhh~a~~~~e~~~~~~~~L~  265 (392)
                      +.-.+..|++++|...+....+         +....       .+..++.++..    .+++.+|+.+++.+.+.    .
T Consensus        13 g~~~~~~~~~~~A~~~~~~a~~---------~~~~~-------a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~----~   72 (273)
T 1ouv_A           13 GAKSYKEKDFTQAKKYFEKACD---------LKENS-------GCFNLGVLYYQGQGVEKNLKKAASFYAKACDL----N   72 (273)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH---------TTCHH-------HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----T
T ss_pred             HHHHHhCCCHHHHHHHHHHHHH---------CCCHH-------HHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHC----C
Confidence            3445677889998888864432         11111       22223333323    56666676666655432    1


Q ss_pred             CCchHHHHHHHHHHHHHHHHHHh----cCCHHHHHHHHHHHHH
Q 016262          266 MDDLEIIHTLSVSLNKIGDLKYY----GGDLQAARSYYVRSLN  304 (392)
Q Consensus       266 ~~~~e~~~~l~~~l~~lg~l~~~----~g~l~~A~~~~e~aL~  304 (392)
                               -......+|.++..    .+++++|+.+|+++++
T Consensus        73 ---------~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~  106 (273)
T 1ouv_A           73 ---------YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACD  106 (273)
T ss_dssp             ---------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             ---------CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHH
Confidence                     12345566666666    6666666666666654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=97.45  E-value=0.00016  Score=71.26  Aligned_cols=130  Identities=12%  Similarity=0.054  Sum_probs=92.2

Q ss_pred             ccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCC
Q 016262          236 MLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSN  315 (392)
Q Consensus       236 ~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~  315 (392)
                      .++..+...|++..|+.+++...+..    +...       ..+..++.++...|++++|+..|++++++....    ..
T Consensus       343 ~l~~~~~~~~~~~~A~~~~~~~~~~~----~~~~-------~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~----~~  407 (514)
T 2gw1_A          343 QLACLAYRENKFDDCETLFSEAKRKF----PEAP-------EVPNFFAEILTDKNDFDKALKQYDLAIELENKL----DG  407 (514)
T ss_dssp             HHHHHTTTTTCHHHHHHHHHHHHHHS----TTCS-------HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTS----SS
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHc----ccCH-------HHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc----ch
Confidence            34445557788888888887765431    2111       356788999999999999999999998764331    11


Q ss_pred             CCchhhHHHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          316 VPSQVLDVAVSLAKVADVDRS---IGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       316 ~~~~~~dla~sl~~l~~v~~~---lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .    ...+..+.++|.++..   +|++++|+..|++++++      .|........++.  ++..++++.+|+.+|++|
T Consensus       408 ~----~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~------~~~~~~~~~~la~--~~~~~g~~~~A~~~~~~a  475 (514)
T 2gw1_A          408 I----YVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKL------DPRSEQAKIGLAQ--MKLQQEDIDEAITLFEES  475 (514)
T ss_dssp             C----SSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             H----HHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHh------CcccHHHHHHHHH--HHHHhcCHHHHHHHHHHH
Confidence            0    0113356788889999   99999999999888754      4566666666666  777888888888888753

>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=97.45  E-value=0.00018  Score=65.34  Aligned_cols=91  Identities=21%  Similarity=0.276  Sum_probs=61.3

Q ss_pred             hhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHHHHH
Q 016262          233 VLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYY----GGDLQAARSYYVRSLNVRRD  308 (392)
Q Consensus       233 ~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~----~g~l~~A~~~~e~aL~i~~~  308 (392)
                      .+..++..+...+++.+|+.+++.+.+    .  ..       ..+...+|.++..    .+++++|+.+|+++++.-  
T Consensus         8 a~~~lg~~~~~~~~~~~A~~~~~~a~~----~--~~-------~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--   72 (273)
T 1ouv_A            8 ELVGLGAKSYKEKDFTQAKKYFEKACD----L--KE-------NSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN--   72 (273)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH----T--TC-------HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHH----C--CC-------HHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC--
Confidence            334455555567888889988887765    1  11       1467889999999    999999999999988641  


Q ss_pred             HhhcCCCCCchhhHHHHHHHHHHHHHHh----cCCHHHHHHHHHHHHH
Q 016262          309 AVKRHSNVPSQVLDVAVSLAKVADVDRS----IGNEDVAVDGFQEAIK  352 (392)
Q Consensus       309 ~~~~~~~~~~~~~dla~sl~~l~~v~~~----lg~~~~A~~~~~~al~  352 (392)
                                    -...+.++|.++..    .|++++|+..|+++++
T Consensus        73 --------------~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~  106 (273)
T 1ouv_A           73 --------------YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACD  106 (273)
T ss_dssp             --------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             --------------CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHH
Confidence                          03344555555555    5666666666655553

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=97.44  E-value=0.00051  Score=60.29  Aligned_cols=102  Identities=14%  Similarity=0.163  Sum_probs=75.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhh-----cCCCCCchhhHHHHHH-HHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          279 LNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVK-----RHSNVPSQVLDVAVSL-AKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       279 l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~-----~~~~~~~~~~dla~sl-~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      +-..|......|++++|+..|++++++.-....     .....    ..+...+ .++|.++..+|++++|+..|+++++
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   82 (208)
T 3urz_A            7 MLQKVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKN----SEISSKLATELALAYKKNRNYDKAYLFYKELLQ   82 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTT----SHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcch----hhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            445677778899999999999999986432110     00111    1222222 3489999999999999999999884


Q ss_pred             HHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          353 RLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       353 ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                            .+|.+......++.  ++..++++.+|+.+|++|
T Consensus        83 ------~~p~~~~~~~~lg~--~~~~~g~~~~A~~~~~~a  114 (208)
T 3urz_A           83 ------KAPNNVDCLEACAE--MQVCRGQEKDALRMYEKI  114 (208)
T ss_dssp             ------HCTTCHHHHHHHHH--HHHHHTCHHHHHHHHHHH
T ss_pred             ------HCCCCHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence                  57888888888888  888999999999988764

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=97.43  E-value=0.0029  Score=49.23  Aligned_cols=110  Identities=14%  Similarity=0.154  Sum_probs=80.4

Q ss_pred             hhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhh
Q 016262          232 AVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVK  311 (392)
Q Consensus       232 ~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~  311 (392)
                      ..+..++..+...|++..|+.+++.....    .+..       ......++.++...|++++|+.+|++++.+      
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~----~~~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~------   75 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIEL----NPAN-------AVYFCNRAAAYSKLGNYAGAVQDCERAICI------   75 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHc----CCCC-------HHHHHHHHHHHHHhhchHHHHHHHHHHHhc------
Confidence            34445555665788888899888877554    1212       346788999999999999999999998875      


Q ss_pred             cCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcc
Q 016262          312 RHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       312 ~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~  372 (392)
                       .+..       ...+..+|.++..+|++++|+..|++++++      .|........++.
T Consensus        76 -~~~~-------~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~------~p~~~~~~~~l~~  122 (131)
T 2vyi_A           76 -DPAY-------SKAYGRMGLALSSLNKHVEAVAYYKKALEL------DPDNETYKSNLKI  122 (131)
T ss_dssp             -CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------STTCHHHHHHHHH
T ss_pred             -CccC-------HHHHHHHHHHHHHhCCHHHHHHHHHHHHhc------CccchHHHHHHHH
Confidence             2221       456778899999999999999999998854      4555555555544

>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=97.43  E-value=0.00083  Score=52.53  Aligned_cols=120  Identities=20%  Similarity=0.308  Sum_probs=82.6

Q ss_pred             cccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCc
Q 016262          239 DCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPS  318 (392)
Q Consensus       239 ~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~  318 (392)
                      ..+...|++..++.+++.....    ....       ......++.++...|++++|+..|++++.+.       +.   
T Consensus         9 ~~~~~~~~~~~A~~~~~~~~~~----~~~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-------~~---   67 (136)
T 2fo7_A            9 NAYYKQGDYDEAIEYYQKALEL----DPRS-------AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-------PR---   67 (136)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH----CTTC-------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-------TT---
T ss_pred             HHHHHcCcHHHHHHHHHHHHHc----CCcc-------hhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-------CC---
Confidence            3334567777888877766443    1211       2356778888888999999999999887641       11   


Q ss_pred             hhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          319 QVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       319 ~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                          ....+..++.++..+|++++|+..|++++++      .|........++.  .+..++++.+++.+|++
T Consensus        68 ----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~------~~~~~~~~~~la~--~~~~~~~~~~A~~~~~~  128 (136)
T 2fo7_A           68 ----SAEAWYNLGNAYYKQGDYDEAIEYYQKALEL------DPRSAEAWYNLGN--AYYKQGDYDEAIEYYQK  128 (136)
T ss_dssp             ----CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHTTTCHHHHHHHHHH
T ss_pred             ----chHHHHHHHHHHHHhcCHHHHHHHHHHHHHh------CCCChHHHHHHHH--HHHHHccHHHHHHHHHH
Confidence                1345667889999999999999999888754      3444444555555  66667777777777764

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=97.42  E-value=0.0011  Score=51.35  Aligned_cols=93  Identities=20%  Similarity=0.273  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+..++.++...|++++|+..|++++...       +..       ...+..++.++..+|++++|+..|++++++   
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-------~~~-------~~~~~~la~~~~~~~~~~~A~~~~~~~~~~---   72 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-------PNN-------AEAWYNLGNAYYKQGDYDEAIEYYQKALEL---   72 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-------cCc-------HHHHHHHHHHHHHhCCHHHHHHHHHHHHHh---
Confidence            345566666666777777777776665431       111       234455666666667777666666666543   


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                         .|........++.  ++..++++.+++.+|++
T Consensus        73 ---~~~~~~~~~~la~--~~~~~~~~~~A~~~~~~  102 (125)
T 1na0_A           73 ---DPNNAEAWYNLGN--AYYKQGDYDEAIEYYQK  102 (125)
T ss_dssp             ---CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             ---CCccHHHHHHHHH--HHHHhcCHHHHHHHHHH
Confidence               3344444444444  55555566666655543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.39  E-value=0.00052  Score=54.35  Aligned_cols=92  Identities=13%  Similarity=0.083  Sum_probs=43.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhc
Q 016262          280 NKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTL  359 (392)
Q Consensus       280 ~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~  359 (392)
                      -.++..+...|++++|+..|+++++.       .+.+.    .....+-++|.++..+|++++|+..|++++++      
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~-------~p~~~----~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~------   68 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLEL-------YPNGV----YTPNALYWLGESYYATRNFQLAEAQFRDLVSR------   68 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH-------CSSST----THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHH-------CCCCc----ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHH------
Confidence            34455555556666666555554432       11111    11233445555555666666665555555432      


Q ss_pred             CCCc---hhHHHhhcchhHHHHHHhhhccccchh
Q 016262          360 KPEE---AGLEQRCWNSSTTNFQKNHLNQLPKFR  390 (392)
Q Consensus       360 ~~~~---a~l~~~~~~~~~~~~l~~~~~~l~~~~  390 (392)
                      .|..   ......++.  .+..++++.+++.+|+
T Consensus        69 ~p~~~~~~~~~~~la~--~~~~~g~~~~A~~~~~  100 (129)
T 2xev_A           69 YPTHDKAAGGLLKLGL--SQYGEGKNTEAQQTLQ  100 (129)
T ss_dssp             CTTSTTHHHHHHHHHH--HHHHTTCHHHHHHHHH
T ss_pred             CCCCcccHHHHHHHHH--HHHHcCCHHHHHHHHH
Confidence            2222   333444444  4445555555555554

>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=97.39  E-value=0.00045  Score=57.40  Aligned_cols=98  Identities=15%  Similarity=-0.006  Sum_probs=74.6

Q ss_pred             hhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhh
Q 016262          232 AVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVK  311 (392)
Q Consensus       232 ~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~  311 (392)
                      ..+..++......|++.+|+..++.....    .+...       ..+..+|.++..+|++++|+..|++++.+      
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~----~p~~~-------~~~~~lg~~~~~~g~~~~A~~~~~~al~l------   84 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVL----DHYDS-------RFFLGLGACRQAMGQYDLAIHSYSYGAVM------   84 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTCH-------HHHHHHHHHHHHTTCHHHHHHHHHHHHHH------
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHc----CcccH-------HHHHHHHHHHHHHhhHHHHHHHHHHHHhc------
Confidence            34444555555788999999888766443    33332       45678999999999999999999998875      


Q ss_pred             cCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 016262          312 RHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRL  354 (392)
Q Consensus       312 ~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~il  354 (392)
                       .+.+       ...+.++|.++..+|++++|+..|++++++.
T Consensus        85 -~p~~-------~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A           85 -DIXE-------PRFPFHAAECLLQXGELAEAESGLFLAQELI  119 (148)
T ss_dssp             -STTC-------THHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             -CCCC-------chHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence             2332       3456788999999999999999999998654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.38  E-value=0.0011  Score=54.15  Aligned_cols=98  Identities=20%  Similarity=0.086  Sum_probs=73.7

Q ss_pred             hhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhc
Q 016262          233 VLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKR  312 (392)
Q Consensus       233 ~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~  312 (392)
                      .+..++......|++.+|+.+++.....    .+...       ..+..+|.++...|++++|+..|++++.+       
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~----~p~~~-------~~~~~lg~~~~~~g~~~~A~~~~~~al~~-------   81 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCML----DHYDA-------RYFLGLGACRQSLGLYEQALQSYSYGALM-------   81 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTCH-------HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHh----CCccH-------HHHHHHHHHHHHHhhHHHHHHHHHHHHhc-------
Confidence            3334455555788889999888766543    33332       35678999999999999999999998875       


Q ss_pred             CCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          313 HSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE  355 (392)
Q Consensus       313 ~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile  355 (392)
                      .+.+       ...+.++|.++..+|++++|+..|++++++.-
T Consensus        82 ~p~~-------~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  117 (142)
T 2xcb_A           82 DINE-------PRFPFHAAECHLQLGDLDGAESGFYSARALAA  117 (142)
T ss_dssp             CTTC-------THHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             CCCC-------cHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            2332       23467889999999999999999999987653

>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=97.38  E-value=0.00037  Score=59.21  Aligned_cols=90  Identities=17%  Similarity=0.046  Sum_probs=68.3

Q ss_pred             HHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHH---HHHHHHHHHHHHHHHh-hcCCCchhHHHh
Q 016262          294 AARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNED---VAVDGFQEAIKRLESL-TLKPEEAGLEQR  369 (392)
Q Consensus       294 ~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~---~A~~~~~~al~ile~l-~~~~~~a~l~~~  369 (392)
                      +....|+++++..+.+++..+..       +..+.++|.++..+|+++   .|+..+++|+..+++. ...|..+....+
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P~~-------aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~   85 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNPLD-------ADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWC   85 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTTC-------HHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCCCC-------HHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHH
Confidence            34456667777777777777764       456677777777776553   6677777888877776 889999999999


Q ss_pred             hcchhHHHHH-----------HhhhccccchhcC
Q 016262          370 CWNSSTTNFQ-----------KNHLNQLPKFRSA  392 (392)
Q Consensus       370 ~~~~~~~~~l-----------~~~~~~l~~~~~~  392 (392)
                      +++  .|..+           +++.+|+.+|++|
T Consensus        86 LG~--ay~~lg~l~P~~~~a~g~~~eA~~~~~kA  117 (158)
T 1zu2_A           86 IGN--AYTSFAFLTPDETEAKHNFDLATQFFQQA  117 (158)
T ss_dssp             HHH--HHHHHHHHCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHH--HHHHhcccCcchhhhhccHHHHHHHHHHH
Confidence            999  88777           4899999999975

>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=97.34  E-value=0.0019  Score=50.41  Aligned_cols=101  Identities=14%  Similarity=0.200  Sum_probs=75.6

Q ss_pred             cccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCC
Q 016262          235 GMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHS  314 (392)
Q Consensus       235 ~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~  314 (392)
                      ..++..+...|++..|+.+++.+....    +..       ......++.++...|++++|+.+|++++++....     
T Consensus         8 ~~l~~~~~~~~~~~~A~~~~~~a~~~~----~~~-------~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~-----   71 (131)
T 1elr_A            8 KELGNDAYKKKDFDTALKHYDKAKELD----PTN-------MTYITNQAAVYFEKGDYNKCRELCEKAIEVGREN-----   71 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC----TTC-------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHS-----
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHhcC----Ccc-------HHHHHHHHHHHHHhccHHHHHHHHHHHHhhcccc-----
Confidence            344455557788888998888775542    212       2467889999999999999999999999875431     


Q ss_pred             CCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          315 NVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       315 ~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                        ......+...+.++|.++..+|++++|+..|++++++
T Consensus        72 --~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           72 --REDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             --TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             --chhHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence              1112234667788999999999999999999998864

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.32  E-value=0.00058  Score=65.06  Aligned_cols=122  Identities=12%  Similarity=0.057  Sum_probs=77.7

Q ss_pred             HhhhcccccccccccchhHHHhHHHHHHHHHHhC-----CCCc-hHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKL-----PMDD-LEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLN  304 (392)
Q Consensus       231 ~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L-----~~~~-~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~  304 (392)
                      ...+...+..+...|++..|+..++.+.......     .... ..........+.+++.++..+|++++|+.+|+++|+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~  258 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLT  258 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4445566666668899999999988875542110     0000 011111224788999999999999999999999987


Q ss_pred             HHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcc
Q 016262          305 VRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       305 i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~  372 (392)
                      +       .+.       -+..+.++|.++..+|++++|+..|++++++      .|.+..+...+..
T Consensus       259 ~-------~p~-------~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l------~p~~~~a~~~L~~  306 (338)
T 2if4_A          259 E-------EEK-------NPKALFRRGKAKAELGQMDSARDDFRKAQKY------APDDKAIRRELRA  306 (338)
T ss_dssp             H-------CTT-------CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------
T ss_pred             h-------CCC-------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH------CCCCHHHHHHHHH
Confidence            5       222       1566889999999999999999999998744      3444444444443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.32  E-value=0.00029  Score=67.14  Aligned_cols=112  Identities=12%  Similarity=-0.008  Sum_probs=83.4

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcC-CCC-CchhhH-HHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 016262          273 HTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRH-SNV-PSQVLD-VAVSLAKVADVDRSIGNEDVAVDGFQE  349 (392)
Q Consensus       273 ~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~-~~~-~~~~~d-la~sl~~l~~v~~~lg~~~~A~~~~~~  349 (392)
                      ......+..+|..+...|++++|+..|++++.+......-. ... ...... ....+.++|.++..+|++++|+..|++
T Consensus       176 ~~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~  255 (338)
T 2if4_A          176 IGAADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNI  255 (338)
T ss_dssp             HHHHHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            33456788999999999999999999999998643321000 000 000000 113677899999999999999999999


Q ss_pred             HHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          350 AIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       350 al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +++      .+|.+.....+++.  .+..++++..|+.+|++|
T Consensus       256 al~------~~p~~~~a~~~lg~--a~~~~g~~~~A~~~l~~a  290 (338)
T 2if4_A          256 VLT------EEEKNPKALFRRGK--AKAELGQMDSARDDFRKA  290 (338)
T ss_dssp             HHH------HCTTCHHHHHHHHH--HHHTTTCHHHHHHHHHHT
T ss_pred             HHH------hCCCCHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            985      46788888888888  888999999999999875

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.32  E-value=0.0018  Score=50.87  Aligned_cols=89  Identities=16%  Similarity=0.160  Sum_probs=65.1

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhH
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLD  322 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~d  322 (392)
                      .+|++.+|+.+++.+.+.    ...    .........++|.++..+|++++|+..|++++++       .+.+      
T Consensus         2 ~~g~~~~A~~~~~~al~~----~~~----~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~-------~p~~------   60 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIAS----GLQ----GKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQ-------FPNH------   60 (117)
T ss_dssp             -----CCCHHHHHHHHSS----CCC----HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTTC------
T ss_pred             CCCcHHHHHHHHHHHHHc----CCC----CccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------CCCc------
Confidence            356677778777766432    110    2334567899999999999999999999998866       2322      


Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          323 VAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       323 la~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                       ...+.++|.++..+|++++|+..|++++++
T Consensus        61 -~~~~~~l~~~~~~~g~~~~A~~~~~~al~~   90 (117)
T 3k9i_A           61 -QALRVFYAMVLYNLGRYEQGVELLLKIIAE   90 (117)
T ss_dssp             -HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -hHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             456778999999999999999999999854

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.32  E-value=0.00047  Score=52.52  Aligned_cols=92  Identities=9%  Similarity=0.074  Sum_probs=72.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      .+..++.++...|++++|+..|++++++.       +..       ...+.++|.++..+|++++|+..|++++++    
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-------~~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~----   69 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLD-------PEE-------SKYWLMKGKALYNLERYEEAVDCYNYVINV----   69 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHC-------CCC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHT----
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhC-------cCC-------HHHHHHHHHHHHHccCHHHHHHHHHHHHHh----
Confidence            34578889999999999999999988652       221       445678899999999999999999998854    


Q ss_pred             hcCCC--chhHHHhhcchhHHHHH-Hhhhccccchhc
Q 016262          358 TLKPE--EAGLEQRCWNSSTTNFQ-KNHLNQLPKFRS  391 (392)
Q Consensus       358 ~~~~~--~a~l~~~~~~~~~~~~l-~~~~~~l~~~~~  391 (392)
                        .|.  .......++.  ++..+ +++.+++.+|++
T Consensus        70 --~~~~~~~~~~~~l~~--~~~~~~~~~~~A~~~~~~  102 (112)
T 2kck_A           70 --IEDEYNKDVWAAKAD--ALRYIEGKEVEAEIAEAR  102 (112)
T ss_dssp             --SCCTTCHHHHHHHHH--HHTTCSSCSHHHHHHHHH
T ss_pred             --CcccchHHHHHHHHH--HHHHHhCCHHHHHHHHHH
Confidence              455  6666667776  77778 888888888764

>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=97.30  E-value=0.00055  Score=59.36  Aligned_cols=91  Identities=14%  Similarity=0.012  Sum_probs=75.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ....++|.++...|++++|+..|++++         .+.        +..+.++|.++..+|++++|+..|++++++   
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~---------~~~--------~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---   66 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ---------DPH--------SRICFNIGCMYTILKNMTEAEKAFTRSINR---   66 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS---------SCC--------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc---------CCC--------hHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---
Confidence            346788999999999999999998874         111        457789999999999999999999999865   


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                         .|........++.  .+..++++.+|+.+|++|
T Consensus        67 ---~~~~~~~~~~lg~--~~~~~~~~~~A~~~~~~a   97 (213)
T 1hh8_A           67 ---DKHLAVAYFQRGM--LYYQTEKYDLAIKDLKEA   97 (213)
T ss_dssp             ---CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             ---CccchHHHHHHHH--HHHHcccHHHHHHHHHHH
Confidence               5677777778888  888999999999988764

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=97.28  E-value=0.001  Score=59.59  Aligned_cols=123  Identities=15%  Similarity=0.089  Sum_probs=86.9

Q ss_pred             hhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHH
Q 016262          196 AQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTL  275 (392)
Q Consensus       196 ~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l  275 (392)
                      .|++++|...+....       .......   +.....+..++..+...|++..|+.+++.+.+.    .+..       
T Consensus        18 ~~~~~~A~~~~~~~~-------~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~----~~~~-------   76 (275)
T 1xnf_A           18 TLQQEVILARMEQIL-------ASRALTD---DERAQLLYERGVLYDSLGLRALARNDFSQALAI----RPDM-------   76 (275)
T ss_dssp             CHHHHHHHHHHHHHH-------TSSCCCH---HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CCCC-------
T ss_pred             cchHHHHHHHHHHHH-------hcccccC---chhHHHHHHHHHHHHHcccHHHHHHHHHHHHHc----CCCc-------
Confidence            466777777665221       1111111   233445566677776889999999998877654    2222       


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      ......++.++...|++++|+.+|++++++       .+..       ...+.++|.++..+|++++|+..|++++++
T Consensus        77 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~-------~~~~-------~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  140 (275)
T 1xnf_A           77 PEVFNYLGIYLTQAGNFDAAYEAFDSVLEL-------DPTY-------NYAHLNRGIALYYGGRDKLAQDDLLAFYQD  140 (275)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTTC-------THHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhc-------Cccc-------cHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            246788999999999999999999999875       2221       356778899999999999999999998864

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=97.27  E-value=0.00039  Score=62.88  Aligned_cols=129  Identities=15%  Similarity=0.077  Sum_probs=90.1

Q ss_pred             ccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCC
Q 016262          236 MLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSN  315 (392)
Q Consensus       236 ~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~  315 (392)
                      ..+......|++..|+..++.....    .+...    .....+..+|.++..+|++++|+..|++++++.       +.
T Consensus        20 ~~a~~~~~~g~~~~A~~~~~~~l~~----~p~~~----~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~-------p~   84 (261)
T 3qky_A           20 ERAMEFYNQGKYDRAIEYFKAVFTY----GRTHE----WAADAQFYLARAYYQNKEYLLAASEYERFIQIY-------QI   84 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHGGG----CSCST----THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHh----CCCCc----chHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHC-------CC
Confidence            3444444778888888888765332    22221    124578899999999999999999999888652       22


Q ss_pred             CCchhhHHHHHHHHHHHHHHh--------cCCHHHHHHHHHHHHHHHHHhhcCCCchhHH-----------------Hhh
Q 016262          316 VPSQVLDVAVSLAKVADVDRS--------IGNEDVAVDGFQEAIKRLESLTLKPEEAGLE-----------------QRC  370 (392)
Q Consensus       316 ~~~~~~dla~sl~~l~~v~~~--------lg~~~~A~~~~~~al~ile~l~~~~~~a~l~-----------------~~~  370 (392)
                      +.    .....+-++|.++..        +|++++|+..|++++++      .|......                 ..+
T Consensus        85 ~~----~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~------~p~~~~~~~a~~~~~~~~~~~~~~~~~l  154 (261)
T 3qky_A           85 DP----RVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR------YPNHELVDDATQKIRELRAKLARKQYEA  154 (261)
T ss_dssp             CT----THHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH------CTTCTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             Cc----hhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH------CcCchhHHHHHHHHHHHHHHHHHHHHHH
Confidence            22    335667888999998        99999999999988754      33332222                 334


Q ss_pred             cchhHHHHHHhhhccccchhc
Q 016262          371 WNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       371 ~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      +.  .+..++++.+|+.+|++
T Consensus       155 a~--~~~~~g~~~~A~~~~~~  173 (261)
T 3qky_A          155 AR--LYERRELYEAAAVTYEA  173 (261)
T ss_dssp             HH--HHHHTTCHHHHHHHHHH
T ss_pred             HH--HHHHccCHHHHHHHHHH
Confidence            44  67788888888888875

