Psyllid ID: psy16189

---

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--
Protein Sequence
MSLGQVSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAGTLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLES
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHcccccccccccccccccccccccccHHHHHHHHHHHcccccccccccccccccEEEEccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccccccccEEEEEcccEccHHHHHHHHHHHHHHcccccccccccccEEEEEcc
Coil and Loop (DISEMBL)
mslgqvsgnEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAGTLDEVMMEEIREYKetltcpsckvkrkdavltkcfHVFCWDCLRTRYetrqrkcpkcnaafgandyhrlyles
Flexible Loop (DISEMBL)
mslgqvsgNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKtssleaeayktkRLQEEIAqlrrktermkkieqagtldevMMEEIREYketltcpsckvkrkdavltkcFHVFCWDCLRTRyetrqrkcpkcnaafgandyhrlyles
Low Complexity Region (SEG)
MSLGQVSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAGTLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLES
Disordered region (IsUnstruct)
*******************************************************************DILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHL**********************************************************************************VMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYL**
Disordered Region (DISOPRED)
************************************************************************************************************************************************************************************RMKKIEQAGTLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLES
Disordered Region (DISEMBL)
*********EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAGTLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLES
Disordered Region (DISPRO)
*S***VSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAGTLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLES
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSLGQVSGNEEEALLNEMEVTGQAxxxxxxxxxxxxxxxxxxxxxNFKLMTERIKSNQLxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxLHLRNQAMDLNKRKAIESAQSxxxxxxxxxxxxxxxxxxxxxVTEKTSSxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxGTLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLES
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	262	2.2.26 [Sep-21-2011]
Q9VRP9	1044	E3 ubiquitin-protein liga	yes	N/A	0.977	0.245	0.809	1e-121
Q5RAU7	1001	E3 ubiquitin-protein liga	yes	N/A	0.958	0.250	0.645	2e-92
O75150	1001	E3 ubiquitin-protein liga	no	N/A	0.958	0.250	0.645	2e-92
Q4R7K7	1001	E3 ubiquitin-protein liga	N/A	N/A	0.958	0.250	0.645	3e-92
Q8CJB9	1002	E3 ubiquitin-protein liga	yes	N/A	0.958	0.250	0.645	5e-92
Q3U319	1001	E3 ubiquitin-protein liga	yes	N/A	0.958	0.250	0.645	5e-92
A2VDP1	975	E3 ubiquitin-protein liga	no	N/A	0.958	0.257	0.617	2e-83
Q5VTR2	975	E3 ubiquitin-protein liga	no	N/A	0.958	0.257	0.617	2e-83
Q5DTM8	973	E3 ubiquitin-protein liga	no	N/A	0.958	0.257	0.617	3e-83
Q5ZLS3	984	E3 ubiquitin-protein liga	yes	N/A	0.958	0.255	0.613	7e-83

>sp|Q9VRP9|BRE1_DROME E3 ubiquitin-protein ligase Bre1 OS=Drosophila melanogaster GN=Bre1 PE=1 SV=2

 Score =  432 bits (1112), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 208/257 (80%), Positives = 233/257 (90%), Gaps = 1/257 (0%)

Query: 6    VSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLARE 65
            V  +EEEALLNEMEVTGQAFEDMQEQNSRL+QQLREKDDANFKLM+ERIK+NQLHKL RE
Sbjct: 788  VGSHEEEALLNEMEVTGQAFEDMQEQNSRLIQQLREKDDANFKLMSERIKANQLHKLLRE 847

Query: 66   EKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIE 125
            EK +L +Q+     QI+AMH  +RKLEEKER LQ  + ++EKEL LR QAM+++KRKAIE
Sbjct: 848  EKTVLEDQMATATTQIEAMHIVLRKLEEKERSLQATVASIEKELMLRQQAMEMHKRKAIE 907

Query: 126  SAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKI 185
            SAQSAADLKLHLEKYHAQ+KEAQQVV EKTSSLEAEAYKTKRLQEE+AQ +RK ERMKK+
Sbjct: 908  SAQSAADLKLHLEKYHAQMKEAQQVVAEKTSSLEAEAYKTKRLQEELAQFKRKAERMKKM 967

Query: 186  EQAG-TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCP 244
            E +G T+DEVM+EEIREYKETLTCPSCKVKRKDAVL+KCFHVFC+DCLRTRYETRQRKCP
Sbjct: 968  EMSGTTIDEVMIEEIREYKETLTCPSCKVKRKDAVLSKCFHVFCYDCLRTRYETRQRKCP 1027

Query: 245  KCNAAFGANDYHRLYLE 261
            KCN AFGANDYHRLYL+
Sbjct: 1028 KCNCAFGANDYHRLYLQ 1044

E3 ubiquitin-protein ligase that mediates monoubiquitination of 'Lys-117' of histone H2B. H2B 'Lys-117' ubiquitination gives a specific tag for epigenetic transcriptional activation and is also prerequisite for histone H3 'Lys-4' and 'Lys-79' methylation. It thereby plays a central role in histone code and gene regulation. Required for the expression of Notch target genes in development by affecting the levels of Su(H) in imaginal disk cells and stimulating the Su(H)-mediated transcription of Notch-specific genes.
Drosophila melanogaster (taxid: 7227)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q5RAU7|BRE1B_PONAB E3 ubiquitin-protein ligase BRE1B OS=Pongo abelii GN=RNF40 PE=2 SV=1

 Score =  338 bits (867), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 162/251 (64%), Positives = 201/251 (80%)

Query: 10   EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
            EEEALL+EM+VTGQAFEDMQEQN RLLQQLREKDDANFKLM+ERIK+NQ+HKL REEKD 
Sbjct: 750  EEEALLSEMDVTGQAFEDMQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDE 809

Query: 70   LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
            L EQV  LK Q+DA    ++KLEEKER LQ  L  VEKEL LR+QA++LNKRKA+E+AQ 
Sbjct: 810  LGEQVLGLKSQVDAQLLTVQKLEEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQL 869

Query: 130  AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
            A DLK+ LE    +L+E Q  + E  ++ E E++  KR QE+I++LRRK E+ +K+E   
Sbjct: 870  AEDLKVQLEHVQTRLREIQPCLAESRAAREKESFNLKRAQEDISRLRRKLEKQRKVEVYA 929

Query: 190  TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
              DE++ EEI+EYK  LTCP C  ++KDAVLTKCFHVFC++C+R RYE RQRKCPKCNAA
Sbjct: 930  DADEILQEEIKEYKARLTCPCCNTRKKDAVLTKCFHVFCFECVRGRYEARQRKCPKCNAA 989

Query: 250  FGANDYHRLYL 260
            FGA+D+HR+Y+
Sbjct: 990  FGAHDFHRIYI 1000

Component of the RNF20/40 E3 ubiquitin-protein ligase complex that mediates monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1). H2BK120ub1 gives a specific tag for epigenetic transcriptional activation and is also prerequisite for histone H3 'Lys-4' and 'Lys-79' methylation (H3K4me and H3K79me, respectively). It thereby plays a central role in histone code and gene regulation. The RNF20/40 complex forms a H2B ubiquitin ligase complex in cooperation with the E2 enzyme UBE2A or UBE2B; reports about the cooperation with UBE2E1/UBCH are contradictory. Required for transcriptional activation of Hox genes.

Pongo abelii (taxid: 9601)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|O75150|BRE1B_HUMAN E3 ubiquitin-protein ligase BRE1B OS=Homo sapiens GN=RNF40 PE=1 SV=4

 Score =  338 bits (867), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 162/251 (64%), Positives = 201/251 (80%)

Query: 10   EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
            EEEALL+EM+VTGQAFEDMQEQN RLLQQLREKDDANFKLM+ERIK+NQ+HKL REEKD 
Sbjct: 750  EEEALLSEMDVTGQAFEDMQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDE 809

Query: 70   LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
            L EQV  LK Q+DA    ++KLEEKER LQ  L  VEKEL LR+QA++LNKRKA+E+AQ 
Sbjct: 810  LGEQVLGLKSQVDAQLLTVQKLEEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQL 869