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.25  E-value=0.00012  Score=54.88  Aligned_cols=45  Identities=29%  Similarity=0.604  Sum_probs=36.9

Q ss_pred             Cceeccccccccc-cCceecccC-----cHhHHHhHHhc------CCCCCCCcCCcc
Q 016262           88 GPLSCMICQALLF-ECSKCTPCS-----HVYCKACISRF------KDCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~-~~p~~~~C~-----h~fC~~Ci~~~------~~CP~C~~~~~~  132 (392)
                      +...|.||++.+. +.+.++||.     |.|...||.+|      ..||+|+..+..
T Consensus        14 ~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~   70 (80)
T 2d8s_A           14 SQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIM   70 (80)
T ss_dssp             TSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCC
T ss_pred             CCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeec
Confidence            4578999998764 357889996     99999999999      259999997754

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=97.25  E-value=0.0014  Score=60.68  Aligned_cols=130  Identities=7%  Similarity=-0.053  Sum_probs=93.6

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH------------
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLN------------  304 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~------------  304 (392)
                      .+......|++..|+.++++....    .+...       .....++.++...|++++|+..|++++.            
T Consensus       123 ~a~~~~~~g~~~~A~~~~~~al~~----~P~~~-------~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~  191 (287)
T 3qou_A          123 QAMQLMQESNYTDALPLLXDAWQL----SNQNG-------EIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVA  191 (287)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH----TTSCH-------HHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHh----CCcch-------hHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHH
Confidence            333444678888888888776543    23232       4678899999999999999998888643            


Q ss_pred             ---------------HHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCc--hhHH
Q 016262          305 ---------------VRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEE--AGLE  367 (392)
Q Consensus       305 ---------------i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~--a~l~  367 (392)
                                     ..+.++...+.+       ...+.++|.++..+|++++|+..|+++++      .+|..  ....
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~P~~-------~~~~~~la~~l~~~g~~~~A~~~l~~~l~------~~p~~~~~~a~  258 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAENPED-------AALATQLALQLHQVGRNEEALELLFGHLR------XDLTAADGQTR  258 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHCTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHH------HCTTGGGGHHH
T ss_pred             HHHHHhhcccCccHHHHHHHHhcCCcc-------HHHHHHHHHHHHHcccHHHHHHHHHHHHh------cccccccchHH
Confidence                           122223333332       44567789999999999999999998874      45555  6677


Q ss_pred             HhhcchhHHHHHHhhhccccchhcC
Q 016262          368 QRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       368 ~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ..++.  ++..+++...++..|+++
T Consensus       259 ~~l~~--~~~~~g~~~~a~~~~r~a  281 (287)
T 3qou_A          259 XTFQE--ILAALGTGDALASXYRRQ  281 (287)
T ss_dssp             HHHHH--HHHHHCTTCHHHHHHHHH
T ss_pred             HHHHH--HHHHcCCCCcHHHHHHHH
Confidence            77777  888899888898888763

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=97.25  E-value=8.4e-05  Score=57.18  Aligned_cols=45  Identities=31%  Similarity=0.724  Sum_probs=37.5

Q ss_pred             eeccccccccccCceecccCcHhHHHhHHhc-----CCCCCCCcCCcccc
Q 016262           90 LSCMICQALLFECSKCTPCSHVYCKACISRF-----KDCPLCGADIEKIE  134 (392)
Q Consensus        90 ~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~-----~~CP~C~~~~~~~~  134 (392)
                      ..|++|.-.+..-.+++||.|.||..|+..|     ..||.|+.++..+.
T Consensus         2 hfC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe   51 (101)
T 3vk6_A            2 HFCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIE   51 (101)
T ss_dssp             CBCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEE
T ss_pred             eecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeeeE
Confidence            3688998877767899999999999999876     35999999887643

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=97.25  E-value=0.0046  Score=57.36  Aligned_cols=81  Identities=15%  Similarity=0.030  Sum_probs=52.7

Q ss_pred             cCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHH
Q 016262          289 GGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQ  368 (392)
Q Consensus       289 ~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~  368 (392)
                      .|++++|+..|+++++.       .+.+       ...+.++|.++..+|++++|+..|++++      ..+|.++..+.
T Consensus       179 ~~~~~eA~~~~~~~l~~-------~p~~-------~~~~~~la~~~~~~g~~~eA~~~l~~al------~~~p~~~~~l~  238 (291)
T 3mkr_A          179 GEKLQDAYYIFQEMADK-------CSPT-------LLLLNGQAACHMAQGRWEAAEGVLQEAL------DKDSGHPETLI  238 (291)
T ss_dssp             TTHHHHHHHHHHHHHHH-------SCCC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHH------HHCTTCHHHHH
T ss_pred             chHHHHHHHHHHHHHHh-------CCCc-------HHHHHHHHHHHHHcCCHHHHHHHHHHHH------HhCCCCHHHHH
Confidence            36666666666665543       2321       4567778888888888888888888877      34567777666


Q ss_pred             hhcchhHHHHHHhhhc-cccchhc
Q 016262          369 RCWNSSTTNFQKNHLN-QLPKFRS  391 (392)
Q Consensus       369 ~~~~~~~~~~l~~~~~-~l~~~~~  391 (392)
                      +++.  ++..+++... +..|+++
T Consensus       239 ~l~~--~~~~~g~~~eaa~~~~~~  260 (291)
T 3mkr_A          239 NLVV--LSQHLGKPPEVTNRYLSQ  260 (291)
T ss_dssp             HHHH--HHHHTTCCHHHHHHHHHH
T ss_pred             HHHH--HHHHcCCCHHHHHHHHHH
Confidence            6666  5556666554 3455543

>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=97.22  E-value=0.00013  Score=73.24  Aligned_cols=94  Identities=11%  Similarity=0.047  Sum_probs=79.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+.++|.++...|++++|+.+|++++++       .+.       .+..+.++|.++..+|++++|+..|++++++   
T Consensus         7 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~~-------~p~-------~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l---   69 (477)
T 1wao_1            7 EELKTQANDYFKAKDYENAIKFYSQAIEL-------NPS-------NAIYYGNRSLAYLRTECYGYALGDATRAIEL---   69 (477)
T ss_dssp             TTSSSSSSSTTTTTCHHHHHHHHHHHHHH-------CTT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS---
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHh-------CCc-------cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh---
Confidence            34556677778889999999999999976       222       2677889999999999999999999999854   


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                         +|..+....+++.  .+..++++.+|+.+|++|
T Consensus        70 ---~p~~~~~~~~lg~--~~~~~g~~~eA~~~~~~a  100 (477)
T 1wao_1           70 ---DKKYIKGYYRRAA--SNMALGKFRAALRDYETV  100 (477)
T ss_dssp             ---CTTCHHHHHHHHH--HHHHHTCHHHHHHHHHHH
T ss_pred             ---CCCCHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence               7888888888888  999999999999999874

>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=97.20  E-value=0.00039  Score=70.72  Aligned_cols=94  Identities=18%  Similarity=0.150  Sum_probs=79.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+..+|.++...|++++|+.+|++++++       .+.       -...+.++|.++..+|++++|+..|++++++   
T Consensus        24 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~-------~p~-------~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---   86 (568)
T 2vsy_A           24 VAWLMLADAELGMGDTTAGEMAVQRGLAL-------HPG-------HPEAVARLGRVRWTQQRHAEAAVLLQQASDA---   86 (568)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHTT-------STT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------CCC-------CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---
Confidence            46788999999999999999999998864       222       1556788999999999999999999999854   


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                         .|.++.....++.  ++..++++.+|+.+|++|
T Consensus        87 ---~p~~~~~~~~la~--~~~~~g~~~~A~~~~~~a  117 (568)
T 2vsy_A           87 ---APEHPGIALWLGH--ALEDAGQAEAAAAAYTRA  117 (568)
T ss_dssp             ---CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             ---CCCCHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence               6777888888888  888999999999998864

>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=97.20  E-value=0.0014  Score=52.31  Aligned_cols=98  Identities=11%  Similarity=-0.029  Sum_probs=76.4

Q ss_pred             cccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCC
Q 016262          235 GMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHS  314 (392)
Q Consensus       235 ~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~  314 (392)
                      ..++..+...|++..|+.+++.+....    +..       ...+..+|.++..+|++++|+..|++++++.       +
T Consensus        13 ~~~g~~~~~~~~~~~A~~~~~~al~~~----~~~-------~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-------p   74 (137)
T 3q49_B           13 KEQGNRLFVGRKYPEAAACYGRAITRN----PLV-------AVYYTNRALCYLKMQQPEQALADCRRALELD-------G   74 (137)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC----TTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------T
T ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHhhC----cCc-------HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-------c
Confidence            344445557888888998888775542    222       3468899999999999999999999988752       2


Q ss_pred             CCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          315 NVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       315 ~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      .       ....+.++|.++..+|++++|+..|++++++-...
T Consensus        75 ~-------~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~  110 (137)
T 3q49_B           75 Q-------SVKAHFFLGQCQLEMESYDEAIANLQRAYSLAKEQ  110 (137)
T ss_dssp             T-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             h-------hHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHChhH
Confidence            2       14567889999999999999999999999887663

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.19  E-value=0.0026  Score=49.98  Aligned_cols=96  Identities=14%  Similarity=0.133  Sum_probs=72.4

Q ss_pred             hhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhc
Q 016262          233 VLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKR  312 (392)
Q Consensus       233 ~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~  312 (392)
                      .+..++..+...|++..|+.+++++...    ....       ......++.++...|++++|+.+|++++++.      
T Consensus        18 ~~~~~~~~~~~~~~~~~A~~~~~~al~~----~~~~-------~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~------   80 (133)
T 2lni_A           18 MVKNKGNECFQKGDYPQAMKHYTEAIKR----NPKD-------AKLYSNRAACYTKLLEFQLALKDCEECIQLE------   80 (133)
T ss_dssp             HHHHHHHHHHHTTCSHHHHHHHHHHHTT----CTTC-------HHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCCc-------HHHHHHHHHHHHHhccHHHHHHHHHHHHHhC------
Confidence            3344455555788888888888776432    2222       3467889999999999999999999988752      


Q ss_pred             CCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          313 HSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       313 ~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                       +.       -...+.++|.++..+|++++|+..|++++++
T Consensus        81 -~~-------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           81 -PT-------FIKGYTRKAAALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             -TT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -CC-------chHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence             21       1456778899999999999999999998854

>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=97.15  E-value=0.0013  Score=68.83  Aligned_cols=93  Identities=14%  Similarity=-0.058  Sum_probs=78.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+..++.++..+|++++|+..|++++++.       +.+       +..+.++|.++..+|++++|+..|+++++    
T Consensus       434 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-------p~~-------~~a~~~lg~~~~~~g~~~~A~~~~~~al~----  495 (681)
T 2pzi_A          434 ELPLMEVRALLDLGDVAKATRKLDDLAERV-------GWR-------WRLVWYRAVAELLTGDYDSATKHFTEVLD----  495 (681)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-------CCC-------HHHHHHHHHHHHHHTCHHHHHHHHHHHHH----
T ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHhccC-------cch-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHH----
Confidence            457788999999999999999999988652       221       55678899999999999999999999884    


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                        ..|..+.....++.  ++..++++.+ +.+|++|
T Consensus       496 --l~P~~~~~~~~lg~--~~~~~g~~~~-~~~~~~a  526 (681)
T 2pzi_A          496 --TFPGELAPKLALAA--TAELAGNTDE-HKFYQTV  526 (681)
T ss_dssp             --HSTTCSHHHHHHHH--HHHHHTCCCT-TCHHHHH
T ss_pred             --hCCCChHHHHHHHH--HHHHcCChHH-HHHHHHH
Confidence              56788888888888  8999999999 9999864

>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=97.15  E-value=0.00098  Score=56.23  Aligned_cols=116  Identities=13%  Similarity=0.119  Sum_probs=77.0

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhH
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLD  322 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~d  322 (392)
                      ..|++..|+.+++.....    .+...       ..+..+|.++...|++++|+.+|++++++.       +.+      
T Consensus        22 ~~~~~~~A~~~~~~al~~----~p~~~-------~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-------p~~------   77 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRA----NPQNS-------EQWALLGEYYLWQNDYSNSLLAYRQALQLR-------GEN------   77 (177)
T ss_dssp             -----CCCCHHHHHHHHH----CCSCH-------HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-------CSC------
T ss_pred             hccCHHHHHHHHHHHHHh----CCCcH-------HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-------CCC------
Confidence            455666666666655432    22222       367788999999999999999999888653       111      


Q ss_pred             HHHHHHHHHHH-HHhcCCH--HHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          323 VAVSLAKVADV-DRSIGNE--DVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       323 la~sl~~l~~v-~~~lg~~--~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                       ...+.++|.+ +...|++  ++|+..|++++++      .|........++.  ++..++++.+|+.+|++
T Consensus        78 -~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~------~p~~~~~~~~la~--~~~~~g~~~~A~~~~~~  140 (177)
T 2e2e_A           78 -AELYAALATVLYYQASQHMTAQTRAMIDKALAL------DSNEITALMLLAS--DAFMQANYAQAIELWQK  140 (177)
T ss_dssp             -HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHh------CCCcHHHHHHHHH--HHHHcccHHHHHHHHHH
Confidence             3345667777 7778887  8888888777743      5666666666666  77777888888877765

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.14  E-value=0.0015  Score=50.10  Aligned_cols=67  Identities=7%  Similarity=0.121  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+..+|.++...|++++|+.+|++++++       .+..       ...+.++|.++..+|++++|+..|++++++...
T Consensus         8 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~-------~p~~-------~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~   73 (100)
T 3ma5_A            8 FTRYALAQEHLKHDNASRALALFEELVET-------DPDY-------VGTYYHLGKLYERLDRTDDAIDTYAQGIEVARE   73 (100)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------STTC-------THHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------CCCc-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhc
Confidence            46788999999999999999999998875       2322       335778999999999999999999999988765


Q ss_pred             h
Q 016262          357 L  357 (392)
Q Consensus       357 l  357 (392)
                      .
T Consensus        74 ~   74 (100)
T 3ma5_A           74 E   74 (100)
T ss_dssp             H
T ss_pred             C
Confidence            4

>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=97.12  E-value=0.0039  Score=51.70  Aligned_cols=120  Identities=13%  Similarity=0.028  Sum_probs=86.0

Q ss_pred             cccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCc
Q 016262          239 DCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPS  318 (392)
Q Consensus       239 ~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~  318 (392)
                      ..+...|++..++.+++....    +.+..       ......++.++...|++++|+.+|++++++       .+.   
T Consensus        16 ~~~~~~~~~~~A~~~~~~~~~----~~~~~-------~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-------~~~---   74 (186)
T 3as5_A           16 ISHAKAGRYSQAVMLLEQVYD----ADAFD-------VDVALHLGIAYVKTGAVDRGTELLERSLAD-------APD---   74 (186)
T ss_dssp             HHHHHHTCHHHHHHHHTTTCC----TTSCC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTT---
T ss_pred             HHHHHhcCHHHHHHHHHHHHH----hCccC-------hHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-------CCC---
Confidence            333355666666666543321    11111       346788999999999999999999998876       121   


Q ss_pred             hhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          319 QVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       319 ~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                          ....+..+|.++..+|++++|+..|++++++      .|....+...++.  .+..++++.+++.+|++
T Consensus        75 ----~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~------~~~~~~~~~~~a~--~~~~~~~~~~A~~~~~~  135 (186)
T 3as5_A           75 ----NVKVATVLGLTYVQVQKYDLAVPLLIKVAEA------NPINFNVRFRLGV--ALDNLGRFDEAIDSFKI  135 (186)
T ss_dssp             ----CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             ----CHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc------CcHhHHHHHHHHH--HHHHcCcHHHHHHHHHH
Confidence                1455678899999999999999999998865      5566666666666  77788888888888875

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.10  E-value=0.0085  Score=43.80  Aligned_cols=77  Identities=25%  Similarity=0.380  Sum_probs=60.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE  355 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile  355 (392)
                      ......++.++...|++++|+.+|++++++.       +..       ...+.++|.++..+|++++|+..|++++++  
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-------~~~-------~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--   72 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-------PNN-------AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--   72 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-------CCC-------HHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--
Confidence            4567889999999999999999999998652       221       456778999999999999999999998854  


Q ss_pred             HhhcCCCchhHHHhhcc
Q 016262          356 SLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       356 ~l~~~~~~a~l~~~~~~  372 (392)
                          .|........++.
T Consensus        73 ----~p~~~~~~~~l~~   85 (91)
T 1na3_A           73 ----DPNNAEAKQNLGN   85 (91)
T ss_dssp             ----CTTCHHHHHHHHH
T ss_pred             ----CCCCHHHHHHHHH
Confidence                4555555554444

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.10  E-value=0.0039  Score=48.43  Aligned_cols=80  Identities=15%  Similarity=0.155  Sum_probs=62.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhh
Q 016262          279 LNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLT  358 (392)
Q Consensus       279 l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~  358 (392)
                      --.||...+..+++..|+..|+++++.....    ..   ..+..+..+..+|.++..+|+++.|+.+++++++      
T Consensus         8 c~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~----~~---~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~------   74 (104)
T 2v5f_A            8 CFELGKVAYTEADYYHTELWMEQALRQLDEG----EI---STIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE------   74 (104)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT----CC---CSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH------
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhhcc----CC---CcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh------
Confidence            3478999999999999999999999765321    10   1124466788999999999999999999999874      


Q ss_pred             cCCCchhHHHhhc
Q 016262          359 LKPEEAGLEQRCW  371 (392)
Q Consensus       359 ~~~~~a~l~~~~~  371 (392)
                      ..|....++.++.
T Consensus        75 l~P~~~~~~~n~~   87 (104)
T 2v5f_A           75 LDPEHQRANGNLK   87 (104)
T ss_dssp             HCTTCHHHHHHHH
T ss_pred             cCCCCHHHHhhHH
Confidence            5677766655554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.04  E-value=0.0037  Score=50.13  Aligned_cols=95  Identities=16%  Similarity=0.140  Sum_probs=71.6

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV  316 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~  316 (392)
                      .+..+...|++..|+.+++...+    +.+..    ......+.+++.++...|++++|+.+|++++++       .+.+
T Consensus        34 ~a~~~~~~~~~~~A~~~~~~a~~----~~~~~----~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-------~~~~   98 (148)
T 2dba_A           34 EGNELFKCGDYGGALAAYTQALG----LDATP----QDQAVLHRNRAACHLKLEDYDKAETEASKAIEK-------DGGD   98 (148)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHT----SCCCH----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------TSCC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHH----Hcccc----hHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh-------CccC
Confidence            34444577888888888876643    22221    224567889999999999999999999998875       2221


Q ss_pred             CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          317 PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       317 ~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                             ...+.++|.++..+|++++|+..|++++++
T Consensus        99 -------~~~~~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A           99 -------VKALYRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             -------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence                   455678899999999999999999998854

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.01  E-value=0.0042  Score=48.87  Aligned_cols=95  Identities=17%  Similarity=0.151  Sum_probs=69.5

Q ss_pred             ccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCch
Q 016262          240 CCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQ  319 (392)
Q Consensus       240 ~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~  319 (392)
                      .....|++..|+..++......    +...    ........+|.++...|++++|+..|+++++..       +.+.  
T Consensus        11 ~~~~~~~~~~A~~~~~~~~~~~----p~~~----~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-------p~~~--   73 (129)
T 2xev_A           11 DALKNGKYDDASQLFLSFLELY----PNGV----YTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-------PTHD--   73 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC----SSST----THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTST--
T ss_pred             HHHHhCCHHHHHHHHHHHHHHC----CCCc----ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-------CCCc--
Confidence            3446788888888887664432    2111    123467789999999999999999999887642       2221  


Q ss_pred             hhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          320 VLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       320 ~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                        .....+.++|.++..+|++++|+..|++++++
T Consensus        74 --~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           74 --KAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             --THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             --ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence              23566788999999999999999999988754

>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=97.01  E-value=0.0033  Score=48.98  Aligned_cols=92  Identities=20%  Similarity=0.273  Sum_probs=68.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      ....++.++...|++++|+..|+++++.       .+..       ...+..++.++...|++++|+..|++++.+    
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~-------~~~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~----   64 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALEL-------DPRS-------AEAWYNLGNAYYKQGDYDEAIEYYQKALEL----   64 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH-------CTTC-------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHc-------CCcc-------hhHHHHHHHHHHHhcCHHHHHHHHHHHHHH----
Confidence            4677889999999999999999998764       1211       445677899999999999999999998754    


Q ss_pred             hcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          358 TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       358 ~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                        .|........++.  .+..++++.+++.+|++
T Consensus        65 --~~~~~~~~~~l~~--~~~~~~~~~~A~~~~~~   94 (136)
T 2fo7_A           65 --DPRSAEAWYNLGN--AYYKQGDYDEAIEYYQK   94 (136)
T ss_dssp             --CTTCHHHHHHHHH--HHHTTTCHHHHHHHHHH
T ss_pred             --CCCchHHHHHHHH--HHHHhcCHHHHHHHHHH
Confidence              3445555555555  66667777777777654

>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=97.01  E-value=0.0021  Score=54.46  Aligned_cols=131  Identities=8%  Similarity=0.022  Sum_probs=84.5

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH-----------HHHhh
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVR-----------RDAVK  311 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~-----------~~~~~  311 (392)
                      ..|++..|+..++...+.           ...-......++.++...|++++|+..|++++...           -....
T Consensus        18 ~~g~~~~A~~~~~~al~~-----------~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A           18 QQGEHAQALNVIQTLSDE-----------LQSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HTTCHHHHHHHHHTSCHH-----------HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHH-----------CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChHHHHHHHHHHHHh
Confidence            566777777666544332           22224567888999999999999998887754321           00000


Q ss_pred             c-CCCCCchhh--------HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCc--hhHHHhhcchhHHHHHH
Q 016262          312 R-HSNVPSQVL--------DVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEE--AGLEQRCWNSSTTNFQK  380 (392)
Q Consensus       312 ~-~~~~~~~~~--------dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~--a~l~~~~~~~~~~~~l~  380 (392)
                      . ........+        +-...+.++|.++..+|++++|+..|++++      ..+|..  ......++.  ++..++
T Consensus        87 ~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l------~~~p~~~~~~a~~~l~~--~~~~~g  158 (176)
T 2r5s_A           87 QAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNIL------KVNLGAQDGEVKKTFMD--ILSALG  158 (176)
T ss_dssp             HHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH------TTCTTTTTTHHHHHHHH--HHHHHC
T ss_pred             hcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHH------HhCcccChHHHHHHHHH--HHHHhC
Confidence            0 000000001        113456678999999999999999999876      445443  446667777  888899


Q ss_pred             hhhccccchhcC
Q 016262          381 NHLNQLPKFRSA  392 (392)
Q Consensus       381 ~~~~~l~~~~~~  392 (392)
                      +..+++..|+++
T Consensus       159 ~~~~A~~~y~~a  170 (176)
T 2r5s_A          159 QGNAIASKYRRQ  170 (176)
T ss_dssp             SSCHHHHHHHHH
T ss_pred             CCCcHHHHHHHH
Confidence            999999988764

>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=96.94  E-value=0.012  Score=44.76  Aligned_cols=91  Identities=14%  Similarity=0.230  Sum_probs=68.8

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV  316 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~  316 (392)
                      ++..+...|++..++.+++.+...    .+..       ......++.++...|++++|+..|++++++.       +. 
T Consensus        10 ~~~~~~~~~~~~~A~~~~~~~~~~----~~~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-------~~-   70 (118)
T 1elw_A           10 KGNKALSVGNIDDALQCYSEAIKL----DPHN-------HVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-------PD-   70 (118)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH----CTTC-------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-------TT-
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHH----CCCc-------HHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-------cc-
Confidence            344444678888888888877543    2222       2467888999999999999999999988752       22 


Q ss_pred             CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          317 PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       317 ~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                            ....+.++|.++..+|++++|+..|+++++
T Consensus        71 ------~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           71 ------WGKGYSRKAAALEFLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             ------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             ------cHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence                  145677889999999999999999988873

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=96.94  E-value=0.0029  Score=62.07  Aligned_cols=95  Identities=16%  Similarity=0.233  Sum_probs=77.3

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          274 TLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       274 ~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      .....+..+|..+...|++++|+..|+++++..       +.        ...+.++|.++..+|++++|+..|+++++ 
T Consensus         4 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-------p~--------~~~~~~la~~~~~~g~~~~A~~~~~~al~-   67 (514)
T 2gw1_A            4 KYALALKDKGNQFFRNKKYDDAIKYYNWALELK-------ED--------PVFYSNLSACYVSVGDLKKVVEMSTKALE-   67 (514)
T ss_dssp             HHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-------CC--------HHHHHHHHHHHHHHTCHHHHHHHHHHHHH-
T ss_pred             hhHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-------cc--------HHHHHhHHHHHHHHhhHHHHHHHHHHHhc-
Confidence            345678889999999999999999999988763       22        45678889999999999999999998885 


Q ss_pred             HHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          354 LESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       354 le~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                           ..|........++.  ++..++++.+|+.+|++
T Consensus        68 -----~~p~~~~~~~~l~~--~~~~~g~~~~A~~~~~~   98 (514)
T 2gw1_A           68 -----LKPDYSKVLLRRAS--ANEGLGKFADAMFDLSV   98 (514)
T ss_dssp             -----HCSCCHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             -----cChHHHHHHHHHHH--HHHHHhhHHHHHHHHHH
Confidence                 36777777777777  88888888888888765

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=96.89  E-value=0.015  Score=44.50  Aligned_cols=106  Identities=25%  Similarity=0.435  Sum_probs=75.2

Q ss_pred             ccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCC
Q 016262          236 MLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSN  315 (392)
Q Consensus       236 ~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~  315 (392)
                      .++..+...|++..|+.++++....    .+..       ......++.++...|++++|+..|++++++       .+.
T Consensus        14 ~~~~~~~~~~~~~~A~~~~~~~~~~----~~~~-------~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-------~~~   75 (125)
T 1na0_A           14 NLGNAYYKQGDYDEAIEYYQKALEL----DPNN-------AEAWYNLGNAYYKQGDYDEAIEYYQKALEL-------DPN   75 (125)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH----CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH----CcCc-------HHHHHHHHHHHHHhCCHHHHHHHHHHHHHh-------CCc
Confidence            3444444678888888888777543    1211       235778899999999999999999998864       121


Q ss_pred             CCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcc
Q 016262          316 VPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       316 ~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~  372 (392)
                      .       ...+..++.++..+|++++|+..|++++++      .|........++.
T Consensus        76 ~-------~~~~~~la~~~~~~~~~~~A~~~~~~~~~~------~~~~~~~~~~l~~  119 (125)
T 1na0_A           76 N-------AEAWYNLGNAYYKQGDYDEAIEYYQKALEL------DPNNAEAKQNLGN  119 (125)
T ss_dssp             C-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------CTTCHHHHHHHHH
T ss_pred             c-------HHHHHHHHHHHHHhcCHHHHHHHHHHHHHh------CCCcHHHHHHHHH
Confidence            1       345678899999999999999999988754      4555544444433

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.83  E-value=0.0079  Score=45.17  Aligned_cols=59  Identities=19%  Similarity=0.152  Sum_probs=48.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          281 KIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAV-SLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       281 ~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~-sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      +.+..+...|++++|+..|++++++       .+..       .. .+.++|.++..+|++++|+..|++++++
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~al~~-------~p~~-------~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            5 KTIKELINQGDIENALQALEEFLQT-------EPVG-------KDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH-------CSST-------HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH-------CCCc-------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            4677788889999999999998864       2221       34 6788999999999999999999999854

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.83  E-value=0.00076  Score=49.54  Aligned_cols=45  Identities=24%  Similarity=0.674  Sum_probs=37.5

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC------CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK------DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~------~CP~C~~~~~~  132 (392)
                      ..-.|.||.+++.....+..|+|.|=..||.+|+      .||+|+.....
T Consensus        14 ~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            4578999999998666677999999999999994      49999986543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=96.81  E-value=0.0057  Score=46.21  Aligned_cols=97  Identities=20%  Similarity=0.091  Sum_probs=71.7

Q ss_pred             hhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhc
Q 016262          233 VLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKR  312 (392)
Q Consensus       233 ~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~  312 (392)
                      .+..++......|++..|+.+++.+.+.    ....       ......++.++...|++++|+..|++++++.      
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~------   70 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQL----DPEE-------SKYWLMKGKALYNLERYEEAVDCYNYVINVI------   70 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHH----CCCC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS------
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHh----CcCC-------HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC------
Confidence            3344555555788889999888877543    2222       2356789999999999999999999988651      


Q ss_pred             CCCCCchhhHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHH
Q 016262          313 HSNVPSQVLDVAVSLAKVADVDRSI-GNEDVAVDGFQEAIK  352 (392)
Q Consensus       313 ~~~~~~~~~dla~sl~~l~~v~~~l-g~~~~A~~~~~~al~  352 (392)
                       +.     ......+.++|.++..+ |++++|+.+|++++.
T Consensus        71 -~~-----~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           71 -ED-----EYNKDVWAAKADALRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             -CC-----TTCHHHHHHHHHHHTTCSSCSHHHHHHHHHHGG
T ss_pred             -cc-----cchHHHHHHHHHHHHHHhCCHHHHHHHHHHHhh
Confidence             21     00145678899999999 999999999988763

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=96.73  E-value=0.0016  Score=51.94  Aligned_cols=89  Identities=9%  Similarity=-0.016  Sum_probs=67.8

Q ss_pred             ccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCch
Q 016262          240 CCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQ  319 (392)
Q Consensus       240 ~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~  319 (392)
                      .....|++.+|+..++.+...    .+..       ...+..+|.++...|++++|+..|++++++       .+..   
T Consensus        26 ~~~~~g~~~~A~~~~~~al~~----~P~~-------~~a~~~lg~~~~~~g~~~~A~~~~~~al~l-------~P~~---   84 (121)
T 1hxi_A           26 SMLKLANLAEAALAFEAVCQK----EPER-------EEAWRSLGLTQAENEKDGLAIIALNHARML-------DPKD---   84 (121)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH----STTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTTC---
T ss_pred             HHHHcCCHHHHHHHHHHHHHH----CCCC-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------CCCC---
Confidence            334678888888888766543    2322       346788999999999999999999988865       2322   


Q ss_pred             hhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          320 VLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       320 ~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                          ...+.++|.++..+|++++|+..|++++++
T Consensus        85 ----~~~~~~la~~~~~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           85 ----IAVHAALAVSHTNEHNANAALASLRAWLLS  114 (121)
T ss_dssp             ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             ----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                445678899999999999999999998754

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.64  E-value=0.0072  Score=46.94  Aligned_cols=67  Identities=12%  Similarity=0.097  Sum_probs=56.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+..+|.++...|++++|+.+|++++++       .+.       ....+.++|.++..+|++++|+..|++++++...
T Consensus        20 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~-------~p~-------~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~   85 (115)
T 2kat_A           20 LLRFTLGKTYAEHEQFDAALPHLRAALDF-------DPT-------YSVAWKWLGKTLQGQGDRAGARQAWESGLAAAQS   85 (115)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTT-------CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHH-------CCC-------cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccc
Confidence            46789999999999999999999999865       222       1456788999999999999999999999987655


Q ss_pred             h
Q 016262          357 L  357 (392)
Q Consensus       357 l  357 (392)
                      .
T Consensus        86 ~   86 (115)
T 2kat_A           86 R   86 (115)
T ss_dssp             H
T ss_pred             c
Confidence            4

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=96.64  E-value=0.02  Score=50.33  Aligned_cols=170  Identities=13%  Similarity=-0.017  Sum_probs=101.3

Q ss_pred             HHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCC
Q 016262          188 QQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMD  267 (392)
Q Consensus       188 c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~  267 (392)
                      ..+...+..|++++|...+.....       ..+...    .....+.+++......|++..|+..++...+..    +.
T Consensus         9 ~~a~~~~~~g~~~~A~~~~~~~~~-------~~p~~~----~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~----P~   73 (225)
T 2yhc_A            9 ATAQQKLQDGNWRQAITQLEALDN-------RYPFGP----YSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN----PT   73 (225)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH-------HCTTST----THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----TT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH-------hCCCCh----HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC----cC
Confidence            345567889999999999873321       112111    011234455666667899999998888765432    22


Q ss_pred             chHHHHHHHHHHHHHHHHHHh------------------cCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhh--------
Q 016262          268 DLEIIHTLSVSLNKIGDLKYY------------------GGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVL--------  321 (392)
Q Consensus       268 ~~e~~~~l~~~l~~lg~l~~~------------------~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~--------  321 (392)
                      ...    ...++-.+|.++..                  .|++++|+..|++.+       +..+.......        
T Consensus        74 ~~~----~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l-------~~~P~~~~a~~a~~~l~~~  142 (225)
T 2yhc_A           74 HPN----IDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLV-------RGYPNSQYTTDATKRLVFL  142 (225)
T ss_dssp             CTT----HHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHH-------TTCTTCTTHHHHHHHHHHH
T ss_pred             CCc----HHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHH-------HHCcCChhHHHHHHHHHHH
Confidence            221    12234444444433                  456666666666544       44444432110        


Q ss_pred             --HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCch---hHHHhhcchhHHHHHHhhhccccchhc
Q 016262          322 --DVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEA---GLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       322 --dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a---~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                        .++...-.+|.++..+|++.+|+..|++++++      .|...   ..+..++.  .+..++++..++.+|+.
T Consensus       143 ~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~------~p~~~~~~~a~~~l~~--~~~~~g~~~~A~~~~~~  209 (225)
T 2yhc_A          143 KDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRD------YPDTQATRDALPLMEN--AYRQMQMNAQAEKVAKI  209 (225)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH------STTSHHHHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHH------CcCCCccHHHHHHHHH--HHHHcCCcHHHHHHHHH
Confidence              11111234678889999999999999988754      33332   44556666  78888998888888764

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=96.63  E-value=0.0034  Score=58.02  Aligned_cols=99  Identities=10%  Similarity=0.009  Sum_probs=78.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHH------
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEA------  350 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~a------  350 (392)
                      ..+-.++..+...|++++|+..|+++++.       .+.+       +..+..+|.++..+|++++|+..|+++      
T Consensus       118 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~-------~P~~-------~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~  183 (287)
T 3qou_A          118 ELXAQQAMQLMQESNYTDALPLLXDAWQL-------SNQN-------GEIGLLLAETLIALNRSEDAEAVLXTIPLQDQD  183 (287)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------TTSC-------HHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCS
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHh-------CCcc-------hhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcc
Confidence            34567888888999999999999988754       3332       445778889999999999999888774      


Q ss_pred             ---------------------HHHHHHh-hcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          351 ---------------------IKRLESL-TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       351 ---------------------l~ile~l-~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                                           ++.++.. ..+|++..+...++.  ++...+++..|+..|++
T Consensus       184 ~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~--~l~~~g~~~~A~~~l~~  244 (287)
T 3qou_A          184 TRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLAL--QLHQVGRNEEALELLFG  244 (287)
T ss_dssp             HHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHH--HHHHcccHHHHHHHHHH
Confidence                                 3344444 778899988888888  88899999999988875

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=96.51  E-value=0.008  Score=53.00  Aligned_cols=129  Identities=11%  Similarity=0.001  Sum_probs=73.1

Q ss_pred             ccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCc-
Q 016262          240 CCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPS-  318 (392)
Q Consensus       240 ~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~-  318 (392)
                      .....|++.+|+..++......    +...    .....+..+|.++...|++++|+..|++.++.       .+.+.. 
T Consensus        13 ~~~~~g~~~~A~~~~~~~~~~~----p~~~----~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~-------~P~~~~~   77 (225)
T 2yhc_A           13 QKLQDGNWRQAITQLEALDNRY----PFGP----YSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL-------NPTHPNI   77 (225)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC----TTST----THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTTCTTH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC----CCCh----HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH-------CcCCCcH
Confidence            3346788888888887665431    1111    12346788999999999999999999988753       333331 


Q ss_pred             --hhhHHHHHHHH-----------HHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHH-----------------H
Q 016262          319 --QVLDVAVSLAK-----------VADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLE-----------------Q  368 (392)
Q Consensus       319 --~~~dla~sl~~-----------l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~-----------------~  368 (392)
                        ..+.++.++..           ++.++..+|++++|+..|++++      ...|......                 .
T Consensus        78 ~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l------~~~P~~~~a~~a~~~l~~~~~~~~~~~~  151 (225)
T 2yhc_A           78 DYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLV------RGYPNSQYTTDATKRLVFLKDRLAKYEY  151 (225)
T ss_dssp             HHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHH------TTCTTCTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHH------HHCcCChhHHHHHHHHHHHHHHHHHHHH
Confidence              12223333322           2233334566777777666655      4444443221                 1


Q ss_pred             hhcchhHHHHHHhhhccccchhc
Q 016262          369 RCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       369 ~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      .++.  .+...+++..|+..|++
T Consensus       152 ~~a~--~~~~~~~~~~A~~~~~~  172 (225)
T 2yhc_A          152 SVAE--YYTERGAWVAVVNRVEG  172 (225)
T ss_dssp             HHHH--HHHHHTCHHHHHHHHHH
T ss_pred             HHHH--HHHHcCcHHHHHHHHHH
Confidence            1222  45566777777777764

>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=96.50  E-value=0.002  Score=56.73  Aligned_cols=53  Identities=23%  Similarity=0.251  Sum_probs=29.6

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcC----CHHHHHHHHHHHH
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGG----DLQAARSYYVRSL  303 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g----~l~~A~~~~e~aL  303 (392)
                      ++..+...+++.+|+.+++.+.+.    .  .       ..+..+||.++.. +    ++++|+.+|++++
T Consensus        24 lg~~~~~~~~~~~A~~~~~~a~~~----g--~-------~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A           24 LADTWVSSGDYQKAEYWAQKAAAQ----G--D-------GDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHT----T--C-------HHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHHc----C--C-------HHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            333333456666676666655331    1  1       2345666666655 5    6777777777664

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=96.32  E-value=0.003  Score=58.68  Aligned_cols=120  Identities=13%  Similarity=-0.029  Sum_probs=81.2

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV  316 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~  316 (392)
                      ++.+....|++..|+..++.         +...       .....++.++..+|++++|+..|++++++.       +..
T Consensus       107 la~~~~~~g~~~~Al~~l~~---------~~~~-------~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~-------p~~  163 (291)
T 3mkr_A          107 AASIYFYDQNPDAALRTLHQ---------GDSL-------ECMAMTVQILLKLDRLDLARKELKKMQDQD-------EDA  163 (291)
T ss_dssp             HHHHHHHTTCHHHHHHHHTT---------CCSH-------HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TTC
T ss_pred             HHHHHHHCCCHHHHHHHHhC---------CCCH-------HHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-------cCc
Confidence            33444466777777766654         2222       356778889999999999999999887651       221


Q ss_pred             CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          317 PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       317 ~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .  ...++..+   ..+....|++++|+..|+++++      ..|.++.+...++.  .+..++++.+|+.+|++|
T Consensus       164 ~--~~~l~~a~---~~l~~~~~~~~eA~~~~~~~l~------~~p~~~~~~~~la~--~~~~~g~~~eA~~~l~~a  226 (291)
T 3mkr_A          164 T--LTQLATAW---VSLAAGGEKLQDAYYIFQEMAD------KCSPTLLLLNGQAA--CHMAQGRWEAAEGVLQEA  226 (291)
T ss_dssp             H--HHHHHHHH---HHHHHCTTHHHHHHHHHHHHHH------HSCCCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             H--HHHHHHHH---HHHHhCchHHHHHHHHHHHHHH------hCCCcHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            1  11122111   1223345888888888888774      47888888888888  889999999999998864

>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=96.25  E-value=0.0045  Score=52.30  Aligned_cols=97  Identities=14%  Similarity=-0.037  Sum_probs=69.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH------
Q 016262          279 LNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK------  352 (392)
Q Consensus       279 l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~------  352 (392)
                      .-.++..+...|++++|+..|++++++.-.              -...+..+|.++..+|++++|+..|++++.      
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~--------------~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~   74 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQS--------------RGDVKLAKADCLLETKQFELAQELLATIPLEYQDNS   74 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHT--------------SHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCC--------------cHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChH
Confidence            456677888899999999999988764321              144567788888888888888877765432      


Q ss_pred             ---------------------HHHHh-hcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          353 ---------------------RLESL-TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       353 ---------------------ile~l-~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                                           .++.. ...|.+......++.  ++..++++.+++.+|++
T Consensus        75 ~~~~~~~~~~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~--~~~~~g~~~~A~~~~~~  133 (176)
T 2r5s_A           75 YKSLIAKLELHQQAAESPELKRLEQELAANPDNFELACELAV--QYNQVGRDEEALELLWN  133 (176)
T ss_dssp             HHHHHHHHHHHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccchHHHHHHHHHHhCCCCHHHHHHHHH--HHHHcccHHHHHHHHHH
Confidence                                 22222 456777777777777  78888888888888765

>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=96.21  E-value=0.031  Score=46.69  Aligned_cols=95  Identities=14%  Similarity=0.186  Sum_probs=71.2

Q ss_pred             hhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHH-HHhcCCH--HHHHHHHHHHHHHHHHH
Q 016262          233 VLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDL-KYYGGDL--QAARSYYVRSLNVRRDA  309 (392)
Q Consensus       233 ~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l-~~~~g~l--~~A~~~~e~aL~i~~~~  309 (392)
                      .+..++.++...|++..|+.+++.+.....    ..       ......++.+ +...|++  ++|+..|++++++    
T Consensus        46 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~p----~~-------~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~----  110 (177)
T 2e2e_A           46 QWALLGEYYLWQNDYSNSLLAYRQALQLRG----EN-------AELYAALATVLYYQASQHMTAQTRAMIDKALAL----  110 (177)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHC----SC-------HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCC----CC-------HHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHh----
Confidence            344455556678899999999887765432    22       2356788888 7788998  9999999988865    


Q ss_pred             hhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          310 VKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       310 ~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                         .+..       ...+..+|.++..+|++++|+..|+++++
T Consensus       111 ---~p~~-------~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          111 ---DSNE-------ITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             ---CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ---CCCc-------HHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence               2221       34567889999999999999999999874

>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=96.04  E-value=0.0072  Score=53.01  Aligned_cols=58  Identities=17%  Similarity=0.094  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcC----CHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIG----NEDVAVDGFQEAI  351 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg----~~~~A~~~~~~al  351 (392)
                      .+...||.++...+++++|+.+|+++++.                +.+.++.+||.++.. |    ++++|+.+|+++.
T Consensus        19 ~a~~~lg~~~~~~~~~~~A~~~~~~a~~~----------------g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A           19 RAQYYLADTWVSSGDYQKAEYWAQKAAAQ----------------GDGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHT----------------TCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHHc----------------CCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            46788999999999999999999998752                013344555555555 4    5555555555553

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=95.95  E-value=0.0076  Score=45.86  Aligned_cols=61  Identities=8%  Similarity=-0.086  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          324 AVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       324 a~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +..+.++|.++..+|++++|+..|++++++      .|..+.+...++.  ++..++++.+++.+|++|
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~------~p~~~~~~~~lg~--~~~~~g~~~~A~~~~~~a   64 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITA------QPQNPVGYSNKAM--ALIKLGEYTQAIQMCQQG   64 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc------CCCCHHHHHHHHH--HHHHhcCHHHHHHHHHHH
Confidence            456788999999999999999999999854      6777788888888  888999999999988764

>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=95.95  E-value=0.015  Score=64.89  Aligned_cols=132  Identities=14%  Similarity=0.065  Sum_probs=82.1

Q ss_pred             cccccccchhHHHhHHHHHHHHH---HhCCCCchHHHH--------HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          239 DCCRAMGDADAAVAYFADSVEFL---MKLPMDDLEIIH--------TLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRR  307 (392)
Q Consensus       239 ~~C~~~gdhh~a~~~~e~~~~~~---~~L~~~~~e~~~--------~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~  307 (392)
                      .+|..+|.+.+|..+|+......   ..+-.....+.+        .....+.++|..+...|++++|+..|+++     
T Consensus      1057 ~Iai~lglyEEAf~IYkKa~~~~~A~~VLie~i~nldrAiE~Aervn~p~vWsqLAKAql~~G~~kEAIdsYiKA----- 1131 (1630)
T 1xi4_A         1057 NIAISNELFEEAFAIFRKFDVNTSAVQVLIEHIGNLDRAYEFAERCNEPAVWSQLAKAQLQKGMVKEAIDSYIKA----- 1131 (1630)
T ss_pred             HHHHhCCCHHHHHHHHHHcCCHHHHHHHHHHHHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCHHHHHHHHHhc-----
Confidence            35666777788877777652111   111111111222        12345778899999999999999999764     


Q ss_pred             HHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH-------------------h---hcCCCchh
Q 016262          308 DAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES-------------------L---TLKPEEAG  365 (392)
Q Consensus       308 ~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~-------------------l---~~~~~~a~  365 (392)
                             ..       ...+.+++.+...+|++++|+.+|+.|++..+.                   +   -..+..+.
T Consensus      1132 -------dD-------~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~~Idt~LafaYAKl~rleele~fI~~~n~ad 1197 (1630)
T 1xi4_A         1132 -------DD-------PSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFINGPNNAH 1197 (1630)
T ss_pred             -------CC-------hHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCHHHHHHHHhCCCHHH
Confidence                   11       445566889999999999999999887754411                   1   11222222


Q ss_pred             HHHhhcchhHHHHHHhhhccccchhcC
Q 016262          366 LEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       366 l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +. .++.  .+...++|..|+.+|++|
T Consensus      1198 ~~-~iGd--~le~eg~YeeA~~~Y~kA 1221 (1630)
T 1xi4_A         1198 IQ-QVGD--RCYDEKMYDAAKLLYNNV 1221 (1630)
T ss_pred             HH-HHHH--HHHhcCCHHHHHHHHHhh
Confidence            22 2333  666777778888887764

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=95.86  E-value=0.0074  Score=46.10  Aligned_cols=61  Identities=11%  Similarity=0.091  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          324 AVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       324 a~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ...+.++|.++..+|++++|+..|+++++      ..|........++.  .+..++++.+|+.+|++|
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~------~~p~~~~a~~~lg~--~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVE------TDPDYVGTYYHLGK--LYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH------HSTTCTHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH------hCCCcHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            45677899999999999999999999985      46777777778888  889999999999998864

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=95.86  E-value=0.019  Score=44.47  Aligned_cols=61  Identities=11%  Similarity=-0.010  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          324 AVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       324 a~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ...+.++|.++..+|++++|+..|++++++      .|........++.  ++..++++.+++.+|++|
T Consensus        19 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~------~p~~~~~~~~la~--~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A           19 MLLRFTLGKTYAEHEQFDAALPHLRAALDF------DPTYSVAWKWLGK--TLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHH------CCCcHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            456788999999999999999999998854      5677777777777  888899999999988764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=95.60  E-value=0.24  Score=45.51  Aligned_cols=119  Identities=10%  Similarity=0.058  Sum_probs=63.7

Q ss_pred             hHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCH-------HHHHHHHHHHHHHHHHHhhcCCCCCchh
Q 016262          248 DAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDL-------QAARSYYVRSLNVRRDAVKRHSNVPSQV  320 (392)
Q Consensus       248 h~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l-------~~A~~~~e~aL~i~~~~~~~~~~~~~~~  320 (392)
                      .+|+..++++...    .+...++...+...+...+......|++       ++|+..|+++++.      -.+..    
T Consensus        33 ~~a~~~~~~al~~----~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~------~~p~~----   98 (308)
T 2ond_A           33 KRVMFAYEQCLLV----LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST------LLKKN----   98 (308)
T ss_dssp             HHHHHHHHHHHHH----HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTT------TTTTC----
T ss_pred             HHHHHHHHHHHHH----cCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHH------hCccc----
Confidence            3455555555433    2334444444444443333333456776       5666666665541      12221    


Q ss_pred             hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchh-HHHhhcchhHHHHHHhhhccccchhc
Q 016262          321 LDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAG-LEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       321 ~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~-l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                         .....+++.++..+|++++|+..|+++++      ..|.+.. +...++.  .+..++++..++..|++
T Consensus        99 ---~~~~~~~~~~~~~~~~~~~A~~~~~~al~------~~p~~~~~~~~~~~~--~~~~~~~~~~A~~~~~~  159 (308)
T 2ond_A           99 ---MLLYFAYADYEESRMKYEKVHSIYNRLLA------IEDIDPTLVYIQYMK--FARRAEGIKSGRMIFKK  159 (308)
T ss_dssp             ---HHHHHHHHHHHHHTTCHHHHHHHHHHHHT------SSSSCTHHHHHHHHH--HHHHHHCHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHhcCCHHHHHHHHHHHHh------ccccCccHHHHHHHH--HHHHhcCHHHHHHHHHH
Confidence               33456677777888888888888887774      3444443 3334444  44455666666665554

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=95.50  E-value=0.0044  Score=48.14  Aligned_cols=31  Identities=19%  Similarity=0.538  Sum_probs=26.4

Q ss_pred             Cceeccccccc-cccCcee--cccCcHhHHHhHHh
Q 016262           88 GPLSCMICQAL-LFECSKC--TPCSHVYCKACISR  119 (392)
Q Consensus        88 ~~~~C~iC~~~-~~~~p~~--~~C~h~fC~~Ci~~  119 (392)
                      +++.|+||.+. +. +++.  +.|+|+||..|+..
T Consensus         2 ee~~C~~C~~~~~~-~av~~C~~C~~~~C~~Cl~~   35 (101)
T 2jun_A            2 EKVLCQFCDQDPAQ-DAVKTCVTCEVSYCDECLKA   35 (101)
T ss_dssp             CCCBCTTCCSSSCC-BCCEEETTTTEEECHHHHHH
T ss_pred             CCCCCcCCCCCCCC-CceEECCcCChHHhHHHCHH
Confidence            46889999975 45 7777  99999999999997

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=95.35  E-value=0.022  Score=41.49  Aligned_cols=62  Identities=18%  Similarity=0.150  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          323 VAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       323 la~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .+..+..+|.++..+|++++|+..|++++++      .|........++.  ++..++++.+++.+|++|
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~------~~~~~~~~~~l~~--~~~~~~~~~~A~~~~~~a   69 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALEL------DPNNAEAWYNLGN--AYYKQGDYDEAIEYYQKA   69 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhc------CCCCHHHHHHHHH--HHHHHhhHHHHHHHHHHH
Confidence            3566788999999999999999999999854      5666667777777  888889999999888763

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=95.21  E-value=0.036  Score=54.81  Aligned_cols=48  Identities=10%  Similarity=0.055  Sum_probs=27.0

Q ss_pred             ccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHh----cCCHHHHHHHHHHHHH
Q 016262          244 MGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYY----GGDLQAARSYYVRSLN  304 (392)
Q Consensus       244 ~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~----~g~l~~A~~~~e~aL~  304 (392)
                      .++..+|+.+++.+.+.    .  .       ......||.++..    .+++++|+.+|+++++
T Consensus        92 ~~~~~~A~~~~~~a~~~----~--~-------~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~  143 (490)
T 2xm6_A           92 PQDYAQAVIWYKKAALK----G--L-------PQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAE  143 (490)
T ss_dssp             CCCHHHHHHHHHHHHHT----T--C-------HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHC----C--C-------HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            45566677666655321    1  1       1234556666665    5666666666666543

>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=95.00  E-value=0.79  Score=38.47  Aligned_cols=80  Identities=15%  Similarity=0.174  Sum_probs=48.2

Q ss_pred             HHHHHHHHHHHhcCCH---HHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcC-----------CHHH
Q 016262          277 VSLNKIGDLKYYGGDL---QAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIG-----------NEDV  342 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l---~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg-----------~~~~  342 (392)
                      ..+.++|.++..++++   .+|+..+++++...+.+++-.+..       +..+.++|.++..+|           ++++
T Consensus        37 ea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~-------~~A~~~LG~ay~~lg~l~P~~~~a~g~~~e  109 (158)
T 1zu2_A           37 DNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKK-------DEAVWCIGNAYTSFAFLTPDETEAKHNFDL  109 (158)
T ss_dssp             HHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTC-------HHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCc-------HHHHHHHHHHHHHhcccCcchhhhhccHHH
Confidence            4566777777666554   345566666666666666666654       445666777776664           5566