Query: 130  AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
            A DLK+ LE    +L+E Q  + E  ++ E E++  KR QE+I++LRRK E+ +K+E   
Sbjct: 870  AEDLKVQLEHVQTRLREIQPCLAESRAAREKESFNLKRAQEDISRLRRKLEKQRKVEVYA 929

Query: 190  TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
              DE++ EEI+EYK  LTCP C  ++KDAVLTKCFHVFC++C+R RYE RQRKCPKCNAA
Sbjct: 930  DADEILQEEIKEYKARLTCPCCNTRKKDAVLTKCFHVFCFECVRGRYEARQRKCPKCNAA 989

Query: 250  FGANDYHRLYL 260
            FGA+D+HR+Y+
Sbjct: 990  FGAHDFHRIYI 1000

Component of the RNF20/40 E3 ubiquitin-protein ligase complex that mediates monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1). H2BK120ub1 gives a specific tag for epigenetic transcriptional activation and is also prerequisite for histone H3 'Lys-4' and 'Lys-79' methylation (H3K4me and H3K79me, respectively). It thereby plays a central role in histone code and gene regulation. The RNF20/40 complex forms a H2B ubiquitin ligase complex in cooperation with the E2 enzyme UBE2A or UBE2B; reports about the cooperation with UBE2E1/UBCH are contradictory. Required for transcriptional activation of Hox genes.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q4R7K7|BRE1B_MACFA E3 ubiquitin-protein ligase BRE1B OS=Macaca fascicularis GN=RNF40 PE=2 SV=1

 Score =  338 bits (867), Expect = 3e-92,   Method: Compositional matrix adjust.
 Identities = 162/251 (64%), Positives = 201/251 (80%)

Query: 10   EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
            EEEALL+EM+VTGQAFEDMQEQN RLLQQLREKDDANFKLM+ERIK+NQ+HKL REEKD 
Sbjct: 750  EEEALLSEMDVTGQAFEDMQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDE 809

Query: 70   LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
            L EQV  LK Q+DA    ++KLEEKER LQ  L  VEKEL LR+QA++LNKRKA+E+AQ 
Sbjct: 810  LGEQVLGLKSQVDAQLLTVQKLEEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQL 869

Query: 130  AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
            A DLK+ LE    +L+E Q  + E  ++ E E++  KR QE+I++LRRK E+ +K+E   
Sbjct: 870  AEDLKVQLEHVQTRLREIQPCLAESRAAREKESFNLKRAQEDISRLRRKLEKQRKVEVYA 929

Query: 190  TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
              DE++ EEI+EYK  LTCP C  ++KDAVLTKCFHVFC++C+R RYE RQRKCPKCNAA
Sbjct: 930  DADEILQEEIKEYKARLTCPCCNTRKKDAVLTKCFHVFCFECVRGRYEARQRKCPKCNAA 989

Query: 250  FGANDYHRLYL 260
            FGA+D+HR+Y+
Sbjct: 990  FGAHDFHRIYI 1000

Component of the RNF20/40 E3 ubiquitin-protein ligase complex that mediates monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1). H2BK120ub1 gives a specific tag for epigenetic transcriptional activation and is also prerequisite for histone H3 'Lys-4' and 'Lys-79' methylation (H3K4me and H3K79me, respectively). It thereby plays a central role in histone code and gene regulation. The RNF20/40 complex forms a H2B ubiquitin ligase complex in cooperation with the E2 enzyme UBE2A or UBE2B; reports about the cooperation with UBE2E1/UBCH are contradictory. Required for transcriptional activation of Hox genes.