Q ss_pred             HHHHHHHHHHHHHHhhcCCCchhHHHh
Q 016262          343 AVDGFQEAIKRLESLTLKPEEAGLEQR  369 (392)
Q Consensus       343 A~~~~~~al~ile~l~~~~~~a~l~~~  369 (392)
                      |+.+|++|+      ...|.+....+.
T Consensus       110 A~~~~~kAl------~l~P~~~~y~~a  130 (158)
T 1zu2_A          110 ATQFFQQAV------DEQPDNTHYLKS  130 (158)
T ss_dssp             HHHHHHHHH------HHCTTCHHHHHH
T ss_pred             HHHHHHHHH------HhCCCCHHHHHH
Confidence            666666655      556665544433

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster}

Probab=94.68  E-value=0.0045  Score=58.44  Aligned_cols=45  Identities=24%  Similarity=0.636  Sum_probs=34.8

Q ss_pred             CceeccccccccccCce-------ecccCcHhHHHhHHhcC---------------CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSK-------CTPCSHVYCKACISRFK---------------DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~-------~~~C~h~fC~~Ci~~~~---------------~CP~C~~~~~~  132 (392)
                      +...|+||..++.+...       ...|+|.|-..||.+|.               .||.|+.+++.
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             CCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            45789999999774122       23799999999999983               39999987654

>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=94.65  E-value=0.084  Score=58.97  Aligned_cols=169  Identities=17%  Similarity=0.123  Sum_probs=100.7

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHH---HHHhcCCC---hHHHHHH--HhhhcccccccccccchhHHHhHHHHHHHHH
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRD---QIERMGNT---SELCSQL--GAVLGMLGDCCRAMGDADAAVAYFADSVEFL  261 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~---~l~~~~~~---~~~C~~h--~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~  261 (392)
                      |.-+...|.+++|...+..+......   .+.....-   .+.....  ...+..+|..+...|++.+|+..|..+    
T Consensus      1056 A~Iai~lglyEEAf~IYkKa~~~~~A~~VLie~i~nldrAiE~Aervn~p~vWsqLAKAql~~G~~kEAIdsYiKA---- 1131 (1630)
T 1xi4_A         1056 ANIAISNELFEEAFAIFRKFDVNTSAVQVLIEHIGNLDRAYEFAERCNEPAVWSQLAKAQLQKGMVKEAIDSYIKA---- 1131 (1630)
T ss_pred             HHHHHhCCCHHHHHHHHHHcCCHHHHHHHHHHHHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCHHHHHHHHHhc----
Confidence            44577888889998888766544332   11111110   0122111  334445666666778888888888543    


Q ss_pred             HhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH---------hhcCCCCCchh---h---HHHHH
Q 016262          262 MKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDA---------VKRHSNVPSQV---L---DVAVS  326 (392)
Q Consensus       262 ~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~---------~~~~~~~~~~~---~---dla~s  326 (392)
                           ..       .....+++......|++++|+.+|..+.+..++.         ..+. ......   .   .. ..
T Consensus      1132 -----dD-------~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~~Idt~LafaYAKl-~rleele~fI~~~n~-ad 1197 (1630)
T 1xi4_A         1132 -----DD-------PSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKT-NRLAELEEFINGPNN-AH 1197 (1630)
T ss_pred             -----CC-------hHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccccccHHHHHHHHhh-cCHHHHHHHHhCCCH-HH
Confidence                 11       1244568888999999999999998877654221         0000 000000   0   11 23


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          327 LAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       327 l~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +.++|+.+..+|++++|+.+|..+-              .-.+++.  ++-.+++++.|++.|++|
T Consensus      1198 ~~~iGd~le~eg~YeeA~~~Y~kA~--------------ny~rLA~--tLvkLge~q~AIEaarKA 1247 (1630)
T 1xi4_A         1198 IQQVGDRCYDEKMYDAAKLLYNNVS--------------NFGRLAS--TLVHLGEYQAAVDGARKA 1247 (1630)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhh--------------HHHHHHH--HHHHhCCHHHHHHHHHHh
Confidence            4568999999999999999999862              1223333  556667777777777654

>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=94.47  E-value=0.059  Score=43.77  Aligned_cols=85  Identities=11%  Similarity=-0.007  Sum_probs=65.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHHHHHh
Q 016262          282 IGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRS----IGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       282 lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~----lg~~~~A~~~~~~al~ile~l  357 (392)
                      ||.++...+.+++|+.+|+++.+.                ..+.+..+||.++..    .+++++|+.+|+++.+.    
T Consensus        31 lg~~y~~g~~~~~A~~~~~~Aa~~----------------g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~----   90 (138)
T 1klx_A           31 LSLVSNSQINKQKLFQYLSKACEL----------------NSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGL----   90 (138)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHHHHT----------------TCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT----
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHcC----------------CCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcC----
Confidence            888888888889999999888753                115677889999888    89999999999998743    


Q ss_pred             hcCCCchhHHHhhcchhHHHH----HHhhhccccchhcC
Q 016262          358 TLKPEEAGLEQRCWNSSTTNF----QKNHLNQLPKFRSA  392 (392)
Q Consensus       358 ~~~~~~a~l~~~~~~~~~~~~----l~~~~~~l~~~~~~  392 (392)
                          .++.....++.  .+..    .+++.+++.+|++|
T Consensus        91 ----g~~~a~~~Lg~--~y~~G~g~~~d~~~A~~~~~~A  123 (138)
T 1klx_A           91 ----NDQDGCLILGY--KQYAGKGVVKNEKQAVKTFEKA  123 (138)
T ss_dssp             ----TCHHHHHHHHH--HHHHTSSSCCCHHHHHHHHHHH
T ss_pred             ----CCHHHHHHHHH--HHHCCCCCCcCHHHHHHHHHHH
Confidence                34444555665  6655    67888888888764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=94.37  E-value=0.64  Score=42.59  Aligned_cols=139  Identities=9%  Similarity=0.085  Sum_probs=74.3

Q ss_pred             ccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH---------H
Q 016262          238 GDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRR---------D  308 (392)
Q Consensus       238 C~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~---------~  308 (392)
                      +......|++..|..+++.+.+    +.+...+      ....+++.+....|++++|+..|+++++.-.         .
T Consensus       106 ~~~~~~~~~~~~A~~~~~~al~----~~p~~~~------~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~a  175 (308)
T 2ond_A          106 ADYEESRMKYEKVHSIYNRLLA----IEDIDPT------LVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAA  175 (308)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHT----SSSSCTH------HHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHHHh----ccccCcc------HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            3333356777888888877654    3333321      1567778888888999999999998875310         0


Q ss_pred             Hhh----cCCCCCchhhH--------HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCC-chhHHHhhcchhH
Q 016262          309 AVK----RHSNVPSQVLD--------VAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPE-EAGLEQRCWNSST  375 (392)
Q Consensus       309 ~~~----~~~~~~~~~~d--------la~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~-~a~l~~~~~~~~~  375 (392)
                      ..+    ...+.....++        -...+.+++.++..+|++++|+..|++++...   ...|. ...+...+..  .
T Consensus       176 ~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~---~l~p~~~~~l~~~~~~--~  250 (308)
T 2ond_A          176 LMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG---SLPPEKSGEIWARFLA--F  250 (308)
T ss_dssp             HHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSS---SSCGGGCHHHHHHHHH--H
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcc---CCCHHHHHHHHHHHHH--H
Confidence            000    00000000000        12334455666666777777777777665210   12332 3334444444  4


Q ss_pred             HHHHHhhhccccchhc
Q 016262          376 TNFQKNHLNQLPKFRS  391 (392)
Q Consensus       376 ~~~l~~~~~~l~~~~~  391 (392)
                      ....++...++.++++
T Consensus       251 ~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          251 ESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHSCHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHH
Confidence            5556666666666554

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=94.29  E-value=0.024  Score=39.59  Aligned_cols=43  Identities=23%  Similarity=0.599  Sum_probs=33.4

Q ss_pred             CceeccccccccccCceecccCc-----HhHHHhHHhc------CCCCCCCcCCc
Q 016262           88 GPLSCMICQALLFECSKCTPCSH-----VYCKACISRF------KDCPLCGADIE  131 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h-----~fC~~Ci~~~------~~CP~C~~~~~  131 (392)
                      +...|.||+.... ++.++||..     .|=..|+.+|      ..||+|+..+.
T Consensus         5 ~~~~CrIC~~~~~-~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            5 DVPVCWICNEELG-NERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECS-CCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCEeEEeecCCC-CceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            4568999998854 677899653     6778899998      35999998764

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=94.25  E-value=0.09  Score=48.73  Aligned_cols=128  Identities=16%  Similarity=-0.025  Sum_probs=82.4

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCch
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDL  269 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~  269 (392)
                      +.-....|++++|...+.....          ..    +.+- .....+.++...+++.+++.+++..    ....  ..
T Consensus       109 A~~L~~~g~y~eA~~~l~~~~~----------~~----p~~~-~~~~~a~l~~~~~r~~dA~~~l~~a----~~~~--d~  167 (282)
T 4f3v_A          109 AACEAAQGNYADAMEALEAAPV----------AG----SEHL-VAWMKAVVYGAAERWTDVIDQVKSA----GKWP--DK  167 (282)
T ss_dssp             HHHHHHHTCHHHHHHHHTSSCC----------TT----CHHH-HHHHHHHHHHHTTCHHHHHHHHTTG----GGCS--CH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHh----------cC----CchH-HHHHHHHHHHHcCCHHHHHHHHHHh----hccC--Cc
Confidence            3345678899999988863321          00    1111 2233334565778888888777522    1111  11


Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 016262          270 EIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQE  349 (392)
Q Consensus       270 e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~  349 (392)
                       .  .-....-.+|.+...+|++++|+.+|++++.      ...  .+..   ....+-++|.++..+|+.++|+..|++
T Consensus       168 -~--~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~------g~~--~P~~---~~da~~~~glaL~~lGr~deA~~~l~~  233 (282)
T 4f3v_A          168 -F--LAGAAGVAHGVAAANLALFTEAERRLTEAND------SPA--GEAC---ARAIAWYLAMARRSQGNESAAVALLEW  233 (282)
T ss_dssp             -H--HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT------STT--TTTT---HHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             -c--cHHHHHHHHHHHHHHCCCHHHHHHHHHHHhc------CCC--Cccc---cHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence             1  1234678899999999999999999998751      111  0111   244567889999999999999999998


Q ss_pred             HHH
Q 016262          350 AIK  352 (392)
Q Consensus       350 al~  352 (392)
                      ++.
T Consensus       234 a~a  236 (282)
T 4f3v_A          234 LQT  236 (282)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            874

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=93.98  E-value=0.04  Score=41.08  Aligned_cols=56  Identities=16%  Similarity=0.116  Sum_probs=45.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchh-HHHhhcchhHHHHHHhhhccccchhcC
Q 016262          329 KVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAG-LEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       329 ~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~-l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +.|.++...|++++|+..|+++++      ..|.... +...++.  ++..++++.+|+.+|++|
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~al~------~~p~~~~~~~~~lg~--~~~~~~~~~~A~~~~~~a   61 (99)
T 2kc7_A            5 KTIKELINQGDIENALQALEEFLQ------TEPVGKDEAYYLMGN--AYRKLGDWQKALNNYQSA   61 (99)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH------HCSSTHHHHHHHHHH--HHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH------HCCCcHHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            457778889999999999998875      4677777 7777777  888889999999888764

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=93.79  E-value=0.17  Score=49.91  Aligned_cols=48  Identities=17%  Similarity=0.126  Sum_probs=37.5

Q ss_pred             ccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHh----cCCHHHHHHHHHHHHH
Q 016262          244 MGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYY----GGDLQAARSYYVRSLN  304 (392)
Q Consensus       244 ~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~----~g~l~~A~~~~e~aL~  304 (392)
                      .++...|+.+++.+.+.    +  .       ..+...||.++..    .+++++|+.+|+++++
T Consensus        56 ~~~~~~A~~~~~~a~~~----~--~-------~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~  107 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQ----G--Y-------TPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAAL  107 (490)
T ss_dssp             CCCHHHHHHHHHHHHHT----T--C-------HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHC----C--C-------HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            56778888888877532    1  1       2467889999998    8999999999999875

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=93.67  E-value=0.13  Score=50.58  Aligned_cols=85  Identities=15%  Similarity=0.121  Sum_probs=38.4

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccch---hHHHhHHHHHHHHHHhCCC
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDA---DAAVAYFADSVEFLMKLPM  266 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdh---h~a~~~~e~~~~~~~~L~~  266 (392)
                      +..++++|++++|...+....+                ..+...+..++.++...|+.   .+|+.+++.+.+.      
T Consensus        10 a~~~~~~g~~~~A~~~~~~aa~----------------~g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~------   67 (452)
T 3e4b_A           10 ANEALKRGDTVTAQQNYQQLAE----------------LGYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT------   67 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH----------------HTCCTGGGTCC-------------------------------
T ss_pred             HHHHHhCCCHHHHHHHHHHHHH----------------CCCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC------
Confidence            4457899999999999874321                01123445566665455555   6666666655422      


Q ss_pred             CchHHHHHHHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHH
Q 016262          267 DDLEIIHTLSVSLNKIGDLKYYGG-----DLQAARSYYVRSLN  304 (392)
Q Consensus       267 ~~~e~~~~l~~~l~~lg~l~~~~g-----~l~~A~~~~e~aL~  304 (392)
                              -.....+||.+....+     ++++|+.+|+++++
T Consensus        68 --------~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~  102 (452)
T 3e4b_A           68 --------SPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFA  102 (452)
T ss_dssp             -----------CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHH
T ss_pred             --------CHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHH
Confidence                    1134566777555544     67788888877765

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=93.40  E-value=0.064  Score=41.31  Aligned_cols=63  Identities=8%  Similarity=-0.051  Sum_probs=51.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHh-hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          328 AKVADVDRSIGNEDVAVDGFQEAIKRLESL-TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       328 ~~l~~v~~~lg~~~~A~~~~~~al~ile~l-~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      -.||.+....|++..|+.-|++|++....- ......+.+...++.  .+.-++++..|+.+|++|
T Consensus         9 ~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~--~~~~~g~~~~A~~~~~~a   72 (104)
T 2v5f_A            9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSY--AVYQQGDLDKALLLTKKL   72 (104)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHH--HHHHccCHHHHHHHHHHH
Confidence            367899999999999999999999887654 233455677778877  888999999999998764

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=92.89  E-value=0.24  Score=45.80  Aligned_cols=97  Identities=5%  Similarity=-0.187  Sum_probs=68.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      ..-.++.++...+++++|+.+|++++...        . .   ..-....-++|.++..+|++++|+..|++++.    -
T Consensus       137 ~~~~~a~l~~~~~r~~dA~~~l~~a~~~~--------d-~---~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~----g  200 (282)
T 4f3v_A          137 VAWMKAVVYGAAERWTDVIDQVKSAGKWP--------D-K---FLAGAAGVAHGVAAANLALFTEAERRLTEAND----S  200 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHTTGGGCS--------C-H---HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----S
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhhccC--------C-c---ccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhc----C
Confidence            55677889999999999999997442211        0 0   01133456889999999999999999998861    1


Q ss_pred             hcCCC-chhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          358 TLKPE-EAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       358 ~~~~~-~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ...|. .......++.  ++..+++..+|...|+++
T Consensus       201 ~~~P~~~~da~~~~gl--aL~~lGr~deA~~~l~~a  234 (282)
T 4f3v_A          201 PAGEACARAIAWYLAM--ARRSQGNESAAVALLEWL  234 (282)
T ss_dssp             TTTTTTHHHHHHHHHH--HHHHHTCHHHHHHHHHHH
T ss_pred             CCCccccHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            11133 4445566666  888889988888888753

>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=92.10  E-value=0.56  Score=37.75  Aligned_cols=88  Identities=18%  Similarity=0.230  Sum_probs=64.3

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHHHHHHhhc
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYY----GGDLQAARSYYVRSLNVRRDAVKR  312 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~----~g~l~~A~~~~e~aL~i~~~~~~~  312 (392)
                      ++..+...+...+|+.+++.+.+.    .         ...+..+||.++..    .+++++|+.+|+++.+.       
T Consensus        31 lg~~y~~g~~~~~A~~~~~~Aa~~----g---------~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~-------   90 (138)
T 1klx_A           31 LSLVSNSQINKQKLFQYLSKACEL----N---------SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGL-------   90 (138)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHHHHT----T---------CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-------
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHcC----C---------CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcC-------
Confidence            344442233345577777766432    1         13577899999988    79999999999998642       


Q ss_pred             CCCCCchhhHHHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHH
Q 016262          313 HSNVPSQVLDVAVSLAKVADVDRS----IGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       313 ~~~~~~~~~dla~sl~~l~~v~~~----lg~~~~A~~~~~~al~i  353 (392)
                               ....+..+||.++..    .+++++|+.+|+++.+.
T Consensus        91 ---------g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           91 ---------NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             ---------TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             ---------CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence                     115667899999998    89999999999998854

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.90  E-value=3.6  Score=34.66  Aligned_cols=101  Identities=13%  Similarity=-0.019  Sum_probs=63.0

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcC---------
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRH---------  313 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~---------  313 (392)
                      ..+.|..|+.+..-.......=.....  .......+..+++..+..++|..|..+|.++|+.++.+....         
T Consensus        32 d~~LY~sA~~La~lLlSl~~~~~~~~s--p~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~~~~~  109 (167)
T 3ffl_A           32 AAGLHSNVRLLSSLLLTLSNNNPELFS--PPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPSTGNS  109 (167)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHSTTSSC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC-------------
T ss_pred             HhhhHHHHHHHHHHHHHhhcCCccccc--HHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCcccccccc
Confidence            455667777776654444322111111  333456788999999999999999999999999887432221         


Q ss_pred             ---CCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHH
Q 016262          314 ---SNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDG  346 (392)
Q Consensus       314 ---~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~  346 (392)
                         +.......| +...=+++..+..+|+..+|+..
T Consensus       110 ss~p~s~~~~~e-~Elkykia~C~~~l~~~~~Ai~~  144 (167)
T 3ffl_A          110 ASTPQSQCLPSE-IEVKYKLAECYTVLKQDKDAIAI  144 (167)
T ss_dssp             -------CCCCH-HHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCCcccccccch-HHHHHHHHHHHHHHCCHHHHHHH
Confidence               111112223 23334689999999999887774

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=90.76  E-value=2.1  Score=36.07  Aligned_cols=96  Identities=14%  Similarity=0.044  Sum_probs=64.7

Q ss_pred             hcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh-hcC------
Q 016262          288 YGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL-TLK------  360 (392)
Q Consensus       288 ~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l-~~~------  360 (392)
                      ..+.|+.|+-.....+.+...    .++ .......+.++..+|++....|+|.+|..+|++|+++.+.+ ...      
T Consensus        32 d~~LY~sA~~La~lLlSl~~~----~~~-~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~~  106 (167)
T 3ffl_A           32 AAGLHSNVRLLSSLLLTLSNN----NPE-LFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPST  106 (167)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHH----STT-SSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC----------
T ss_pred             HhhhHHHHHHHHHHHHHhhcC----Ccc-cccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccccc
Confidence            567788888877776666433    221 11222457778999999999999999999999999999977 221      


Q ss_pred             ------------CCchhHHHhhcchhHHHHHHhhhccccchh
Q 016262          361 ------------PEEAGLEQRCWNSSTTNFQKNHLNQLPKFR  390 (392)
Q Consensus       361 ------------~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~  390 (392)
                                  +.+.++.-+++.  .+-.|++...||.+.+
T Consensus       107 ~~~ss~p~s~~~~~e~Elkykia~--C~~~l~~~~~Ai~~Le  146 (167)
T 3ffl_A          107 GNSASTPQSQCLPSEIEVKYKLAE--CYTVLKQDKDAIAILD  146 (167)
T ss_dssp             ----------CCCCHHHHHHHHHH--HHHHTTCHHHHHHHHH
T ss_pred             cccCCCcccccccchHHHHHHHHH--HHHHHCCHHHHHHHHh
Confidence                        112244455555  6667777777766543

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=90.23  E-value=0.22  Score=53.34  Aligned_cols=64  Identities=9%  Similarity=0.077  Sum_probs=56.4

Q ss_pred             CceeccccccccccCceecccC-cHhHHHhHHhcC----CCCCCCcCCcc--cchhhHHHHHHHHHHhhhhh
Q 016262           88 GPLSCMICQALLFECSKCTPCS-HVYCKACISRFK----DCPLCGADIEK--IEADTTLQDVVDRFIEGHAR  152 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~-h~fC~~Ci~~~~----~CP~C~~~~~~--~~~n~~l~~~~~~~~~~~~~  152 (392)
                      +.|.|||-.+++. +||+++-| ++|=+..|.+|.    .||.-|.++..  +.||..|+..|+.+......
T Consensus       890 ~~F~cPIs~~lM~-DPVilpsG~~TydR~~I~~wl~~~~tdP~Tr~~L~~~~liPN~~Lk~~I~~w~~~~~~  960 (968)
T 3m62_A          890 DEFLDPLMYTIMK-DPVILPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLEDVTPNEELRQKILCFKKQKKE  960 (968)
T ss_dssp             GGGBCTTTCSBCS-SEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECHHHHHHHHHHHHHHHT
T ss_pred             HHhCCcchhhHHh-CCeEcCCCCEEECHHHHHHHHhcCCCCCCCCCCCCcccccccHHHHHHHHHHHHHHHh
Confidence            5799999999999 99999998 699999999994    49999998876  89999999999999876543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=89.62  E-value=3.8  Score=40.42  Aligned_cols=88  Identities=10%  Similarity=0.045  Sum_probs=48.2

Q ss_pred             cCCHHHHHHHHHHHHHHHHHHhh-cCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCch-hH
Q 016262          289 GGDLQAARSYYVRSLNVRRDAVK-RHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEA-GL  366 (392)
Q Consensus       289 ~g~l~~A~~~~e~aL~i~~~~~~-~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a-~l  366 (392)
                      .|+++.|....++++++.+.+.. ..+..       ......++.++..+|++++|...|++++++      .|.+. .+
T Consensus       292 ~g~~~~a~~~~~~A~~~~~~Al~~~~p~~-------~~l~~~~~~~~~~~g~~~~A~~~~~~al~~------~p~~~~~~  358 (530)
T 2ooe_A          292 KGDMNNAKLFSDEAANIYERAISTLLKKN-------MLLYFAYADYEESRMKYEKVHSIYNRLLAI------EDIDPTLV  358 (530)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTTTCSSC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHS------SSSCHHHH
T ss_pred             ccchhhhhhhhHHHHHHHHHHHHHhCccc-------HHHHHHHHHHHHhcCCHHHHHHHHHHHhCc------cccCchHH
Confidence            68887444444444555444443 23321       334556678888888888888888887753      34332 12


Q ss_pred             HHhhcchhHHHHHHhhhccccchhc
Q 016262          367 EQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       367 ~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      ...++.  .+..++++..++.+|++
T Consensus       359 ~~~~~~--~~~~~~~~~~A~~~~~~  381 (530)
T 2ooe_A          359 YIQYMK--FARRAEGIKSGRMIFKK  381 (530)
T ss_dssp             HHHHHH--HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHH--HHHHhcCHHHHHHHHHH
Confidence            222222  33344555555555544

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=88.41  E-value=10  Score=37.29  Aligned_cols=53  Identities=4%  Similarity=0.046  Sum_probs=35.7

Q ss_pred             ccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          242 RAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLN  304 (392)
Q Consensus       242 ~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~  304 (392)
                      ...|++.+|..+++.+.+    +.+...      .......+.+....|++++|+..|+++++
T Consensus       332 ~~~g~~~~A~~~~~~al~----~~p~~~------~~~~~~~~~~~~~~~~~~~A~~~~~~Al~  384 (530)
T 2ooe_A          332 ESRMKYEKVHSIYNRLLA----IEDIDP------TLVYIQYMKFARRAEGIKSGRMIFKKARE  384 (530)
T ss_dssp             HHTTCHHHHHHHHHHHHH----SSSSCH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HhcCCHHHHHHHHHHHhC----ccccCc------hHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            356777888888887654    333221      12566667777777888888888888775

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=88.08  E-value=1.2  Score=33.36  Aligned_cols=60  Identities=13%  Similarity=0.077  Sum_probs=43.9

Q ss_pred             HHHHHHHHHHhcCC---HHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          278 SLNKIGDLKYYGGD---LQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       278 ~l~~lg~l~~~~g~---l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      .+..++.+.+..++   .++|...++++|++       ++.+       ...+..+|.++...|++++|+.++++.+
T Consensus         8 ~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~-------dp~~-------~rA~~~lg~~~~~~g~y~~Ai~~w~~~l   70 (93)
T 3bee_A            8 QLAAKATTLYYLHKQAMTDEVSLLLEQALQL-------EPYN-------EAALSLIANDHFISFRFQEAIDTWVLLL   70 (93)
T ss_dssp             HHHHHHHHHHHTTTTCCCHHHHHHHHHHHHH-------CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH-------CcCC-------HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34556666655544   67888888887763       4432       4566778999999999999999999866

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}

Probab=87.04  E-value=0.28  Score=44.16  Aligned_cols=44  Identities=25%  Similarity=0.686  Sum_probs=36.2

Q ss_pred             ceeccccccccccCceecccCcHhHHHhHHhcC------CCCCCCcCCcc
Q 016262           89 PLSCMICQALLFECSKCTPCSHVYCKACISRFK------DCPLCGADIEK  132 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~------~CP~C~~~~~~  132 (392)
                      ...|.+|.+++...-.+..|++.|=..|+..|+      .||.|+.....
T Consensus       180 i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~  229 (238)
T 3nw0_A          180 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH  229 (238)
T ss_dssp             CCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCS
T ss_pred             CCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCC
Confidence            467999999988666677799999999999985      49999886543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=86.94  E-value=0.88  Score=44.50  Aligned_cols=104  Identities=6%  Similarity=-0.007  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHhcC---CHHHHHHHHHHHHHHH-------H---HHhhcC---CCCCchh--------hHHHHHHHHHHHH
Q 016262          278 SLNKIGDLKYYGG---DLQAARSYYVRSLNVR-------R---DAVKRH---SNVPSQV--------LDVAVSLAKVADV  333 (392)
Q Consensus       278 ~l~~lg~l~~~~g---~l~~A~~~~e~aL~i~-------~---~~~~~~---~~~~~~~--------~dla~sl~~l~~v  333 (392)
                      ...+||.++...|   ++++|+.+|+++++.-       -   ......   ..+....        .+....+.++|.+
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~  257 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQL  257 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            5678888888888   8889999988876521       0   000000   0000000        0123445567766


Q ss_pred             -H--HhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHH-----hhhccccchhcC
Q 016262          334 -D--RSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQK-----NHLNQLPKFRSA  392 (392)
Q Consensus       334 -~--~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~-----~~~~~l~~~~~~  392 (392)
                       +  ...|++++|+.+|+++.+        .+.+.....++.  .+. .+     ++.+++.+|++|
T Consensus       258 ~~~~~~~~d~~~A~~~~~~Aa~--------~g~~~A~~~Lg~--~y~-~G~g~~~d~~~A~~~~~~A  313 (452)
T 3e4b_A          258 LYDFPELGDVEQMMKYLDNGRA--------ADQPRAELLLGK--LYY-EGKWVPADAKAAEAHFEKA  313 (452)
T ss_dssp             HHHSGGGCCHHHHHHHHHHHHH--------TTCHHHHHHHHH--HHH-HCSSSCCCHHHHHHHHHTT
T ss_pred             HHhCCCCCCHHHHHHHHHHHHH--------CCCHHHHHHHHH--HHH-cCCCCCCCHHHHHHHHHHH
Confidence             4  456788888888877662        234555555665  443 44     888888888875

>2csv_A Tripartite motif protein 29; ZF-B_BOX domain, TRIM29, ataxia-telangiectasia group D-associated protein, ATDC, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.43.1.1

Probab=86.43  E-value=0.04  Score=39.83  Aligned_cols=40  Identities=13%  Similarity=0.186  Sum_probs=33.5

Q ss_pred             HHHHHHhhhccccc--------ccccccch--hHHHhHHHHHHHHHHhCCC
Q 016262          226 LCSQLGAVLGMLGD--------CCRAMGDA--DAAVAYFADSVEFLMKLPM  266 (392)
Q Consensus       226 ~C~~h~~~L~~fC~--------~C~~~gdh--h~a~~~~e~~~~~~~~L~~  266 (392)
                      .|+.|++.|++||.        .|. .++|  |.++++.+++.+++.+|..
T Consensus        20 ~C~~H~e~l~lfC~~d~~~iC~~C~-~~~H~~H~~~~l~ea~~~~k~~L~~   69 (72)
T 2csv_A           20 KCPVHGKTMELFCQTDQTCICYLCM-FQEHKNHSTVTVEEAKAEKETESGP   69 (72)
T ss_dssp             BCTTTCCBCCEEESSSCCEECHHHH-HTTTSSSCEEEHHHHHHHHSSCCCC
T ss_pred             cCcccCCceEEEeCCCCeEEccccC-CCCCCCCCEecHHHHHHHHHHHHHH
Confidence            79999999999996        563 4888  9999999999888887765

>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=85.92  E-value=4  Score=40.11  Aligned_cols=97  Identities=15%  Similarity=0.135  Sum_probs=58.5

Q ss_pred             hhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH--HHH-
Q 016262          233 VLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVR--RDA-  309 (392)
Q Consensus       233 ~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~--~~~-  309 (392)
                      .+..+|..|...|.+.+|..+|...                   .-..+++..+..+|++++|+..|.++-.+.  +.+ 
T Consensus       124 a~~~IGd~~~~~g~yeeA~~~Y~~a-------------------~n~~~LA~~L~~Lg~yq~AVea~~KA~~~~~Wk~v~  184 (449)
T 1b89_A          124 HIQQVGDRCYDEKMYDAAKLLYNNV-------------------SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVC  184 (449)
T ss_dssp             -------------CTTTHHHHHHHT-------------------TCHHHHHHHHHTTTCHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHh-------------------hhHHHHHHHHHHhccHHHHHHHHHHcCCchhHHHHH
Confidence            4455667787888888888888643                   246789999999999999999999985542  111 


Q ss_pred             -----------hhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          310 -----------VKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       310 -----------~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                                 +....-+..   --+..+..+...+...|++++|+.++++++
T Consensus       185 ~aCv~~~ef~lA~~~~l~L~---~~ad~l~~lv~~Yek~G~~eEai~lLe~aL  234 (449)
T 1b89_A          185 FACVDGKEFRLAQMCGLHIV---VHADELEELINYYQDRGYFEELITMLEAAL  234 (449)
T ss_dssp             HHHHHTTCHHHHHHTTTTTT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHcCcHHHHHHHHHHHH---hCHhhHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence                       011111111   113334567788999999999999999985

>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=85.24  E-value=2.1  Score=41.34  Aligned_cols=102  Identities=9%  Similarity=0.025  Sum_probs=67.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      ...+++.++...|+|.+|...+.+.++-.+..     .....+++   .......++..+||+.++...|.+|..+...+
T Consensus       101 l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~-----dd~~~lle---v~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai  172 (394)
T 3txn_A          101 LEARLIALYFDTALYTEALALGAQLLRELKKL-----DDKNLLVE---VQLLESKTYHALSNLPKARAALTSARTTANAI  172 (394)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTS-----SCTHHHHH---HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHhcc-----ccchhHHH---HHHHHHHHHHHhccHHHHHHHHHHHHhhhccC
Confidence            34689999999999999999998766544331     11222223   23344678899999999999999999888776


Q ss_pred             hcCCCchhHHHhhcchhHHHH--HHhhhccccch
Q 016262          358 TLKPEEAGLEQRCWNSSTTNF--QKNHLNQLPKF  389 (392)
Q Consensus       358 ~~~~~~a~l~~~~~~~~~~~~--l~~~~~~l~~~  389 (392)
                      ..+|.........+.  .++.  .++|..|-.+|
T Consensus       173 ~~~p~i~a~i~~~~G--i~~l~~~rdyk~A~~~F  204 (394)
T 3txn_A          173 YCPPKVQGALDLQSG--ILHAADERDFKTAFSYF  204 (394)
T ss_dssp             CCCHHHHHHHHHHHH--HHHHHTTSCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHhh--HHHHHhccCHHHHHHHH
Confidence            555555544444444  3333  45555554444

>2w2u_A Hypothetical P60 katanin; hydrolase transport complex, nucleotide-binding, ESCRT, AAA-ATPase, cytokinesis, ATP-binding; 2.20A {Sulfolobus acidocaldarius}

Probab=84.61  E-value=5.1  Score=29.54  Aligned_cols=36  Identities=28%  Similarity=0.337  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          322 DVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       322 dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      +-|..+.+.|.-....|++++|+.+|.++++.+...
T Consensus        17 ~~Ai~lv~~Ave~D~~g~y~eAl~lY~~aie~l~~a   52 (83)
T 2w2u_A           17 EMARKYAINAVKADKEGNAEEAITNYKKAIEVLAQL   52 (83)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHH
Confidence            556666677777788999999999999999999987

>2cpt_A SKD1 protein, vacuolar sorting protein 4B; MIT, helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.7.14.1

Probab=84.59  E-value=2.6  Score=33.34  Aligned_cols=41  Identities=24%  Similarity=0.317  Sum_probs=31.2

Q ss_pred             hhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh-hcC
Q 016262          320 VLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL-TLK  360 (392)
Q Consensus       320 ~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l-~~~  360 (392)
                      ..+-|..|...|.-....|++++|+.+|.++++++... ...
T Consensus        14 ~l~kAi~lv~~Ave~D~ag~y~eAl~lY~~Aie~l~~alk~e   55 (117)
T 2cpt_A           14 NLQKAIDLASKAAQEDKAGNYEEALQLYQHAVQYFLHVVKYE   55 (117)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHhc
Confidence            34555566666655667799999999999999999987 443

>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=83.87  E-value=2.7  Score=40.25  Aligned_cols=61  Identities=10%  Similarity=0.053  Sum_probs=47.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      ...-++......|++++|+..+++++.+.       +.        +..+..+|.++...|+.++|++.|++|+.+
T Consensus       279 ~~~alal~~l~~gd~d~A~~~l~rAl~Ln-------~s--------~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          279 IYQIKAVSALVKGKTDESYQAINTGIDLE-------MS--------WLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-------CC--------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHhcC-------CC--------HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            44455555666799999999999999773       11        445567899999999999999999999843

>2v6y_A AAA family ATPase, P60 katanin; MIT, VPS4, archaea, AAA-ATPase, ATP-binding, microtubule INT and trafficking domain, nucleotide-binding; HET: SRT; 2.40A {Sulfolobus solfataricus} PDB: 2v6y_B*

Probab=82.08  E-value=7.6  Score=28.53  Aligned_cols=36  Identities=25%  Similarity=0.288  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          322 DVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       322 dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      +-|..+.+.|.-....|++++|+.+|.++++.+...
T Consensus         9 ~~Ai~lv~~Ave~D~~g~y~eAl~lY~~aie~l~~~   44 (83)
T 2v6y_A            9 DMARKYAILAVKADKEGKVEDAITYYKKAIEVLSQI   44 (83)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHH
Confidence            345555666666788899999999999999999987

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	392
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-07
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	1e-06
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	2e-06
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	3e-06
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	4e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	7e-05
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	2e-04
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	0.001

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 46.5 bits (110), Expect = 1e-07
 Identities = 19/58 (32%), Positives = 26/58 (44%), Gaps = 8/58 (13%)

Query: 92  CMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEKI----EADTTLQD 141
           C IC       S   PC H +C  CI+R+      CPLC   +E +    E+D+   D
Sbjct: 8   CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIESDSEFGD 65

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.4 bits (104), Expect = 1e-06
 Identities = 16/80 (20%), Positives = 31/80 (38%), Gaps = 9/80 (11%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF--KDCPLCGADI--EKIEADTTLQDVVDR 145
           L C  C  +L E      C H++C  C+S      CP+C      + ++ +  L  ++  
Sbjct: 23  LRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQDLKINRQLDSMIQL 82

Query: 146 FIEGHARIKRSHTNSDKEED 165
                    R+  + ++  D
Sbjct: 83  C-----SKLRNLLHDNELSD 97

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (103), Expect = 2e-06
 Identities = 19/68 (27%), Positives = 30/68 (44%), Gaps = 10/68 (14%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF-------KDCPLCGADI--EKIEADTTLQ 140
           L C IC  L  +    T C H++CK C+ +          CPLC  DI    ++  T   
Sbjct: 22  LECPICLEL-IKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFS 80

Query: 141 DVVDRFIE 148
            +V+  ++
Sbjct: 81  QLVEELLK 88

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.2 bits (99), Expect = 3e-06
 Identities = 16/42 (38%), Positives = 19/42 (45%), Gaps = 2/42 (4%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRFK-DCPLCGADI 130
           L C  CQA   +C K  PC H  C  C+      CP+C A  
Sbjct: 7   LRCQQCQAE-AKCPKLLPCLHTLCSGCLEASGMQCPICQAPW 47

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.3 bits (99), Expect = 4e-06
 Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 6/48 (12%)

Query: 92  CMICQALLFECSKCTPCSHVYCKACI-----SRFKDCPLCGADIEKIE 134
           C IC     +  K  PC H+ C +C+     S  + CP C  +I+  E
Sbjct: 26  CKICAEN-DKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE 72

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.7 bits (90), Expect = 7e-05
 Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 6/50 (12%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACISRF-----KDCPLCGADIEKIE 134
           +SC IC+ +       T C H++C+ CI R        CP C       +
Sbjct: 24  ISCQICEHI-LADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD 72

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 37.2 bits (86), Expect = 2e-04
 Identities = 11/48 (22%), Positives = 18/48 (37%), Gaps = 7/48 (14%)

Query: 90  LSCMICQALLFE---CSKCTPCSHVYCKACISRF----KDCPLCGADI 130
           + C +C A L +         C H +   C+  +      CPLC   +
Sbjct: 6   VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 34.7 bits (79), Expect = 0.001
 Identities = 4/47 (8%), Positives = 13/47 (27%), Gaps = 4/47 (8%)

Query: 90  LSCMICQALLFECSKCTPCSHVYCKACIS----RFKDCPLCGADIEK 132
           + C I   +            ++ K+ +        + P+    +  
Sbjct: 1   MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI 47

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	392
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.32
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.31
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.2
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.17
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.12
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.06
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.0
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.85
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.82
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.8
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.74
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	98.73
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	98.68
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.65
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.63
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.49
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.48
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.4
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.34
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	98.31
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.29
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.26
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.15
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.11
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.1
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.08
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.07
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.03
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.0
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.98
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.94
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	97.93
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.91
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	97.91
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.9
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	97.88
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.85
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.85
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.83
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	97.78
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.78
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	97.76
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.75
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.73
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.71
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.59
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	97.53
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.49
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.24
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	97.18
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.16
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.92
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	96.9
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.76
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	96.6
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.54
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.4
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	96.33
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.2
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	95.95
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	94.25
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	92.53
d2csva1	59	Tripartite motif-containing protein 29 {Human (Hom	90.43
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	88.37
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	86.79
d1wfda_	93	Hypothetical protein 1500032H18Rik {Mouse (Mus mus	86.47
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	85.6
d1wr0a1	77	Vacuolar sorting protein 4b (VPS4B, SKD1 protein)	82.89
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	82.28
d1frea_	39	Nuclear factor XNF7 {African clawed frog (Xenopus	82.06
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	80.84
d2dida1	40	Tripartite motif-containing protein 39 {Human (Hom	80.45

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.32  E-value=3.3e-13  Score=100.72  Aligned_cols=63  Identities=19%  Similarity=0.259  Sum_probs=56.7

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcCCcc--cchhhHHHHHHHHHHhhhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGADIEK--IEADTTLQDVVDRFIEGHA  151 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~--~~~n~~l~~~~~~~~~~~~  151 (392)
                      +.|.|+||++++. +|++++|||+||+.||.+|+     .||.|+.++..  +.+|..|+++|+.|...++
T Consensus         6 ~~l~CpIc~~l~~-dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~pN~~L~~~I~~~l~~~~   75 (80)
T d2c2la2           6 DYLCGKISFELMR-EPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVIDAFISENG   75 (80)
T ss_dssp             STTBCTTTCSBCS-SEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHHHHHTTCS
T ss_pred             ccccCcCcCchhh-hhcccCCcCeecHHHHHHHHhcCCccCCCccccccccccccHHHHHHHHHHHHHHCC
Confidence            6799999999999 99999999999999999983     49999998876  8899999999999986543

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.31  E-value=3e-13  Score=100.43  Aligned_cols=61  Identities=15%  Similarity=0.334  Sum_probs=55.5

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcCCcc--cchhhHHHHHHHHHHhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGADIEK--IEADTTLQDVVDRFIEG  149 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~--~~~n~~l~~~~~~~~~~  149 (392)
                      ++|.|+||++++. +|++++|||+||+.||..|+     .||.|+..+..  +.+|..|+++|+.|.+.
T Consensus         7 ~~l~CpIc~~~m~-dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~pN~~L~~~I~~~~~~   74 (78)
T d1t1ha_           7 EYFRCPISLELMK-DPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSLIALWCES   74 (78)
T ss_dssp             SSSSCTTTSCCCS-SEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHHHHHHHHH
T ss_pred             ccCCCcCcCchhh-CceEccCCCcchHHHHHHHHHHCCCCCCcccccCCcccccchHHHHHHHHHHHHH
Confidence            6799999999999 99999999999999999983     39999998876  88999999999999754

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.20  E-value=1.3e-12  Score=102.22  Aligned_cols=60  Identities=33%  Similarity=0.805  Sum_probs=52.6

Q ss_pred             ceeccccccccccCceecccCcHhHHHhHHhcC-------CCCCCCcCCcc--cchhhHHHHHHHHHHhh
Q 016262           89 PLSCMICQALLFECSKCTPCSHVYCKACISRFK-------DCPLCGADIEK--IEADTTLQDVVDRFIEG  149 (392)
Q Consensus        89 ~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-------~CP~C~~~~~~--~~~n~~l~~~~~~~~~~  149 (392)
                      .|.|+||++++. +|++++|||+||..||..|+       .||.||..+..  +.+|..+.++++.+.+.
T Consensus        21 ~l~CpIC~~~~~-~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~~ve~l~~~   89 (103)
T d1jm7a_          21 ILECPICLELIK-EPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFSQLVEELLKI   89 (103)
T ss_dssp             HTSCSSSCCCCS-SCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCCSSSHHHHHHHHH
T ss_pred             CcCCCccCchhC-CeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhCCcCHHHHHHHHHHHHH
Confidence            588999999998 89999999999999999883       59999998875  88888888888888643

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.17  E-value=6.4e-12  Score=97.12  Aligned_cols=62  Identities=23%  Similarity=0.582  Sum_probs=53.6

Q ss_pred             CceeccccccccccCcee-cccCcHhHHHhHHhcCC--CCCCCcCCcc--cchhhHHHHHHHHHHhhh
Q 016262           88 GPLSCMICQALLFECSKC-TPCSHVYCKACISRFKD--CPLCGADIEK--IEADTTLQDVVDRFIEGH  150 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~-~~C~h~fC~~Ci~~~~~--CP~C~~~~~~--~~~n~~l~~~~~~~~~~~  150 (392)
                      +.+.|+||+++|. +|++ .+|||+||..||.+|..  ||.||..+..  +.+|..+..++..+....
T Consensus        21 ~~l~C~IC~~~~~-~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~~~l~~n~~l~~lv~~~~~~~   87 (97)
T d1jm7b_          21 KLLRCSRCTNILR-EPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQDLKINRQLDSMIQLCSKLR   87 (97)
T ss_dssp             HTTSCSSSCSCCS-SCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSCSSCCCCHHHHHHHHHHHHHH
T ss_pred             hcCCCccCCchhh-cCceeCCCCCchhHHHHHHHHhccccccCCcCchhhCcccHHHHHHHHHHHHHH
Confidence            4689999999998 7776 48999999999999954  9999988765  889999999999887543

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.12  E-value=1.1e-11  Score=93.06  Aligned_cols=55  Identities=27%  Similarity=0.633  Sum_probs=44.3

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-----CCCCCCcCCcc---cchhhHHHHHH
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-----DCPLCGADIEK---IEADTTLQDVV  143 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~---~~~n~~l~~~~  143 (392)
                      ..+.|+||++.+. +|++++|||+||+.||.+|+     .||.||.++..   ..+...+.+++
T Consensus        22 ~~l~C~IC~~~~~-~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~~P~~~~l~~l   84 (86)
T d1rmda2          22 KSISCQICEHILA-DPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNIL   84 (86)
T ss_dssp             HHTBCTTTCSBCS-SEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHHHHHH
T ss_pred             cCcCCccCCcchh-cceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhccCHHHHHHHHh
Confidence            4689999999988 99999999999999999984     49999998876   33444444443

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.06  E-value=1.3e-10  Score=89.59  Aligned_cols=63  Identities=17%  Similarity=0.270  Sum_probs=56.0

Q ss_pred             CceeccccccccccCceecccCc-HhHHHhHHhcC----CCCCCCcCCcc--cchhhHHHHHHHHHHhhhh
Q 016262           88 GPLSCMICQALLFECSKCTPCSH-VYCKACISRFK----DCPLCGADIEK--IEADTTLQDVVDRFIEGHA  151 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h-~fC~~Ci~~~~----~CP~C~~~~~~--~~~n~~l~~~~~~~~~~~~  151 (392)
                      ++|.||||+.++. +||+++|+| +||+.||.+|+    .||.|+.++..  +.+|..|+++|+.|+....
T Consensus        21 ~~f~CPI~~~lm~-dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~pN~~Lr~~I~~~~~~~~   90 (98)
T d1wgma_          21 DEFLDPIMSTLMC-DPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKEKIQRWLAERK   90 (98)
T ss_dssp             TTTBCTTTCSBCS-SEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHHHHHHHHHHHST
T ss_pred             HHhCCcCchhHHH-HHHhcccccchhhHHHHHHHHHhcCCcccccccccchhhcchHHHHHHHHHHHHHHH
Confidence            4699999999999 999998775 89999999995    49999999886  8999999999999987543

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.00  E-value=2.3e-11  Score=83.62  Aligned_cols=44  Identities=36%  Similarity=0.794  Sum_probs=39.4

Q ss_pred             CceeccccccccccCceecccCcHhHHHhHHhcC-CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFECSKCTPCSHVYCKACISRFK-DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~~-~CP~C~~~~~~  132 (392)
                      +.+.|+||++.+. +|++++|||+||..||.+|. .||.||..+..
T Consensus         5 ~~l~C~IC~~~~~-~p~~lpCgH~fC~~Ci~~~~~~CP~Cr~~~~~   49 (56)
T d1bora_           5 QFLRCQQCQAEAK-CPKLLPCLHTLCSGCLEASGMQCPICQAPWPL   49 (56)
T ss_dssp             CCSSCSSSCSSCB-CCSCSTTSCCSBTTTCSSSSSSCSSCCSSSSC
T ss_pred             CCCCCcccCcccC-CCEEecCCCHHhHHHHHcCCCcCcCCCCcccC
Confidence            5689999999988 89999999999999999884 69999987764

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.85  E-value=5.2e-10  Score=82.61  Aligned_cols=42  Identities=31%  Similarity=0.862  Sum_probs=37.8

Q ss_pred             eeccccccccccCceecccCcHhHHHhHHhc-----CCCCCCCcCCcc
Q 016262           90 LSCMICQALLFECSKCTPCSHVYCKACISRF-----KDCPLCGADIEK  132 (392)
Q Consensus        90 ~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~-----~~CP~C~~~~~~  132 (392)
                      ..|+||++.+. +|++++|||.||..||..|     ..||.||..+..
T Consensus        24 ~~C~IC~~~~~-~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~   70 (79)
T d1fbva4          24 QLCKICAENDK-DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKG   70 (79)
T ss_dssp             TBCTTTSSSBC-CEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCC
T ss_pred             CCCccCCCcCC-CeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccC
Confidence            56999999988 8999999999999999988     249999998876

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.82  E-value=4.2e-10  Score=77.37  Aligned_cols=42  Identities=10%  Similarity=0.256  Sum_probs=36.9

Q ss_pred             eeccccccccccCceec-ccCcHhHHHhHHhc----CCCCCCCcCCcc
Q 016262           90 LSCMICQALLFECSKCT-PCSHVYCKACISRF----KDCPLCGADIEK  132 (392)
Q Consensus        90 ~~C~iC~~~~~~~p~~~-~C~h~fC~~Ci~~~----~~CP~C~~~~~~  132 (392)
                      |.|+||++++. +|+++ .|||+||+.||.+|    ..||.||.++..
T Consensus         1 l~C~Ic~~~~~-~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~   47 (56)
T d2baya1           1 MLCAISGKVPR-RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   47 (56)
T ss_dssp             CCCTTTCSCCS-SEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             CCCccCCchHH-hcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCH
Confidence            57999999998 88876 59999999999999    469999998764

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=98.80  E-value=4.4e-10  Score=80.53  Aligned_cols=43  Identities=37%  Similarity=0.878  Sum_probs=37.3

Q ss_pred             eeccccccccccCceecccCcHhHHHhHHhc----CCCCCCCcCCcc
Q 016262           90 LSCMICQALLFECSKCTPCSHVYCKACISRF----KDCPLCGADIEK  132 (392)
Q Consensus        90 ~~C~iC~~~~~~~p~~~~C~h~fC~~Ci~~~----~~CP~C~~~~~~  132 (392)
                      -.|+||++.+.+.+++++|||+||..||.+|    ..||.||..+..
T Consensus         6 d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           6 ERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            4699999998856677999999999999999    369999998765

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.74  E-value=1.3e-09  Score=77.29  Aligned_cols=45  Identities=24%  Similarity=0.742  Sum_probs=36.3

Q ss_pred             CceeccccccccccC----ceecccCcHhHHHhHHhcC-----CCCCCCcCCcc
Q 016262           88 GPLSCMICQALLFEC----SKCTPCSHVYCKACISRFK-----DCPLCGADIEK  132 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~----p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~~  132 (392)
                      ++..||||++.+...    .++++|||.||..||..|+     .||.||..+..
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~   55 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccc
Confidence            568999999865433    2567999999999999983     49999998754

>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=98.73  E-value=1.5e-07  Score=77.91  Aligned_cols=132  Identities=11%  Similarity=0.036  Sum_probs=102.6

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCch-HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhh
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDL-EIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVL  321 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~-e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~  321 (392)
                      ..|+|.+|+..|+++.++...+..... .........++++|.++..+|++++|+..|+++|.+...........   ..
T Consensus        21 ~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~---~~   97 (156)
T d2hr2a1          21 VAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE---GK   97 (156)
T ss_dssp             HHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH---HH
T ss_pred             HcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc---cc
Confidence            678999999999999999888765332 22445567899999999999999999999999999988765444331   22


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh-hcCCCchhHHHhhcchhHHHHH
Q 016262          322 DVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL-TLKPEEAGLEQRCWNSSTTNFQ  379 (392)
Q Consensus       322 dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l-~~~~~~a~l~~~~~~~~~~~~l  379 (392)
                      ..+..+.++|.++..+|++++|+..|++++++..+. ...+....+++.+..  .+..|
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~~~~~~~~~~~~~~~~--~l~~l  154 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAID--RIAQL  154 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHHHHH--HHHHH
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHhhchHHHHHHHHHHHHH--HHHHc
Confidence            456678999999999999999999999999999988 444455555555544  44444

>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=98.68  E-value=2.1e-08  Score=83.23  Aligned_cols=115  Identities=10%  Similarity=0.069  Sum_probs=89.1

Q ss_pred             HHHHHHHHH--HHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          274 TLSVSLNKI--GDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       274 ~l~~~l~~l--g~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      .++.+...+  |..+...|++++|+..|+++|++.....+...  .......+..++++|.++..+|++++|+..|++++
T Consensus         5 ~~a~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~--~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al   82 (156)
T d2hr2a1           5 EVVGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEA--FDHAGFDAFCHAGLAEALAGLRSFDEALHSADKAL   82 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSC--CCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhh--cccchhHHHHHHHHHHHHHHcCccchhhHhhhhhh
Confidence            355566666  66777789999999999999998776433221  12223567889999999999999999999999999


Q ss_pred             HHHHHh-hcCCC----chhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          352 KRLESL-TLKPE----EAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       352 ~ile~l-~~~~~----~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .+.... ...+.    ......+++.  ++..++++.+|+.+|++|
T Consensus        83 ~~~~~~~~~~~~~~~~~~~a~~~~g~--~~~~lg~~eeA~~~~~~A  126 (156)
T d2hr2a1          83 HYFNRRGELNQDEGKLWISAVYSRAL--ALDGLGRGAEAMPEFKKV  126 (156)
T ss_dssp             HHHHHHCCTTSTHHHHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             hcccccccccccccchhHHHHhhhHH--HHHHHHHHHHHHHHHHHH
Confidence            999987 33333    3335567777  899999999999999875

>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=98.65  E-value=3.5e-08  Score=90.19  Aligned_cols=139  Identities=9%  Similarity=0.005  Sum_probs=113.5