Macaca fascicularis (taxid: 9541)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8CJB9|BRE1B_RAT E3 ubiquitin-protein ligase BRE1B OS=Rattus norvegicus GN=Rnf40 PE=1 SV=1

 Score =  337 bits (864), Expect = 5e-92,   Method: Compositional matrix adjust.
 Identities = 162/251 (64%), Positives = 201/251 (80%)

Query: 10   EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
            EEEALL+EM+VTGQAFEDMQEQN RLLQQLREKDDANFKLM+ERIK+NQ+HKL REEKD 
Sbjct: 751  EEEALLSEMDVTGQAFEDMQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDE 810

Query: 70   LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
            L EQV  LK Q+DA    ++KLEEKER LQ  L  VEKEL LR+QA++LNKRKA+E+AQ 
Sbjct: 811  LGEQVLGLKSQVDAQLLTVQKLEEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQL 870

Query: 130  AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
            A DLK+ LE    +L+E Q  + E  ++ E E++  KR QE+I++LRRK E+ +K+E   
Sbjct: 871  AEDLKVQLEHVQTRLREIQPCLAESRAAREKESFNLKRAQEDISRLRRKLEKQRKVEVYA 930

Query: 190  TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
              DE++ EEI+EYK  LTCP C  ++KDAVLTKCFHVFC++C+R RYE RQRKCPKCNAA
Sbjct: 931  DADEILQEEIKEYKARLTCPCCNTRKKDAVLTKCFHVFCFECVRGRYEARQRKCPKCNAA 990

Query: 250  FGANDYHRLYL 260
            FGA+D+HR+Y+
Sbjct: 991  FGAHDFHRVYI 1001

Component of the RNF20/40 E3 ubiquitin-protein ligase complex that mediates monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1). H2BK120ub1 gives a specific tag for epigenetic transcriptional activation and is also prerequisite for histone H3 'Lys-4' and 'Lys-79' methylation (H3K4me and H3K79me, respectively). It thereby plays a central role in histone code and gene regulation. The RNF20/40 complex forms a H2B ubiquitin ligase complex in cooperation with the E2 enzyme UBE2A or UBE2B; reports about the cooperation with UBE2E1/UBCH are contradictory. Required for transcriptional activation of Hox genes.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q3U319|BRE1B_MOUSE E3 ubiquitin-protein ligase BRE1B OS=Mus musculus GN=Rnf40 PE=2 SV=2

 Score =  337 bits (864), Expect = 5e-92,   Method: Compositional matrix adjust.
 Identities = 162/251 (64%), Positives = 201/251 (80%)

Query: 10   EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
            EEEALL+EM+VTGQAFEDMQEQN RLLQQLREKDDANFKLM+ERIK+NQ+HKL REEKD 
Sbjct: 750  EEEALLSEMDVTGQAFEDMQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDE 809

Query: 70   LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
            L EQV  LK Q+DA    ++KLEEKER LQ  L  VEKEL LR+QA++LNKRKA+E+AQ 
Sbjct: 810  LGEQVLGLKSQVDAQLLTVQKLEEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQL 869

Query: 130  AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
            A DLK+ LE    +L+E Q  + E  ++ E E++  KR QE+I++LRRK E+ +K+E   
Sbjct: 870  AEDLKVQLEHVQTRLREIQPCLAESRAAREKESFNLKRAQEDISRLRRKLEKQRKVEVYA 929

Query: 190  TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
              DE++ EEI+EYK  LTCP C  ++KDAVLTKCFHVFC++C+R RYE RQRKCPKCNAA
Sbjct: 930  DADEILQEEIKEYKARLTCPCCNTRKKDAVLTKCFHVFCFECVRGRYEARQRKCPKCNAA 989

Query: 250  FGANDYHRLYL 260
            FGA+D+HR+Y+
Sbjct: 990  FGAHDFHRVYI 1000

Component of the RNF20/40 E3 ubiquitin-protein ligase complex that mediates monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1). H2BK120ub1 gives a specific tag for epigenetic transcriptional activation and is also prerequisite for histone H3 'Lys-4' and 'Lys-79' methylation (H3K4me and H3K79me, respectively). It thereby plays a central role in histone code and gene regulation. The RNF20/40 complex forms a H2B ubiquitin ligase complex in cooperation with the E2 enzyme UBE2A or UBE2B; reports about the cooperation with UBE2E1/UBCH are contradictory. Required for transcriptional activation of Hox genes.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|A2VDP1|BRE1A_BOVIN E3 ubiquitin-protein ligase BRE1A OS=Bos taurus GN=RNF20 PE=2 SV=1