Q ss_pred             cccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCc
Q 016262          239 DCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPS  318 (392)
Q Consensus       239 ~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~  318 (392)
                      .++..++++.+|+..++++.+...++..     .......+.++|.++..+|++++|+.+|++++++.....        
T Consensus        45 ~~y~~~~~~~~A~~~y~kA~~~~~~~~~-----~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~--------  111 (290)
T d1qqea_          45 TIYRLRKELNLAGDSFLKAADYQKKAGN-----EDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRG--------  111 (290)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTC-----HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--------
T ss_pred             HHHHHCcCHHHHHHHHHHHHHHHHHcCC-----CHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcc--------
Confidence            3455788889999999999988887755     445678999999999999999999999999999877632        


Q ss_pred             hhhHHHHHHHHHHHHHH-hcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          319 QVLDVAVSLAKVADVDR-SIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       319 ~~~dla~sl~~l~~v~~-~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .....+..+.++|.++. .+|++++|+..|++++++.+.....+.......+++.  ++..+++|.+|+.+|+++
T Consensus       112 ~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~--~~~~~g~y~~A~~~~~~~  184 (290)
T d1qqea_         112 QFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCAD--LKALDGQYIEASDIYSKL  184 (290)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHH--HHHHcChHHHHHHHHHHH
Confidence            12244677888998875 5799999999999999999887554455566677777  899999999999999864

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.63  E-value=5e-09  Score=70.63  Aligned_cols=42  Identities=24%  Similarity=0.536  Sum_probs=34.4

Q ss_pred             eecccccccccc---CceecccCcHhHHHhHHhcC-----CCCCCCcCCc
Q 016262           90 LSCMICQALLFE---CSKCTPCSHVYCKACISRFK-----DCPLCGADIE  131 (392)
Q Consensus        90 ~~C~iC~~~~~~---~p~~~~C~h~fC~~Ci~~~~-----~CP~C~~~~~  131 (392)
                      +.|+||++.+..   .++.++|||.||..||.+|.     .||.||.++.
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~   50 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYP   50 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCS
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCC
Confidence            479999998753   24566899999999999994     3999998764

>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=98.49  E-value=1.6e-07  Score=75.09  Aligned_cols=101  Identities=13%  Similarity=0.074  Sum_probs=82.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE  355 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile  355 (392)
                      +..+.++|+.++..|++++|+.+|.++|++       .+.       -+..+.++|.++..+|++++|+..|++++++-.
T Consensus         4 a~~~k~~G~~~~~~~~y~~Ai~~y~~al~~-------~p~-------~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~   69 (128)
T d1elra_           4 ALKEKELGNDAYKKKDFDTALKHYDKAKEL-------DPT-------NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGR   69 (128)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTT-------CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------Ccc-------cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCc
Confidence            456789999999999999999999999976       232       156789999999999999999999999998877


Q ss_pred             Hh-hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          356 SL-TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       356 ~l-~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .. ......+.+...++.  .+..++++..|+.+|++|
T Consensus        70 ~~~~~~~~~a~~~~~lg~--~~~~~~~~~~A~~~~~ka  105 (128)
T d1elra_          70 ENREDYRQIAKAYARIGN--SYFKEEKYKDAIHFYNKS  105 (128)
T ss_dssp             HSTTCHHHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHH--HHHHhCCHHHHHHHHHHH
Confidence            65 433444455666666  888899999999998763

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=98.48  E-value=2e-08  Score=68.34  Aligned_cols=44  Identities=25%  Similarity=0.690  Sum_probs=35.1

Q ss_pred             Cceecccccccccc--Cceec-ccCcHhHHHhHHhcC----CCCCCCcCCc
Q 016262           88 GPLSCMICQALLFE--CSKCT-PCSHVYCKACISRFK----DCPLCGADIE  131 (392)
Q Consensus        88 ~~~~C~iC~~~~~~--~p~~~-~C~h~fC~~Ci~~~~----~CP~C~~~~~  131 (392)
                      +...|+||++.+.+  ..+.+ +|+|.||..||.+|.    .||.||.++.
T Consensus         4 d~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            45679999999874  23444 699999999999995    4999998763

>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=98.40  E-value=1.5e-06  Score=78.90  Aligned_cols=142  Identities=13%  Similarity=0.073  Sum_probs=103.8

Q ss_pred             hhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHH
Q 016262          195 RAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHT  274 (392)
Q Consensus       195 ~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~  274 (392)
                      .++++++|...+..+.+.....     .+.   +.....+..++.++..+|++..|+.+++.+.+.....+.     ...
T Consensus        49 ~~~~~~~A~~~y~kA~~~~~~~-----~~~---~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~-----~~~  115 (290)
T d1qqea_          49 LRKELNLAGDSFLKAADYQKKA-----GNE---DEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQ-----FRR  115 (290)
T ss_dssp             HTTCTHHHHHHHHHHHHHHHHT-----TCH---HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-----HHH
T ss_pred             HCcCHHHHHHHHHHHHHHHHHc-----CCC---HHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhccc-----chh
Confidence            5667888888876554332110     111   112345556677777789999999999999988888755     334


Q ss_pred             HHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          275 LSVSLNKIGDLKYY-GGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       275 l~~~l~~lg~l~~~-~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      ....+.+++.++.. .|++++|+.+|++++++.....        .....+..+.++|.++..+|++.+|+..|++++.+
T Consensus       116 ~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~--------~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~  187 (290)
T d1qqea_         116 GANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQ--------SVALSNKCFIKCADLKALDGQYIEASDIYSKLIKS  187 (290)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcC--------chhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHh
Confidence            45678899998865 6999999999999998766521        11245778899999999999999999999998876


Q ss_pred             HHHh
Q 016262          354 LESL  357 (392)
Q Consensus       354 le~l  357 (392)
                      ....
T Consensus       188 ~~~~  191 (290)
T d1qqea_         188 SMGN  191 (290)
T ss_dssp             TSSC
T ss_pred             Cccc
Confidence            5443

>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=98.34  E-value=7.8e-07  Score=75.39  Aligned_cols=94  Identities=15%  Similarity=0.120  Sum_probs=81.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+.+.|+.++..|++++|+..|.++|++       .+.       -+..+.++|.++..+|++++|+..|++++     
T Consensus         5 ~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~-------~p~-------~~~~~~~lg~~y~~~~~~~~Ai~~~~~al-----   65 (201)
T d2c2la1           5 QELKEQGNRLFVGRKYPEAAACYGRAITR-------NPL-------VAVYYTNRALCYLKMQQPEQALADCRRAL-----   65 (201)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CSC-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHT-----
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh-------CCC-------CHHHHHhHHHHHhhhhhhhhhhHHHHHHH-----
Confidence            45788999999999999999999999976       232       26678899999999999999999999987     


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                       ...|..+....+++.  ++..++++.+|+.+|++|
T Consensus        66 -~l~p~~~~a~~~lg~--~~~~l~~~~~A~~~~~~a   98 (201)
T d2c2la1          66 -ELDGQSVKAHFFLGQ--CQLEMESYDEAIANLQRA   98 (201)
T ss_dssp             -TSCTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             -HhCCCcHHHHHHHHH--HHHHCCCHHHHHHHHHHH
Confidence             567888888888888  999999999999999864

>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=98.31  E-value=1.8e-06  Score=65.16  Aligned_cols=81  Identities=14%  Similarity=0.112  Sum_probs=65.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhh
Q 016262          279 LNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLT  358 (392)
Q Consensus       279 l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~  358 (392)
                      .-+||.+.+..|++.+|+.+|++++++.......       ..+.+..+.++|.++..+|++++|+.+|++++++     
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~-------~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l-----   75 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEIS-------TIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL-----   75 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCC-------SSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhcc-------CccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh-----
Confidence            4589999999999999999999999876542111       1256788999999999999999999999999854     


Q ss_pred             cCCCchhHHHhhcc
Q 016262          359 LKPEEAGLEQRCWN  372 (392)
Q Consensus       359 ~~~~~a~l~~~~~~  372 (392)
                       .|..+....++.-
T Consensus        76 -~P~~~~a~~Nl~~   88 (95)
T d1tjca_          76 -DPEHQRANGNLKY   88 (95)
T ss_dssp             -CTTCHHHHHHHHH
T ss_pred             -CcCCHHHHHHHHH
Confidence             6777766666543

>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=98.29  E-value=2.2e-06  Score=71.36  Aligned_cols=111  Identities=15%  Similarity=0.134  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC--CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          274 TLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV--PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       274 ~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~--~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      .+...+...|..+...|++++|+..|.++|++...........  .......+..+.++|.++..+|++++|+..|++++
T Consensus        25 ~~a~~~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al  104 (169)
T d1ihga1          25 LISEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEAL  104 (169)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhh
Confidence            4456678889999999999999999999998765433222111  11122467778899999999999999999999998


Q ss_pred             HHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          352 KRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       352 ~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                            ..+|..+....+++.  .+..++++.+|+..|++|
T Consensus       105 ------~~~p~~~~a~~~~g~--~~~~l~~~~~A~~~~~~a  137 (169)
T d1ihga1         105 ------EIDPSNTKALYRRAQ--GWQGLKEYDQALADLKKA  137 (169)
T ss_dssp             ------TTCTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             ------hhhhhhhhHHHhHHH--HHHHccCHHHHHHHHHHH
Confidence                  557888888888888  999999999999999864

>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=98.26  E-value=7.1e-07  Score=74.88  Aligned_cols=111  Identities=10%  Similarity=0.028  Sum_probs=85.4

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchh-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          274 TLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQV-LDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       274 ~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~-~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      ..+..+++.|..++..|++++|+..|.+++++............... .-.+..+.++|.++..+|++++|+.+++++|+
T Consensus        11 ~~a~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~   90 (170)
T d1p5qa1          11 EQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALE   90 (170)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhh
Confidence            35667789999999999999999999999986432111000000001 12344567899999999999999999999995


Q ss_pred             HHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          353 RLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       353 ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +      +|.++....+++.  ++..++++.+|+.+|++|
T Consensus        91 ~------~p~~~~a~~~~g~--~~~~~g~~~~A~~~~~~a  122 (170)
T d1p5qa1          91 L------DSNNEKGLSRRGE--AHLAVNDFELARADFQKV  122 (170)
T ss_dssp             H------CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             c------cccchhhhHHHHH--HHHHhhhHHHHHHHHHHH
Confidence            5      7888888889998  999999999999999864

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.15  E-value=1.6e-06  Score=72.40  Aligned_cols=110  Identities=10%  Similarity=0.025  Sum_probs=84.0

Q ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCC-chhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          275 LSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVP-SQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       275 l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~-~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      .+..+...|...+..|++.+|+..|.+++.+............ ......+..+.|+|.++..+|++.+|+.++++++++
T Consensus        14 ~a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l   93 (168)
T d1kt1a1          14 QAAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL   93 (168)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhc
Confidence            4567889999999999999999999999987532111000000 011135566778999999999999999999998854


Q ss_pred             HHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          354 LESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       354 le~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                            +|.+.....+++.  .+..++++..|+..|++|
T Consensus        94 ------~p~~~~a~~~~~~--~~~~l~~~~~A~~~~~~a  124 (168)
T d1kt1a1          94 ------DSANEKGLYRRGE--AQLLMNEFESAKGDFEKV  124 (168)
T ss_dssp             ------CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             ------ccchHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence                  7788877778888  899999999999888764

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.11  E-value=3.8e-07  Score=71.67  Aligned_cols=44  Identities=27%  Similarity=0.634  Sum_probs=34.7

Q ss_pred             ceeccccccccccC-----------------ceecccCcHhHHHhHHhcC---------CCCCCCcCCcc
Q 016262           89 PLSCMICQALLFEC-----------------SKCTPCSHVYCKACISRFK---------DCPLCGADIEK  132 (392)
Q Consensus        89 ~~~C~iC~~~~~~~-----------------p~~~~C~h~fC~~Ci~~~~---------~CP~C~~~~~~  132 (392)
                      +..|+||++.|.+.                 ...++|+|.||..||..|.         .||.||..+..
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhcc
Confidence            45799999987521                 2568999999999999994         49999986643

>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=98.10  E-value=7.3e-06  Score=71.82  Aligned_cols=98  Identities=14%  Similarity=0.072  Sum_probs=81.7

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          273 HTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       273 ~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      ..-+..+-++|.++..+|++++|+..|+++|++       .+.       -+..+.++|.++..+|++++|+..|+++++
T Consensus        34 ~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l-------~p~-------~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   99 (259)
T d1xnfa_          34 DERAQLLYERGVLYDSLGLRALARNDFSQALAI-------RPD-------MPEVFNYLGIYLTQAGNFDAAYEAFDSVLE   99 (259)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CCC-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhcc-------CCC-------CHHHHhhhchHHHHHHHHHHhhhhhhHHHH
Confidence            345678899999999999999999999999976       232       256788999999999999999999999885


Q ss_pred             HHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          353 RLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       353 ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                            .+|..+.....++.  ++..++++..++.+|++|
T Consensus       100 ------~~p~~~~a~~~lg~--~~~~~g~~~~A~~~~~~a  131 (259)
T d1xnfa_         100 ------LDPTYNYAHLNRGI--ALYYGGRDKLAQDDLLAF  131 (259)
T ss_dssp             ------HCTTCTHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             ------HHhhhhhhHHHHHH--HHHHHhhHHHHHHHHHHH
Confidence                  46777777777777  888889999998888753

>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=98.08  E-value=1.2e-05  Score=63.84  Aligned_cols=100  Identities=14%  Similarity=0.211  Sum_probs=81.3

Q ss_pred             cccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCC
Q 016262          235 GMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHS  314 (392)
Q Consensus       235 ~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~  314 (392)
                      +..|..+...|++.+|+.+|.++.+.    .+..       ...+.++|.++..+|++++|+..|+++|++....     
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~----~p~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~-----   71 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKEL----DPTN-------MTYITNQAAVYFEKGDYNKCRELCEKAIEVGREN-----   71 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH----CTTC-------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHS-----
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh----Cccc-------HHHHHhHHHHHHHcCchHHHHHHHHHHHHhCccc-----
Confidence            34555666889999999999988765    3322       2478999999999999999999999999876552     


Q ss_pred             CCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          315 NVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       315 ~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                        ......++.++..+|.++..++++++|+..|++++.
T Consensus        72 --~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          72 --REDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             --TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Confidence              223346788999999999999999999999999874

>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=98.07  E-value=3.5e-06  Score=65.88  Aligned_cols=93  Identities=14%  Similarity=0.163  Sum_probs=78.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          278 SLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       278 ~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      .+.+.|..+...|++++|+..|.++|++       .+.       -+..+.++|.++..+|++++|+..|++++      
T Consensus         5 ~l~~~g~~~~~~g~~~eAi~~~~~al~~-------~p~-------~~~~~~~~a~~~~~~~~~~~A~~~~~~al------   64 (117)
T d1elwa_           5 ELKEKGNKALSVGNIDDALQCYSEAIKL-------DPH-------NHVLYSNRSAAYAKKGDYQKAYEDGCKTV------   64 (117)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTT-------CHHHHHHHHHHHHHHTCHHHHHHHHHHHH------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc-------CCc-------chhhhhcccccccccccccccchhhhhHH------
Confidence            4677899999999999999999998864       333       25678899999999999999999999988      


Q ss_pred             hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          358 TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       358 ~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ..+|.+......++.  .+..++++.+|+..|++|
T Consensus        65 ~~~p~~~~~~~~~g~--~~~~~~~~~~A~~~~~~a   97 (117)
T d1elwa_          65 DLKPDWGKGYSRKAA--ALEFLNRFEEAKRTYEEG   97 (117)
T ss_dssp             HHCTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HhccchhhHHHHHHH--HHHHccCHHHHHHHHHHH
Confidence            446778877888888  899999999999999864

>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=98.03  E-value=4e-06  Score=68.82  Aligned_cols=107  Identities=9%  Similarity=0.022  Sum_probs=83.8

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchh-----h-HHHHHHHHHHHHHHhcCCHHHHHHHH
Q 016262          274 TLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQV-----L-DVAVSLAKVADVDRSIGNEDVAVDGF  347 (392)
Q Consensus       274 ~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~-----~-dla~sl~~l~~v~~~lg~~~~A~~~~  347 (392)
                      ..+..++..|+.++..|++.+|+..|.++|.+....    .......     . -.+..+.|+|.++..+|++++|+..|
T Consensus        15 ~~a~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~----~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~   90 (153)
T d2fbna1          15 QSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHT----EEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHA   90 (153)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTC----TTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcch----hhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhh
Confidence            344567889999999999999999999999764321    1111110     0 12445678999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          348 QEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       348 ~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +++++      .+|.+.....+++.  .+..++++..|+..|++|
T Consensus        91 ~~al~------~~p~~~ka~~~~g~--~~~~lg~~~~A~~~~~~a  127 (153)
T d2fbna1          91 SKVLK------IDKNNVKALYKLGV--ANMYFGFLEEAKENLYKA  127 (153)
T ss_dssp             HHHHH------HSTTCHHHHHHHHH--HHHHHTCHHHHHHHHHHH
T ss_pred             hcccc------ccchhhhhhHHhHH--HHHHcCCHHHHHHHHHHH
Confidence            99884      47888888888888  999999999999999864

>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=98.00  E-value=1.3e-05  Score=65.84  Aligned_cols=95  Identities=11%  Similarity=0.050  Sum_probs=66.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 016262          276 SVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLE  355 (392)
Q Consensus       276 ~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile  355 (392)
                      +..+...|..++..|++++|+..|++++++       .+.       .+..+.++|.++..+|++++|+..|++++++  
T Consensus        10 a~~l~~~gn~~~~~~~y~~A~~~~~~al~~-------~p~-------~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~--   73 (159)
T d1a17a_          10 AEELKTQANDYFKAKDYENAIKFYSQAIEL-------NPS-------NAIYYGNRSLAYLRTECYGYALGDATRAIEL--   73 (159)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------STT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHhhhcccc-------chh-------hhhhhhhhHHHHHhccccchHHHHHHHHHHH--
Confidence            345666778888888888888888877765       221       2556677778888888888888877777643  


Q ss_pred             HhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          356 SLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       356 ~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                          .|........++.  .+..++++..|+..|++|
T Consensus        74 ----~p~~~~a~~~~g~--~~~~~g~~~eA~~~~~~a  104 (159)
T d1a17a_          74 ----DKKYIKGYYRRAA--SNMALGKFRAALRDYETV  104 (159)
T ss_dssp             ----CTTCHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             ----cccchHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence                5666666666666  777777777777777653

>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=97.98  E-value=7.2e-05  Score=62.06  Aligned_cols=127  Identities=13%  Similarity=0.091  Sum_probs=93.1

Q ss_pred             hcccccccccccchhHHHhHHHHHHHHHHhCCCCch----HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Q 016262          234 LGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDL----EIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDA  309 (392)
Q Consensus       234 L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~----e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~  309 (392)
                      +...|..++..|++..|+..|+++............    ...........+++.++..+|++++|+.+++++|.+    
T Consensus        16 l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~----   91 (170)
T d1p5qa1          16 VKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL----   91 (170)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhc----
Confidence            333455555889999999999998877654433221    223444556788999999999999999999999976    


Q ss_pred             hhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhh
Q 016262          310 VKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNH  382 (392)
Q Consensus       310 ~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~  382 (392)
                         .+.+       +..+.++|.++..+|++++|+..|+++++      ..|.+..+...+..  +..-++.+
T Consensus        92 ---~p~~-------~~a~~~~g~~~~~~g~~~~A~~~~~~al~------l~P~n~~~~~~l~~--~~~~~~~~  146 (170)
T d1p5qa1          92 ---DSNN-------EKGLSRRGEAHLAVNDFELARADFQKVLQ------LYPNNKAAKTQLAV--CQQRIRRQ  146 (170)
T ss_dssp             ---CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHH------HCSSCHHHHHHHHH--HHHHHHHH
T ss_pred             ---cccc-------hhhhHHHHHHHHHhhhHHHHHHHHHHHHH------hCCCCHHHHHHHHH--HHHHHHHH
Confidence               2332       55688999999999999999999999885      46677766666655  44444433

>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=97.94  E-value=1.2e-05  Score=62.10  Aligned_cols=90  Identities=11%  Similarity=0.064  Sum_probs=78.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhc
Q 016262          280 NKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTL  359 (392)
Q Consensus       280 ~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~  359 (392)
                      -++|..+...|++++|+..|++++.+       .+.       -+..+.++|.++..+|++++|+..|+++++      .
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~-------~p~-------~~~a~~~lg~~~~~~~~~~~A~~~~~~al~------~   79 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQK-------EPE-------REEAWRSLGLTQAENEKDGLAIIALNHARM------L   79 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH-------STT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH------H
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhccc-------ccc-------cchhhhhhhhhhhhhhhHHHhhcccccccc------c
Confidence            45788899999999999999998865       222       167788999999999999999999999884      5


Q ss_pred             CCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          360 KPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       360 ~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      +|........++.  ++..++++.+|++++++
T Consensus        80 ~p~~~~a~~~la~--~y~~~g~~~~A~~~l~~  109 (112)
T d1hxia_          80 DPKDIAVHAALAV--SHTNEHNANAALASLRA  109 (112)
T ss_dssp             CTTCHHHHHHHHH--HHHHHHHHHHHHHHHHH
T ss_pred             ccccccchHHHHH--HHHHCCCHHHHHHHHHH
Confidence            7888888889999  99999999999999986

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.93  E-value=1.3e-06  Score=65.11  Aligned_cols=29  Identities=34%  Similarity=0.668  Sum_probs=24.9

Q ss_pred             ceecccCcHhHHHhHHhcC----CCCCCCcCCc
Q 016262          103 SKCTPCSHVYCKACISRFK----DCPLCGADIE  131 (392)
Q Consensus       103 p~~~~C~h~fC~~Ci~~~~----~CP~C~~~~~  131 (392)
                      ++.++|+|.|+..||.+|.    .||+||..+.
T Consensus        52 ~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          52 VAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             EEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             eEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            4667999999999999994    4999998764

>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=97.91  E-value=0.00014  Score=59.98  Aligned_cols=124  Identities=13%  Similarity=0.080  Sum_probs=93.0

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCc----hHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhc
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDD----LEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKR  312 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~----~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~  312 (392)
                      .|......|++..|+..|..+...........    ............+++.++..+|++++|+.+|+++|.+       
T Consensus        21 ~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l-------   93 (168)
T d1kt1a1          21 KGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL-------   93 (168)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhc-------
Confidence            34444478899999999999887765544322    2234455667788999999999999999999999866       


Q ss_pred             CCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhh
Q 016262          313 HSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNH  382 (392)
Q Consensus       313 ~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~  382 (392)
                      .+.+       ..++-++|.++..+|++++|+..|++++      ..+|.+..+...+..  +...++.+
T Consensus        94 ~p~~-------~~a~~~~~~~~~~l~~~~~A~~~~~~al------~l~P~n~~~~~~l~~--~~~~~~~~  148 (168)
T d1kt1a1          94 DSAN-------EKGLYRRGEAQLLMNEFESAKGDFEKVL------EVNPQNKAARLQIFM--CQKKAKEH  148 (168)
T ss_dssp             CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHH------HSCTTCHHHHHHHHH--HHHHHHHH
T ss_pred             ccch-------HHHHHHHHHHHHHcCCHHHHHHHHHHHH------HhCCCCHHHHHHHHH--HHHHHHhH
Confidence            3332       5667889999999999999999999987      457788777777666  54444433

>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=97.91  E-value=5.7e-06  Score=70.60  Aligned_cols=136  Identities=15%  Similarity=0.021  Sum_probs=95.7

Q ss_pred             HHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCch
Q 016262          190 AMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDL  269 (392)
Q Consensus       190 a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~  269 (392)
                      ++..+..|+++.|+..+...          ...+       ...+.++|.++..+|++..|+..++++.+.    .+   
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----------~~~~-------~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l----dp---   67 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----------QDPH-------SRICFNIGCMYTILKNMTEAEKAFTRSINR----DK---   67 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----------SSCC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CT---
T ss_pred             HHHHHHCCCHHHHHHHHHhc----------CCCC-------HHHHHHHHHHHHHcCCchhHHHHHHHHHHH----hh---
Confidence            45678899999998887522          1112       234556777777899999999999988653    22   


Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC--CchhhHHHHHHHHHHHHHHhcCCHHHHHHHH
Q 016262          270 EIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV--PSQVLDVAVSLAKVADVDRSIGNEDVAVDGF  347 (392)
Q Consensus       270 e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~--~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~  347 (392)
                          .......++|.++..+|++++|+..|++++...+....-....  ..........+.++|.++..+|++++|++.|
T Consensus        68 ----~~~~a~~~~g~~~~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l  143 (192)
T d1hh8a_          68 ----HLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQL  143 (192)
T ss_dssp             ----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ----hhhhhHHHHHHHHHhhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHH
Confidence                2345788999999999999999999999987533210000000  0001123566789999999999999999999


Q ss_pred             HHHHHH
Q 016262          348 QEAIKR  353 (392)
Q Consensus       348 ~~al~i  353 (392)
                      ++++.+
T Consensus       144 ~~A~~~  149 (192)
T d1hh8a_         144 ALATSM  149 (192)
T ss_dssp             HHHHTT
T ss_pred             HHHHhc
Confidence            887743

>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=97.90  E-value=2.8e-05  Score=70.28  Aligned_cols=93  Identities=11%  Similarity=0.041  Sum_probs=62.3

Q ss_pred             hHHHHHHHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCC
Q 016262          187 VQQAMRAFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPM  266 (392)
Q Consensus       187 ~c~a~~~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~  266 (392)
                      +..+...++.|++++|...+...-       ...+.       +...+..++.++...|++..|+..++.+.+.    .+
T Consensus        23 ~~~g~~~~~~g~~~~A~~~~~~al-------~~~P~-------~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~----~p   84 (323)
T d1fcha_          23 FEEGLRRLQEGDLPNAVLLFEAAV-------QQDPK-------HMEAWQYLGTTQAENEQELLAISALRRCLEL----KP   84 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-------HSCTT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH-------HhCCC-------CHHHHHHHHHHHHHcCChHHHHHHHHhhhcc----cc
Confidence            345667899999999999997432       22222       2334555566666778888888888776543    22


Q ss_pred             CchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          267 DDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLN  304 (392)
Q Consensus       267 ~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~  304 (392)
                      ...       ..+..++.++...|++++|+..|++++.
T Consensus        85 ~~~-------~~~~~la~~~~~~~~~~~A~~~~~~~~~  115 (323)
T d1fcha_          85 DNQ-------TALMALAVSFTNESLQRQACEILRDWLR  115 (323)
T ss_dssp             TCH-------HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccc-------cccccccccccccccccccccchhhHHH
Confidence            222       3456777788888888888888777664

>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=97.88  E-value=9.7e-06  Score=69.08  Aligned_cols=121  Identities=15%  Similarity=0.079  Sum_probs=86.3

Q ss_pred             ccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhh
Q 016262          242 RAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVL  321 (392)
Q Consensus       242 ~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~  321 (392)
                      ...|++..|+..+.       ++.+...       ..+.++|.++..+|++++|+..|+++|++       ++.      
T Consensus        16 ~~~~d~~~Al~~~~-------~i~~~~~-------~~~~nlG~~~~~~g~~~~A~~~~~kAl~l-------dp~------   68 (192)
T d1hh8a_          16 ADKKDWKGALDAFS-------AVQDPHS-------RICFNIGCMYTILKNMTEAEKAFTRSINR-------DKH------   68 (192)
T ss_dssp             HHTTCHHHHHHHHH-------TSSSCCH-------HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CTT------
T ss_pred             HHCCCHHHHHHHHH-------hcCCCCH-------HHHHHHHHHHHHcCCchhHHHHHHHHHHH-------hhh------
Confidence            35677777766653       4444333       35789999999999999999999999865       222      


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh----------hcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          322 DVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL----------TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       322 dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l----------~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                       .+..+.++|.++..+|++++|+..|++++..++.-          ........+..+++.  .+..++++.+++.+|+.
T Consensus        69 -~~~a~~~~g~~~~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~--~~~~~~~~~~A~~~l~~  145 (192)
T d1hh8a_          69 -LAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAF--MYAKKEEWKKAEEQLAL  145 (192)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             -hhhhHHHHHHHHHhhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHH--HHHHCCCHHHHHHHHHH
Confidence             26678899999999999999999999999765432          001111233445555  67778888888877764


Q ss_pred             C
Q 016262          392 A  392 (392)
Q Consensus       392 ~  392 (392)
                      |
T Consensus       146 A  146 (192)
T d1hh8a_         146 A  146 (192)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=97.85  E-value=5.5e-05  Score=62.51  Aligned_cols=124  Identities=15%  Similarity=0.165  Sum_probs=89.0

Q ss_pred             ccccccccchhHHHhHHHHHHHHHHhC---CC--CchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhc
Q 016262          238 GDCCRAMGDADAAVAYFADSVEFLMKL---PM--DDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKR  312 (392)
Q Consensus       238 C~~C~~~gdhh~a~~~~e~~~~~~~~L---~~--~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~  312 (392)
                      +......|++..|+..+.++.......   ..  ....+.......+.+++.++..+|++++|+.+|.++|++       
T Consensus        34 ~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~-------  106 (169)
T d1ihga1          34 GNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI-------  106 (169)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhh-------
Confidence            333347788888888888775443221   11  112345566778899999999999999999999998865       


Q ss_pred             CCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhh
Q 016262          313 HSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHL  383 (392)
Q Consensus       313 ~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~  383 (392)
                      .+.+       +..+-++|.++..+|++++|+..|++++++      .|.+..+...+..  +...++.+.
T Consensus       107 ~p~~-------~~a~~~~g~~~~~l~~~~~A~~~~~~al~l------~p~n~~~~~~l~~--~~~~l~~~~  162 (169)
T d1ihga1         107 DPSN-------TKALYRRAQGWQGLKEYDQALADLKKAQEI------APEDKAIQAELLK--VKQKIKAQK  162 (169)
T ss_dssp             CTTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------CTTCHHHHHHHHH--HHHHHHHHH
T ss_pred             hhhh-------hhHHHhHHHHHHHccCHHHHHHHHHHHHHh------CCCCHHHHHHHHH--HHHHHHHHH
Confidence            2322       566889999999999999999999999964      6667666666655  554554443

>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=97.85  E-value=0.00016  Score=64.55  Aligned_cols=145  Identities=15%  Similarity=0.089  Sum_probs=107.9

Q ss_pred             HHhhhchhhHHHHhhhcHHHHHHHHHhcCCChHHHHHHHhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHH
Q 016262          193 AFRAQNVESAKSRLSLCTEDIRDQIERMGNTSELCSQLGAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEII  272 (392)
Q Consensus       193 ~~~~g~~~~A~~~l~~c~~~~~~~l~~~~~~~~~C~~h~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~  272 (392)
                      ++..|++++|...+..+-       ...+.+..  ......+..++.++...|++..|+.+++++.+.......     .
T Consensus        22 ~~~~g~~~~A~~~~~~aL-------~~~~~~~~--~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~-----~   87 (366)
T d1hz4a_          22 AINDGNPDEAERLAKLAL-------EELPPGWF--YSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDV-----W   87 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHH-------HTCCTTCH--HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTC-----H
T ss_pred             HHHCCCHHHHHHHHHHHH-------hhCcCCCc--HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcc-----h
Confidence            688999999998876332       22222211  112334556677777889999999999999888777654     3


Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          273 HTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       273 ~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      .........++.++...|++..+...|.+++.+.........      ...+.....+|.++..+|+++.|...|++++.
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~------~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~  161 (366)
T d1hz4a_          88 HYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQL------PMHEFLVRIRAQLLWAWARLDEAEASARSGIE  161 (366)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTS------THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchh------hHHHHHHHHHHHHHHHhcchhhhHHHHHHHHH
Confidence            344567788999999999999999999999988776432222      24566677889999999999999999999988


Q ss_pred             HHHHh
Q 016262          353 RLESL  357 (392)
Q Consensus       353 ile~l  357 (392)
                      +.+..
T Consensus       162 ~~~~~  166 (366)
T d1hz4a_         162 VLSSY  166 (366)
T ss_dssp             HTTTS
T ss_pred             Hhhhh
Confidence            77665

>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=97.83  E-value=0.00015  Score=58.85  Aligned_cols=118  Identities=13%  Similarity=0.090  Sum_probs=88.1

Q ss_pred             ccccchhHHHhHHHHHHHHHHhCCCCchH-----HHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC
Q 016262          242 RAMGDADAAVAYFADSVEFLMKLPMDDLE-----IIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV  316 (392)
Q Consensus       242 ~~~gdhh~a~~~~e~~~~~~~~L~~~~~e-----~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~  316 (392)
                      ...|++..|+..|.++.............     ..........+++.++..+|++++|+.+|.++|++       .+.+
T Consensus        28 f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~-------~p~~  100 (153)
T d2fbna1          28 FKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI-------DKNN  100 (153)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------STTC
T ss_pred             HHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhccccc-------cchh
Confidence            37788999999998887766554433222     12233456678999999999999999999998865       3332


Q ss_pred             CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHHh
Q 016262          317 PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKN  381 (392)
Q Consensus       317 ~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~  381 (392)
                             +..+-++|.++..+|++++|+..|++++++      .|.+..+.+.+..  +...|.+
T Consensus       101 -------~ka~~~~g~~~~~lg~~~~A~~~~~~al~l------~P~n~~~~~~l~~--~~~kl~~  150 (153)
T d2fbna1         101 -------VKALYKLGVANMYFGFLEEAKENLYKAASL------NPNNLDIRNSYEL--CVNKLKE  150 (153)
T ss_dssp             -------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH------STTCHHHHHHHHH--HHHHHHH
T ss_pred             -------hhhhHHhHHHHHHcCCHHHHHHHHHHHHHh------CCCCHHHHHHHHH--HHHHHHH
Confidence                   457889999999999999999999998854      6777777766665  5555544

>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=97.78  E-value=8.2e-06  Score=74.48  Aligned_cols=92  Identities=22%  Similarity=0.262  Sum_probs=50.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhh
Q 016262          279 LNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLT  358 (392)
Q Consensus       279 l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~  358 (392)
                      +..++.++...|++++|+..|++++..       .+.       ....+..++.++..+|++++|+..|++++      .
T Consensus       274 ~~~l~~~~~~~~~~~~A~~~~~~~~~~-------~~~-------~~~~~~~l~~~~~~~~~~~~A~~~~~~al------~  333 (388)
T d1w3ba_         274 YCNLANALKEKGSVAEAEDCYNTALRL-------CPT-------HADSLNNLANIKREQGNIEEAVRLYRKAL------E  333 (388)
T ss_dssp             HHHHHHHHHHHSCHHHHHHHHHHHHHH-------CTT-------CHHHHHHHHHHHHTTTCHHHHHHHHHHHT------T
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHhhhcc-------CCc-------cchhhhHHHHHHHHCCCHHHHHHHHHHHH------H
Confidence            444555555555555555555443322       111       12334455566666666666666666554      3


Q ss_pred             cCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          359 LKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       359 ~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      ..|..+.+...++.  ++..++++.+|+.+|++|
T Consensus       334 ~~p~~~~~~~~la~--~~~~~g~~~~A~~~~~~a  365 (388)
T d1w3ba_         334 VFPEFAAAHSNLAS--VLQQQGKLQEALMHYKEA  365 (388)
T ss_dssp             SCTTCHHHHHHHHH--HHHTTTCCHHHHHHHHHH
T ss_pred             hCCCCHHHHHHHHH--HHHHcCCHHHHHHHHHHH
Confidence            45666666666666  666666666666666653

>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=97.78  E-value=1.9e-05  Score=66.35  Aligned_cols=99  Identities=12%  Similarity=-0.006  Sum_probs=79.2

Q ss_pred             hcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcC
Q 016262          234 LGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRH  313 (392)
Q Consensus       234 L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~  313 (392)
                      |...|......|++..|+.+++.+.+.    .+..       ...+.++|.++..+|++++|+.+|+++|++       .
T Consensus         7 l~~~Gn~~~~~g~~~~Ai~~~~kal~~----~p~~-------~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l-------~   68 (201)
T d2c2la1           7 LKEQGNRLFVGRKYPEAAACYGRAITR----NPLV-------AVYYTNRALCYLKMQQPEQALADCRRALEL-------D   68 (201)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH----CSCC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-------C
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh----CCCC-------HHHHHhHHHHHhhhhhhhhhhHHHHHHHHh-------C
Confidence            344455556899999999999888655    2322       357889999999999999999999998765       2


Q ss_pred             CCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          314 SNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       314 ~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      +.       .+..+.++|.++..+|++++|+..|++++++-...
T Consensus        69 p~-------~~~a~~~lg~~~~~l~~~~~A~~~~~~al~l~p~~  105 (201)
T d2c2la1          69 GQ-------SVKAHFFLGQCQLEMESYDEAIANLQRAYSLAKEQ  105 (201)
T ss_dssp             TT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CC-------cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccc
Confidence            32       25568899999999999999999999999877654

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=97.76  E-value=5.3e-06  Score=56.99  Aligned_cols=43  Identities=23%  Similarity=0.576  Sum_probs=34.8

Q ss_pred             CceeccccccccccCceeccc-----CcHhHHHhHHhcC------CCCCCCcCCc
Q 016262           88 GPLSCMICQALLFECSKCTPC-----SHVYCKACISRFK------DCPLCGADIE  131 (392)
Q Consensus        88 ~~~~C~iC~~~~~~~p~~~~C-----~h~fC~~Ci~~~~------~CP~C~~~~~  131 (392)
                      +...|+||++.+. .+...+|     +|.|+..||..|.      .||+||+.+.
T Consensus         5 d~~~C~IC~~~~~-~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           5 DVPVCWICNEELG-NERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECS-CCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCccCCccCC-CceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            4578999999866 6666665     4999999999993      5999998765

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.75  E-value=2.9e-06  Score=63.95  Aligned_cols=42  Identities=19%  Similarity=0.661  Sum_probs=32.1

Q ss_pred             Cceecccccccccc-C-ceecccCcHhHHHhHHhcC------------CCCCCCcC
Q 016262           88 GPLSCMICQALLFE-C-SKCTPCSHVYCKACISRFK------------DCPLCGAD  129 (392)
Q Consensus        88 ~~~~C~iC~~~~~~-~-p~~~~C~h~fC~~Ci~~~~------------~CP~C~~~  129 (392)
                      +...|+||++.+.. + +..++|+|.||..||..|+            .||.|+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   59 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP   59 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCS
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCCC
Confidence            45789999998652 2 5567899999999998873            29986654

>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=97.73  E-value=9e-05  Score=66.23  Aligned_cols=140  Identities=14%  Similarity=0.031  Sum_probs=99.1

Q ss_pred             ccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCC
Q 016262          236 MLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSN  315 (392)
Q Consensus       236 ~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~  315 (392)
                      +.+.+....|++.+|+.+++++++..   +....   ......+..+|.++..+|++++|+..|++++++.....     
T Consensus        17 lrA~~~~~~g~~~~A~~~~~~aL~~~---~~~~~---~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~-----   85 (366)
T d1hz4a_          17 LRAQVAINDGNPDEAERLAKLALEEL---PPGWF---YSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHD-----   85 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTC---CTTCH---HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTT-----
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC---cCCCc---HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhc-----
Confidence            33444457899999999988775432   22221   12245788999999999999999999999998776521     


Q ss_pred             CCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh--hcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          316 VPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL--TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       316 ~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l--~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                         .....+.++.+++.++...|++..|+..|.+++.+....  ...+..+.....++.  ++..++++..++.+|++
T Consensus        86 ---~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~--~~~~~~~~~~a~~~~~~  158 (366)
T d1hz4a_          86 ---VWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQ--LLWAWARLDEAEASARS  158 (366)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHH--HHHHTTCHHHHHHHHHH
T ss_pred             ---chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHH--HHHHhcchhhhHHHHHH
Confidence               123456777889999999999999999999999999887  333333334444444  56666666666665543

>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=97.71  E-value=6.7e-05  Score=61.24  Aligned_cols=97  Identities=10%  Similarity=0.121  Sum_probs=77.1

Q ss_pred             hhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhh
Q 016262          232 AVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVK  311 (392)
Q Consensus       232 ~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~  311 (392)
                      +.|..-|..+...|++..|+..++.+.+.    .+..       ...+.++|.++..+|++++|+..|+++|++.     
T Consensus        11 ~~l~~~gn~~~~~~~y~~A~~~~~~al~~----~p~~-------~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-----   74 (159)
T d1a17a_          11 EELKTQANDYFKAKDYENAIKFYSQAIEL----NPSN-------AIYYGNRSLAYLRTECYGYALGDATRAIELD-----   74 (159)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH----STTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHhhhcccc----chhh-------hhhhhhhHHHHHhccccchHHHHHHHHHHHc-----
Confidence            33444555666899999999999877654    2322       4578999999999999999999999998772     


Q ss_pred             cCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          312 RHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       312 ~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                        +.       -..++.++|.++..+|++++|+..|++++.+
T Consensus        75 --p~-------~~~a~~~~g~~~~~~g~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          75 --KK-------YIKGYYRRAASNMALGKFRAALRDYETVVKV  107 (159)
T ss_dssp             --TT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             --cc-------chHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence              22       1456788999999999999999999998854

>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=97.59  E-value=6.3e-05  Score=67.83  Aligned_cols=94  Identities=17%  Similarity=0.140  Sum_probs=76.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ..+..+|.++...|++++|+..|++++.+.       +.       .+..+.++|.++..+|++++|+..|++++++   
T Consensus       173 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-------p~-------~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---  235 (323)
T d1fcha_         173 DVQCGLGVLFNLSGEYDKAVDCFTAALSVR-------PN-------DYLLWNKLGATLANGNQSEEAVAAYRRALEL---  235 (323)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TT-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---
T ss_pred             ccchhhHHHHHHHHHHhhhhcccccccccc-------cc-------cccchhhhhhcccccccchhHHHHHHHHHHH---
Confidence            456788999999999999999999887542       22       2556778899999999999999999988853   


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                         .|..+.....++.  ++..++++.+|+.+|++|
T Consensus       236 ---~p~~~~a~~~lg~--~~~~~g~~~~A~~~~~~a  266 (323)
T d1fcha_         236 ---QPGYIRSRYNLGI--SCINLGAHREAVEHFLEA  266 (323)
T ss_dssp             ---CTTCHHHHHHHHH--HHHHHTCHHHHHHHHHHH
T ss_pred             ---hhccHHHHHHHHH--HHHHCCCHHHHHHHHHHH
Confidence               6777777778888  888999999999988764

>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=97.53  E-value=7.1e-05  Score=67.95  Aligned_cols=111  Identities=22%  Similarity=0.292  Sum_probs=78.0

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV  316 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~  316 (392)
                      ++.++...|++.+|+..++.....    .+..       ......++.++...|++++|+..|++++++       .+. 
T Consensus       277 l~~~~~~~~~~~~A~~~~~~~~~~----~~~~-------~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-------~p~-  337 (388)
T d1w3ba_         277 LANALKEKGSVAEAEDCYNTALRL----CPTH-------ADSLNNLANIKREQGNIEEAVRLYRKALEV-------FPE-  337 (388)
T ss_dssp             HHHHHHHHSCHHHHHHHHHHHHHH----CTTC-------HHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-------CTT-
T ss_pred             HHHHHHHcCCHHHHHHHHHhhhcc----CCcc-------chhhhHHHHHHHHCCCHHHHHHHHHHHHHh-------CCC-
Confidence            334444556666666665544221    1111       245677888999999999999999988753       232 


Q ss_pred             CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcchhHHHHHH
Q 016262          317 PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWNSSTTNFQK  380 (392)
Q Consensus       317 ~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~  380 (392)
                            .+..+.++|.++..+|++++|+..|++++      ..+|..+.....++.  ++..++
T Consensus       338 ------~~~~~~~la~~~~~~g~~~~A~~~~~~al------~l~P~~~~a~~~lg~--~~~~~~  387 (388)
T d1w3ba_         338 ------FAAAHSNLASVLQQQGKLQEALMHYKEAI------RISPTFADAYSNMGN--TLKEMQ  387 (388)
T ss_dssp             ------CHHHHHHHHHHHHTTTCCHHHHHHHHHHH------TTCTTCHHHHHHHHH--HHHHTC
T ss_pred             ------CHHHHHHHHHHHHHcCCHHHHHHHHHHHH------HhCCCCHHHHHHHHH--HHHHcC
Confidence                  25677889999999999999999999988      457888877777776  655443

>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=97.49  E-value=0.00016  Score=55.99  Aligned_cols=103  Identities=13%  Similarity=0.210  Sum_probs=78.7

Q ss_pred             cccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCC
Q 016262          237 LGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNV  316 (392)
Q Consensus       237 fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~  316 (392)
                      -|..+...|++.+|+.++..+.+.    .+..       ...+.++|.++..+|++++|+..|.+++.+.       +. 
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~----~p~~-------~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-------p~-   69 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKL----DPHN-------HVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-------PD-   69 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH----CTTC-------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-------TT-
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc----CCcc-------hhhhhcccccccccccccccchhhhhHHHhc-------cc-
Confidence            344455788999999999887643    2322       3578899999999999999999999988663       22 


Q ss_pred             CchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhh
Q 016262          317 PSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRC  370 (392)
Q Consensus       317 ~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~  370 (392)
                            ....+.++|.++..+|++++|+..|++++      ...|.+..+...+
T Consensus        70 ------~~~~~~~~g~~~~~~~~~~~A~~~~~~a~------~~~p~~~~~~~~l  111 (117)
T d1elwa_          70 ------WGKGYSRKAAALEFLNRFEEAKRTYEEGL------KHEANNPQLKEGL  111 (117)
T ss_dssp             ------CHHHHHHHHHHHHHTTCHHHHHHHHHHHH------TTCTTCHHHHHHH
T ss_pred             ------hhhHHHHHHHHHHHccCHHHHHHHHHHHH------HhCCCCHHHHHHH
Confidence                  14567899999999999999999999998      4456655544433

>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=97.24  E-value=0.00027  Score=61.29  Aligned_cols=98  Identities=15%  Similarity=0.104  Sum_probs=77.9

Q ss_pred             HhhhcccccccccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q 016262          231 GAVLGMLGDCCRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAV  310 (392)
Q Consensus       231 ~~~L~~fC~~C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~  310 (392)
                      ...+...|.+....|++..|+..++.+.+.    .+..       ...+.++|.++..+|++++|+..|++++++.    
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l----~p~~-------~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~----  101 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAI----RPDM-------PEVFNYLGIYLTQAGNFDAAYEAFDSVLELD----  101 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CCCC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhcc----CCCC-------HHHHhhhchHHHHHHHHHHhhhhhhHHHHHH----
Confidence            445556677777889999999999888654    3333       3467899999999999999999999998762    


Q ss_pred             hcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          311 KRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       311 ~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                         +..       +.++.++|.++..+|++++|+..|++++++
T Consensus       102 ---p~~-------~~a~~~lg~~~~~~g~~~~A~~~~~~al~~  134 (259)
T d1xnfa_         102 ---PTY-------NYAHLNRGIALYYGGRDKLAQDDLLAFYQD  134 (259)
T ss_dssp             ---TTC-------THHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ---hhh-------hhhHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence               222       346788999999999999999999998864

>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=97.18  E-value=0.00019  Score=65.47  Aligned_cols=91  Identities=9%  Similarity=-0.092  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          278 SLNKIGDLKYYGG-DLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       278 ~l~~lg~l~~~~g-~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      +.+..|.+...+| ++++|+.+|++++++.       +.       -..++.++|.++..+|++++|+..|++++     
T Consensus        79 a~~~r~~~l~~l~~~~~eal~~~~~al~~~-------p~-------~~~a~~~~~~~~~~l~~~~eAl~~~~kal-----  139 (315)
T d2h6fa1          79 VWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-------PK-------NYQVWHHRRVLVEWLRDPSQELEFIADIL-----  139 (315)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-------TT-------CHHHHHHHHHHHHHHTCCTTHHHHHHHHH-----
T ss_pred             HHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-------Hh-------hhhHHHHHhHHHHhhccHHHHHHHHhhhh-----
Confidence            4556666655554 4666666666655431       11       13344455555555555555555555544     


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhhccccchh
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFR  390 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~  390 (392)
                       ..+|.+......++.  ++..++++..+|.+|+
T Consensus       140 -~~dp~n~~a~~~~~~--~~~~~~~~~~Al~~~~  170 (315)
T d2h6fa1         140 -NQDAKNYHAWQHRQW--VIQEFKLWDNELQYVD  170 (315)
T ss_dssp             -HHCTTCHHHHHHHHH--HHHHHTCCTTHHHHHH
T ss_pred             -hhhhcchHHHHHHHH--HHHHHHhhHHHHHHHH
Confidence             223444444444444  4444444444444443

>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=97.16  E-value=0.00018  Score=53.49  Aligned_cols=64  Identities=8%  Similarity=-0.061  Sum_probs=56.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh-hcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          327 LAKVADVDRSIGNEDVAVDGFQEAIKRLESL-TLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       327 l~~l~~v~~~lg~~~~A~~~~~~al~ile~l-~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      .-++|.+...+|++.+|+..|++|+++...- ...+..+.++..++.  .+..++++.+|+.+|++|
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~--~~~~~g~~~~A~~~y~~a   72 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSY--AVYQQGDLDKALLLTKKL   72 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhh--HHHhcCChHHHHHHHHHH
Confidence            4478999999999999999999999998876 555566778888998  999999999999999875

>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=96.92  E-value=0.00058  Score=57.08  Aligned_cols=107  Identities=14%  Similarity=0.113  Sum_probs=80.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhh--------HHHHHHHHHHHHHHhcCCHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVL--------DVAVSLAKVADVDRSIGNEDVAVDGFQ  348 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~--------dla~sl~~l~~v~~~lg~~~~A~~~~~  348 (392)
                      ..+.+.|......|++++|+..|.++|++.+.-.-.......+..        .....+.+++.++..+|++++|+..++
T Consensus        12 ~~~~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~   91 (179)
T d2ff4a2          12 VAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELE   91 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHH
Confidence            467788888999999999999999999875421111111111111        234556778999999999999999988


Q ss_pred             HHHHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhc
Q 016262          349 EAIKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRS  391 (392)
Q Consensus       349 ~al~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~  391 (392)
                      +++      ..+|.+..+...+..  .+..++++..+|..|++
T Consensus        92 ~al------~~~P~~e~~~~~l~~--al~~~Gr~~eAl~~y~~  126 (179)
T d2ff4a2          92 ALT------FEHPYREPLWTQLIT--AYYLSDRQSDALGAYRR  126 (179)
T ss_dssp             HHH------HHSTTCHHHHHHHHH--HHHTTTCHHHHHHHHHH
T ss_pred             HHH------HhCCccHHHHHHHHH--HHHHhcCHHHHHHHHHH
Confidence            877      678888888888888  88899999999998876

>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=96.90  E-value=0.00098  Score=50.82  Aligned_cols=86  Identities=9%  Similarity=-0.011  Sum_probs=68.4

Q ss_pred             cccccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchh
Q 016262          241 CRAMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQV  320 (392)
Q Consensus       241 C~~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~  320 (392)
                      ....|++..|+..+++....    .+..       ...+..+|.++...|++++|+..|++++++.       +.     
T Consensus        26 ~~~~g~~~~A~~~~~~al~~----~p~~-------~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-------p~-----   82 (112)
T d1hxia_          26 MLKLANLAEAALAFEAVCQK----EPER-------EEAWRSLGLTQAENEKDGLAIIALNHARMLD-------PK-----   82 (112)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH----STTC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------TT-----
T ss_pred             HHHHhhhHHHHHHHhhhccc----cccc-------chhhhhhhhhhhhhhhHHHhhcccccccccc-------cc-----
Confidence            34678888888888777543    2222       3578899999999999999999999988762       22     


Q ss_pred             hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          321 LDVAVSLAKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       321 ~dla~sl~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                        -..++.++|.++..+|++++|++.+++.+
T Consensus        83 --~~~a~~~la~~y~~~g~~~~A~~~l~~~l  111 (112)
T d1hxia_          83 --DIAVHAALAVSHTNEHNANAALASLRAWL  111 (112)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --cccchHHHHHHHHHCCCHHHHHHHHHHHh
Confidence              25677889999999999999999999865

>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=96.76  E-value=0.00069  Score=65.73  Aligned_cols=79  Identities=16%  Similarity=0.185  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          274 TLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       274 ~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      .....+.++|+++..++++++|+.+|.+++++       .+       +.+...+++|.++...|++.+|+.+|.+|+  
T Consensus       150 ~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l-------~P-------~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral--  213 (497)
T d1ya0a1         150 ICQHCLVHLGDIARYRNQTSQAESYYRHAAQL-------VP-------SNGQPYNQLAILASSKGDHLTTIFYYCRSI--  213 (497)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CT-------TBSHHHHHHHHHHHHTTCHHHHHHHHHHHH--
T ss_pred             CHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH-------CC-------CchHHHHHHHHHHHHcCCHHHHHHHHHHHH--
Confidence            34456667777777777777777777776655       12       224556777777777777777777777765  


Q ss_pred             HHHhhcCCCchhHHHhhcc
Q 016262          354 LESLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       354 le~l~~~~~~a~l~~~~~~  372 (392)
                          ...|.-+....++..
T Consensus       214 ----~~~~~~~~a~~nL~~  228 (497)
T d1ya0a1         214 ----AVKFPFPAASTNLQK  228 (497)
T ss_dssp             ----SSSBCCHHHHHHHHH
T ss_pred             ----hCCCCCHHHHHHHHH
Confidence                344444444555544

>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=96.60  E-value=0.0037  Score=56.53  Aligned_cols=99  Identities=5%  Similarity=-0.033  Sum_probs=82.9

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcC-CHHHHHHHHHHH
Q 016262          272 IHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIG-NEDVAVDGFQEA  350 (392)
Q Consensus       272 ~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg-~~~~A~~~~~~a  350 (392)
                      ......+.+.+|.++...+.+++|+..|++++++       .+++       .....+.|.++..+| ++++|+..|+++
T Consensus        39 ~p~~~~a~~~~~~~~~~~e~~~~Al~~~~~ai~l-------nP~~-------~~a~~~r~~~l~~l~~~~~eal~~~~~a  104 (315)
T d2h6fa1          39 SDKFRDVYDYFRAVLQRDERSERAFKLTRDAIEL-------NAAN-------YTVWHFRRVLLKSLQKDLHEEMNYITAI  104 (315)
T ss_dssp             CHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHH-------CTTC-------HHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHH-------CCCC-------hHHHHHHHHHHHHhCcCHHHHHHHHHHH
Confidence            4566788899999999999999999999888865       4443       566788999988887 489999999988


Q ss_pred             HHHHHHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          351 IKRLESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       351 l~ile~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      +      ..+|....+...++.  ++..++++.+||.+|++|
T Consensus       105 l------~~~p~~~~a~~~~~~--~~~~l~~~~eAl~~~~ka  138 (315)
T d2h6fa1         105 I------EEQPKNYQVWHHRRV--LVEWLRDPSQELEFIADI  138 (315)
T ss_dssp             H------HHCTTCHHHHHHHHH--HHHHHTCCTTHHHHHHHH
T ss_pred             H------HHHHhhhhHHHHHhH--HHHhhccHHHHHHHHhhh
Confidence            7      568888988889988  999999999999998764

>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=96.54  E-value=0.0024  Score=51.03  Aligned_cols=88  Identities=16%  Similarity=0.039  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHH---HHHHHHHHHHHHHHHh-hcCCCchhHHHhhc
Q 016262          296 RSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNED---VAVDGFQEAIKRLESL-TLKPEEAGLEQRCW  371 (392)
Q Consensus       296 ~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~---~A~~~~~~al~ile~l-~~~~~~a~l~~~~~  371 (392)
                      +..|+++++..+.+++.+|.++       ..+.++|.++..++++.   ++...|++|++.+++. ..+|..+....+++
T Consensus        10 ~~~fe~A~~~~e~al~~~P~~~-------~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG   82 (145)
T d1zu2a1          10 ILLFEQIRQDAENTYKSNPLDA-------DNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIG   82 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTCH-------HHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HccHHHHHHHHHHHHhhCCcch-------HHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHH
Confidence            4445566666666667777764       44555555555444332   3445555666666555 77899988888888


Q ss_pred             chhHHHHHH-----------hhhccccchhcC
Q 016262          372 NSSTTNFQK-----------NHLNQLPKFRSA  392 (392)
Q Consensus       372 ~~~~~~~l~-----------~~~~~l~~~~~~  392 (392)
                      .  ++..++           .+.+++.+|++|
T Consensus        83 ~--~y~~~g~~~~~~~~~~~~~~~A~~~~~ka  112 (145)
T d1zu2a1          83 N--AYTSFAFLTPDETEAKHNFDLATQFFQQA  112 (145)
T ss_dssp             H--HHHHHHHHCCCHHHHHHHHHHHHHHHHHH
T ss_pred             H--HHHHcccchhhHHHHHHhHHHhhhhhhcc
Confidence            7  665543           467777777754

>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=96.40  E-value=0.023  Score=44.89  Aligned_cols=96  Identities=13%  Similarity=0.080  Sum_probs=58.0

Q ss_pred             hCCCCchHHHHHHHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhc--
Q 016262          263 KLPMDDLEIIHTLSVSLNKIGDLKYYGGDL---QAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSI--  337 (392)
Q Consensus       263 ~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l---~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~l--  337 (392)
                      ++.+...++       +.++|.++..++++   .++...|+++++..+.+++-.+..       +..+.++|.++..+  
T Consensus        25 ~~~P~~~~~-------~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~-------~~a~~~lG~~y~~~g~   90 (145)
T d1zu2a1          25 KSNPLDADN-------LTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKK-------DEAVWCIGNAYTSFAF   90 (145)
T ss_dssp             HHCTTCHHH-------HHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTC-------HHHHHHHHHHHHHHHH
T ss_pred             hhCCcchHH-------HHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchh-------hHHHhhHHHHHHHccc
Confidence            345555544       44555554433222   233344444555444444455654       44566666666655  


Q ss_pred             --CCHHHHHHHHHHHHHHHHHh-hcCCCchhHHHhhcc
Q 016262          338 --GNEDVAVDGFQEAIKRLESL-TLKPEEAGLEQRCWN  372 (392)
Q Consensus       338 --g~~~~A~~~~~~al~ile~l-~~~~~~a~l~~~~~~  372 (392)
                        ++...+...|++|++.++.. ..+|.+......+..
T Consensus        91 ~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~  128 (145)
T d1zu2a1          91 LTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEM  128 (145)
T ss_dssp             HCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             chhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHH
Confidence              45678888888888888887 888888877766666

>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=96.33  E-value=0.018  Score=44.34  Aligned_cols=99  Identities=8%  Similarity=-0.069  Sum_probs=60.2

Q ss_pred             cchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHHHHHHhhcCCCCCchhh
Q 016262          245 GDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYG---GDLQAARSYYVRSLNVRRDAVKRHSNVPSQVL  321 (392)
Q Consensus       245 gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~---g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~  321 (392)
                      +++.+|...|+.++.    +.+...+       ...+++.+....   +++++|+..|++++       ...+.     .
T Consensus        13 ~~l~~Ae~~Y~~aL~----~~p~~~~-------~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l-------~~~~~-----~   69 (122)
T d1nzna_          13 EDLLKFEKKFQSEKA----AGSVSKS-------TQFEYAWCLVRTRYNDDIRKGIVLLEELL-------PKGSK-----E   69 (122)
T ss_dssp             HHHHHHHHHHHHHHH----HSCCCHH-------HHHHHHHHHTTSSSHHHHHHHHHHHHHHT-------TTSCH-----H
T ss_pred             HHHHHHHHHHHHHHh----hCCCCHH-------HHHHHHHHHHHhcchHHHHHHHHHHHHHH-------hccCC-----c
Confidence            344455555544422    3344444       445566555433   34445666666554       32221     1


Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhcCCCchhHHHhhcc
Q 016262          322 DVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESLTLKPEEAGLEQRCWN  372 (392)
Q Consensus       322 dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l~~~~~~a~l~~~~~~  372 (392)
                      +.+..+.++|.++..+|++++|+.+|+++++      ..|.+...+..+..
T Consensus        70 ~~~~~~~~Lg~~y~~~g~~~~A~~~~~~aL~------~~P~~~~A~~l~~~  114 (122)
T d1nzna_          70 EQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ------TEPQNNQAKELERL  114 (122)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH------HCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH------hCcCCHHHHHHHHH
Confidence            2356788999999999999999999999984      46777665555544

>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=96.20  E-value=0.016  Score=55.63  Aligned_cols=83  Identities=14%  Similarity=0.088  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       277 ~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                      ....++|.++...|+.++|+..|.+++...                ....+.++|+++..+|++++|+.+|++|+++   
T Consensus       121 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~----------------~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l---  181 (497)
T d1ya0a1         121 VKSSQLGIISNKQTHTSAIVKPQSSSCSYI----------------CQHCLVHLGDIARYRNQTSQAESYYRHAAQL---  181 (497)
T ss_dssp             ----------------------CCHHHHHH----------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---
T ss_pred             HHHHHhHHHHHhCCCHHHHHHHHHHHhCCC----------------HHHHHHHHHHHHHHcccHHHHHHHHHHHHHH---
Confidence            345677777777788888888777776432                2345667788888888888888888887743   


Q ss_pred             hhcCCCchhHHHhhcchhHHHHHHhhh
Q 016262          357 LTLKPEEAGLEQRCWNSSTTNFQKNHL  383 (392)
Q Consensus       357 l~~~~~~a~l~~~~~~~~~~~~l~~~~  383 (392)
                         .|.+....+.++.  ++...+++.
T Consensus       182 ---~P~~~~~~~~Lg~--~~~~~~~~~  203 (497)
T d1ya0a1         182 ---VPSNGQPYNQLAI--LASSKGDHL  203 (497)
T ss_dssp             ---CTTBSHHHHHHHH--HHHHTTCHH
T ss_pred             ---CCCchHHHHHHHH--HHHHcCCHH
Confidence               5666666666665  444444333

>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=95.95  E-value=0.0026  Score=49.42  Aligned_cols=91  Identities=14%  Similarity=-0.060  Sum_probs=56.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh-hcC
Q 016262          282 IGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL-TLK  360 (392)
Q Consensus       282 lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l-~~~  360 (392)
                      |.+.....+++++|...|+++|.+       .+..       ..++.++|.++...++..    .+++|+.+++.+ ..+
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~-------~p~~-------~~~~~n~a~~L~~s~~~~----d~~~Ai~~l~~~l~~~   66 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAA-------GSVS-------KSTQFEYAWCLVRTRYND----DIRKGIVLLEELLPKG   66 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH-------SCCC-------HHHHHHHHHHHTTSSSHH----HHHHHHHHHHHHTTTS
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhh-------CCCC-------HHHHHHHHHHHHHhcchH----HHHHHHHHHHHHHhcc
Confidence            333444455677777777776643       4443       334556666555444332    234555555554 444


Q ss_pred             CCc--hhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          361 PEE--AGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       361 ~~~--a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                      |..  +..+..++.  .+..++++.+|+.+|++|
T Consensus        67 ~~~~~~~~~~~Lg~--~y~~~g~~~~A~~~~~~a   98 (122)
T d1nzna_          67 SKEEQRDYVFYLAV--GNYRLKEYEKALKYVRGL   98 (122)
T ss_dssp             CHHHHHHHHHHHHH--HHHHTTCHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHH--HHHHHhhhHHHHHHHHHH
Confidence            333  346677888  899999999999999874

>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=94.25  E-value=0.12  Score=42.10  Aligned_cols=76  Identities=8%  Similarity=0.000  Sum_probs=60.8

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          273 HTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       273 ~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      ........+++.++..+|++++|+..++++|.+       ++.+       ......++.++..+|++.+|+..|++...
T Consensus        64 ~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~-------~P~~-------e~~~~~l~~al~~~Gr~~eAl~~y~~~~~  129 (179)
T d2ff4a2          64 EDKVLAHTAKAEAEIACGRASAVIAELEALTFE-------HPYR-------EPLWTQLITAYYLSDRQSDALGAYRRVKT  129 (179)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------STTC-------HHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHh-------CCcc-------HHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            334457788999999999999999999988764       2221       34567889999999999999999999999


Q ss_pred             HHHHh-hcCCC
Q 016262          353 RLESL-TLKPE  362 (392)
Q Consensus       353 ile~l-~~~~~  362 (392)
                      .+..- ...|.
T Consensus       130 ~L~~eLG~~P~  140 (179)
T d2ff4a2         130 TLADDLGIDPG  140 (179)
T ss_dssp             HHHHHHSCCCC
T ss_pred             HHHHHhCCCcC
Confidence            98764 66654

>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=92.53  E-value=0.13  Score=45.49  Aligned_cols=95  Identities=7%  Similarity=-0.199  Sum_probs=71.8

Q ss_pred             HHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q 016262          277 VSLNKIGDLKYYGG--DLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRL  354 (392)
Q Consensus       277 ~~l~~lg~l~~~~g--~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~il  354 (392)
                      ..+..++.++..++  ++++|+..+++++++       .+..      ........+.++...|.+++|+..+++++   
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~-------~~~~------~~~~~~~~~~~~~~~~~~~~Al~~~~~~i---  171 (334)
T d1dcea1         108 GTWHHRCWLLSRLPEPNWARELELCARFLEA-------DERN------FHCWDYRRFVAAQAAVAPAEELAFTDSLI---  171 (334)
T ss_dssp             HHHHHHHHHHHTCSSCCHHHHHHHHHHHHHH-------CTTC------HHHHHHHHHHHHHTCCCHHHHHHHHHTTT---
T ss_pred             HHHHHhhHHHHHhccccHHHHHHHHHHHHhh-------Cchh------hhhhhhHHHHHHHhccccHHHHHHHHHHH---
Confidence            34567777776665  588888888887765       2221      12223456889999999999988887765   


Q ss_pred             HHhhcCCCchhHHHhhcchhHHHHHHhhhccccchhcC
Q 016262          355 ESLTLKPEEAGLEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       355 e~l~~~~~~a~l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                         ..+|.+......++.  ++..++++.+++..|+++
T Consensus       172 ---~~~p~~~~a~~~l~~--~~~~~~~~~~A~~~~~~~  204 (334)
T d1dcea1         172 ---TRNFSNYSSWHYRSC--LLPQLHPQPDSGPQGRLP  204 (334)
T ss_dssp             ---TTTCCCHHHHHHHHH--HHHHHSCCCCSSSCCSSC
T ss_pred             ---HcCCCCHHHHHHHHH--HHHHhcCHHHHHHHHHHh
Confidence               678899998888888  999999999999988764

>d2csva1 g.43.1.1 (A:8-66) Tripartite motif-containing protein 29 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: B-box zinc-binding domain
superfamily: B-box zinc-binding domain
family: B-box zinc-binding domain
domain: Tripartite motif-containing protein 29
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.43  E-value=0.0051  Score=41.26  Aligned_cols=35  Identities=14%  Similarity=0.274  Sum_probs=29.0

Q ss_pred             HHHHHHhhhccccc--------ccccccch--hHHHhHHHHHHHHH
Q 016262          226 LCSQLGAVLGMLGD--------CCRAMGDA--DAAVAYFADSVEFL  261 (392)
Q Consensus       226 ~C~~h~~~L~~fC~--------~C~~~gdh--h~a~~~~e~~~~~~  261 (392)
                      .|+.|++.|.+||.        .| ..++|  |..+++.+++.+.+
T Consensus        13 ~C~~H~e~l~lyC~~c~~~iC~~C-~~~~H~~H~~~~l~~a~~~~k   57 (59)
T d2csva1          13 KCPVHGKTMELFCQTDQTCICYLC-MFQEHKNHSTVTVEEAKAEKE   57 (59)
T ss_dssp             BCTTTCCBCCEEESSSCCEECHHH-HHTTTSSSCEEEHHHHHHHHS
T ss_pred             chhhhCCccceECCCCCceECccc-CcccCCCCCeeCHHHHHHHHh
Confidence            79999999999996        57 67888  99999988776543

>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=88.37  E-value=0.68  Score=39.96  Aligned_cols=52  Identities=17%  Similarity=0.151  Sum_probs=40.9

Q ss_pred             hcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 016262          288 YGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKR  353 (392)
Q Consensus       288 ~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~i  353 (392)
                      ..|++++|+..|+++|+       ..+.+       +.....++.++...|++++|+..|++++++
T Consensus         8 ~~G~l~eAl~~l~~al~-------~~P~d-------~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIK-------ASPKD-------ASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             TTTCHHHHHHHHHHHHH-------TCTTC-------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH-------HCCCC-------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            35888888888887653       44443       556788999999999999999999998754

>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=86.79  E-value=2.6  Score=36.49  Aligned_cols=123  Identities=7%  Similarity=-0.015  Sum_probs=67.5

Q ss_pred             ccch-hHHHhHHHHHHHHHHhCCCCchHHHH---HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCch
Q 016262          244 MGDA-DAAVAYFADSVEFLMKLPMDDLEIIH---TLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQ  319 (392)
Q Consensus       244 ~gdh-h~a~~~~e~~~~~~~~L~~~~~e~~~---~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~  319 (392)
                      .+++ .+|+.+++...+    +.+....+..   .+-..+..++.+....|++++|+.+|++++       ...+.+   
T Consensus        41 ~~~~~~~al~~~~~~l~----~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l-------~~~pk~---  106 (334)
T d1dcea1          41 AGELDESVLELTSQILG----ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCL-------RVNPKS---  106 (334)
T ss_dssp             TTCCSHHHHHHHHHHHH----HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHH-------HHCTTC---
T ss_pred             cccccHHHHHHHHHHHH----HCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHH-------HhCCCc---
Confidence            4444 566666665533    3343433222   222223333333444444555555555544       445543   


Q ss_pred             hhHHHHHHHHHHHHHHhcCC--HHHHHHHHHHHHHHHHHhhcCCCchh-HHHhhcchhHHHHHHhhhccccchhcC
Q 016262          320 VLDVAVSLAKVADVDRSIGN--EDVAVDGFQEAIKRLESLTLKPEEAG-LEQRCWNSSTTNFQKNHLNQLPKFRSA  392 (392)
Q Consensus       320 ~~dla~sl~~l~~v~~~lg~--~~~A~~~~~~al~ile~l~~~~~~a~-l~~~~~~~~~~~~l~~~~~~l~~~~~~  392 (392)
                          .....++|.++..++.  +++|+..+++++++      +|.... +....+.  .+...+.+.++|.+|++|
T Consensus       107 ----~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~------~~~~~~~~~~~~~~--~~~~~~~~~~Al~~~~~~  170 (334)
T d1dcea1         107 ----YGTWHHRCWLLSRLPEPNWARELELCARFLEA------DERNFHCWDYRRFV--AAQAAVAPAEELAFTDSL  170 (334)
T ss_dssp             ----HHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHH------CTTCHHHHHHHHHH--HHHTCCCHHHHHHHHHTT
T ss_pred             ----HHHHHHhhHHHHHhccccHHHHHHHHHHHHhh------CchhhhhhhhHHHH--HHHhccccHHHHHHHHHH
Confidence                3445667777777754  78888888887754      444443 3344555  666777778888877754

>d1wfda_ a.7.14.1 (A:) Hypothetical protein 1500032H18Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: MIT domain
family: MIT domain
domain: Hypothetical protein 1500032H18Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.47  E-value=0.75  Score=33.04  Aligned_cols=36  Identities=25%  Similarity=0.142  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Q 016262          322 DVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL  357 (392)
Q Consensus       322 dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l  357 (392)
                      .-|..|.+.|.-....|++++|+.+|.+++++|..+
T Consensus        13 ~~A~~l~~~Av~~D~~g~y~eA~~~Y~~aie~l~~~   48 (93)
T d1wfda_          13 TAAVAVLKRAVELDAESRYQQALVCYQEGIDMLLQV   48 (93)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence            446666777778888999999999999999999998

>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=85.60  E-value=0.83  Score=34.71  Aligned_cols=29  Identities=10%  Similarity=-0.047  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 016262          324 AVSLAKVADVDRSIGNEDVAVDGFQEAIK  352 (392)
Q Consensus       324 a~sl~~l~~v~~~lg~~~~A~~~~~~al~  352 (392)
                      ...|-.||..+..+|++++|+.+++.+++
T Consensus        73 rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          73 RECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            45677889999999999999999998874

>d1wr0a1 a.7.14.1 (A:5-81) Vacuolar sorting protein 4b (VPS4B, SKD1 protein) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: MIT domain
family: MIT domain
domain: Vacuolar sorting protein 4b (VPS4B, SKD1 protein)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.89  E-value=1.1  Score=30.89  Aligned_cols=43  Identities=23%  Similarity=0.329  Sum_probs=33.2

Q ss_pred             hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh-hcCCCc
Q 016262          321 LDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLESL-TLKPEE  363 (392)
Q Consensus       321 ~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~l-~~~~~~  363 (392)
                      ++-|..+.+-|.-....|++++|+..|.++++.+... ...+.+
T Consensus         8 l~~A~~l~~~Av~~D~~~~y~~A~~~Y~~a~~~l~~~l~~e~~~   51 (77)
T d1wr0a1           8 LQKAIDLASKAAQEDKAGNYEEALQLYQHAVQYFLHVVKYEAQG   51 (77)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSSHHHHHHHHHHHHHHHHHHSCCT
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHhccCCC
Confidence            3446666666777788899999999999999999887 444333

>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=82.28  E-value=5.4  Score=33.87  Aligned_cols=103  Identities=10%  Similarity=0.079  Sum_probs=64.3

Q ss_pred             cccchhHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH----------HHH---
Q 016262          243 AMGDADAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVR----------RDA---  309 (392)
Q Consensus       243 ~~gdhh~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~----------~~~---  309 (392)
                      ..|++.+|+..+++.    -+..+.+.       .....++.++...|++++|+..|++++++.          ..+   
T Consensus         8 ~~G~l~eAl~~l~~a----l~~~P~d~-------~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a   76 (264)
T d1zbpa1           8 SEGQLQQALELLIEA----IKASPKDA-------SLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKA   76 (264)
T ss_dssp             TTTCHHHHHHHHHHH----HHTCTTCH-------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHH----HHHCCCCH-------HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh
Confidence            456667777766654    23344444       356788999999999999999999988642          110   


Q ss_pred             ------hhcCCCCCchh--hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 016262          310 ------VKRHSNVPSQV--LDVAVSLAKVADVDRSIGNEDVAVDGFQEAIKRLES  356 (392)
Q Consensus       310 ------~~~~~~~~~~~--~dla~sl~~l~~v~~~lg~~~~A~~~~~~al~ile~  356 (392)
                            ...........  .+-...+-..+.+....|++++|++.++++.++.-.
T Consensus        77 ~~~~~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~  131 (264)
T d1zbpa1          77 AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQE  131 (264)
T ss_dssp             HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC
T ss_pred             ccccHHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC
Confidence                  00011111111  122333444578888899999999999888765433

>d1frea_ g.43.1.1 (A:) Nuclear factor XNF7 {African clawed frog (Xenopus laevis) [TaxId: 8355]}

class: Small proteins
fold: B-box zinc-binding domain
superfamily: B-box zinc-binding domain
family: B-box zinc-binding domain
domain: Nuclear factor XNF7
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

Probab=82.06  E-value=0.017  Score=35.05  Aligned_cols=27  Identities=19%  Similarity=0.277  Sum_probs=20.0

Q ss_pred             HHHHHHhhhccccc--------ccccccch--hHHHh
Q 016262          226 LCSQLGAVLGMLGD--------CCRAMGDA--DAAVA  252 (392)
Q Consensus       226 ~C~~h~~~L~~fC~--------~C~~~gdh--h~a~~  252 (392)
                      .|+.|++.|++||.        .|...|+|  |.++|
T Consensus         2 ~C~~H~e~l~lfC~~d~~~iC~~C~~~~~H~~H~v~p   38 (39)
T d1frea_           2 KCSEHDERLKLYCKDDGTLSCVICRDSLKHASHNFLP   38 (39)
T ss_dssp             CCCSSCSSCCCCCCSSSSSSCCTTSSCSSCTTCCCCC
T ss_pred             CCcccCcceeEEcccCCcEeeccCcCCCCcCCCcEee
Confidence            47889999999996        56556777  65544

>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=80.84  E-value=15  Score=30.98  Aligned_cols=94  Identities=13%  Similarity=0.089  Sum_probs=50.1

Q ss_pred             hHHHhHHHHHHHHHHhCCCCchHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHH
Q 016262          248 DAAVAYFADSVEFLMKLPMDDLEIIHTLSVSLNKIGDLKYYGGDLQAARSYYVRSLNVRRDAVKRHSNVPSQVLDVAVSL  327 (392)
Q Consensus       248 h~a~~~~e~~~~~~~~L~~~~~e~~~~l~~~l~~lg~l~~~~g~l~~A~~~~e~aL~i~~~~~~~~~~~~~~~~dla~sl  327 (392)
                      .++..+|+.++....   . ..++-..-..-+..-+.+....|+...+...++++.++...++.......      ....
T Consensus        33 ~Rv~~vyerAl~~~~---~-~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~------~~l~  102 (308)
T d2onda1          33 KRVMFAYEQCLLVLG---H-HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKN------MLLY  102 (308)
T ss_dssp             HHHHHHHHHHHHHHT---T-CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTC------HHHH
T ss_pred             HHHHHHHHHHHHHCC---C-CHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCC------HHHH
Confidence            345555555544332   1 22232222333444455555566666666666666666666554322211      1223


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHH
Q 016262          328 AKVADVDRSIGNEDVAVDGFQEAI  351 (392)
Q Consensus       328 ~~l~~v~~~lg~~~~A~~~~~~al  351 (392)
                      ...+.+...+|+.++|...|++++
T Consensus       103 ~~ya~~~~~~~~~~~a~~i~~~~l  126 (308)
T d2onda1         103 FAYADYEESRMKYEKVHSIYNRLL  126 (308)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHH
Confidence            345667777888888887777766

>d2dida1 g.43.1.1 (A:8-47) Tripartite motif-containing protein 39 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: B-box zinc-binding domain
superfamily: B-box zinc-binding domain
family: B-box zinc-binding domain
domain: Tripartite motif-containing protein 39
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.45  E-value=0.02  Score=34.99  Aligned_cols=27  Identities=22%  Similarity=0.372  Sum_probs=20.0

Q ss_pred             HHHHHHhhhccccc--------ccccccch--hHHHh
Q 016262          226 LCSQLGAVLGMLGD--------CCRAMGDA--DAAVA  252 (392)
Q Consensus       226 ~C~~h~~~L~~fC~--------~C~~~gdh--h~a~~  252 (392)
                      +|+.|++.|++||.        .|...|+|  |..+|
T Consensus         3 ~C~~H~e~l~lfC~~d~~~iC~~C~~~~~H~~H~v~p   39 (40)
T d2dida1           3 LCPQHHEALSLFCYEDQEAVCLICAISHTHRAHTVVP   39 (40)
T ss_dssp             BCTTTCCBCCEEESSSCSEECHHHHTSSTTTTSCEEE
T ss_pred             cchhhCccceEEcccCCcEeeccCcCCCCcCCCcEec
Confidence            58899999999996        56556777  65443