 Score =  309 bits (791), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 155/251 (61%), Positives = 198/251 (78%)

Query: 10  EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
           EEEALL+EM+VTGQAFEDMQEQN RL+QQLREKDDANFKLM+ERIKSNQ+HKL +EEK+ 
Sbjct: 724 EEEALLSEMDVTGQAFEDMQEQNIRLMQQLREKDDANFKLMSERIKSNQIHKLLKEEKEE 783

Query: 70  LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
           L +QV  LK Q+DA    +RKLEEKE  LQ+ +   EKEL LR QA+++NKRKA+E+AQ 
Sbjct: 784 LADQVLTLKTQVDAQLQVVRKLEEKEHLLQSNIGTGEKELGLRTQALEMNKRKAMEAAQL 843

Query: 130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
           A DLK  LE    +L + Q  + E + + E + +  KR QE+I++LRRK E  KK +   
Sbjct: 844 ADDLKAQLEMAQKKLHDFQDEIVENSVTKEKDMFNFKRAQEDISRLRRKLETTKKPDNVP 903

Query: 190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
             DE++MEEI++YK  LTCP C +++KDAVLTKCFHVFC++C++TRY+TRQRKCPKCNAA
Sbjct: 904 KCDEILMEEIKDYKARLTCPCCNMRKKDAVLTKCFHVFCFECVKTRYDTRQRKCPKCNAA 963

Query: 250 FGANDYHRLYL 260
           FGAND+HR+Y+
Sbjct: 964 FGANDFHRIYI 974

Component of the RNF20/40 E3 ubiquitin-protein ligase complex that mediates monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1). H2BK120ub1 gives a specific tag for epigenetic transcriptional activation and is also prerequisite for histone H3 'Lys-4' and 'Lys-79' methylation (H3K4me and H3K79me, respectively). It thereby plays a central role in histone code and gene regulation. The RNF20/40 complex forms a H2B ubiquitin ligase complex in cooperation with the E2 enzyme UBE2A or UBE2B; reports about the cooperation with UBE2E1/UBCH are contradictory. Required for transcriptional activation of Hox genes. Recruited to the MDM2 promoter, probably by being recruited by p53/TP53, and thereby acts as a transcriptional coactivator.

Bos taurus (taxid: 9913)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5VTR2|BRE1A_HUMAN E3 ubiquitin-protein ligase BRE1A OS=Homo sapiens GN=RNF20 PE=1 SV=2

 Score =  308 bits (789), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 155/251 (61%), Positives = 198/251 (78%)

Query: 10  EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
           EEEALL+EM+VTGQAFEDMQEQN RL+QQLREKDDANFKLM+ERIKSNQ+HKL +EEK+ 
Sbjct: 724 EEEALLSEMDVTGQAFEDMQEQNIRLMQQLREKDDANFKLMSERIKSNQIHKLLKEEKEE 783

Query: 70  LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
           L +QV  LK Q+DA    +RKLEEKE  LQ+ +   EKEL LR QA+++NKRKA+E+AQ 
Sbjct: 784 LADQVLTLKTQVDAQLQVVRKLEEKEHLLQSNIGTGEKELGLRTQALEMNKRKAMEAAQL 843

Query: 130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
           A DLK  LE    +L + Q  + E + + E + +  KR QE+I++LRRK E  KK +   
Sbjct: 844 ADDLKAQLELAQKKLHDFQDEIVENSVTKEKDMFNFKRAQEDISRLRRKLETTKKPDNVP 903

Query: 190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
             DE++MEEI++YK  LTCP C +++KDAVLTKCFHVFC++C++TRY+TRQRKCPKCNAA
Sbjct: 904 KCDEILMEEIKDYKARLTCPCCNMRKKDAVLTKCFHVFCFECVKTRYDTRQRKCPKCNAA 963

Query: 250 FGANDYHRLYL 260
           FGAND+HR+Y+
Sbjct: 964 FGANDFHRIYI 974

Component of the RNF20/40 E3 ubiquitin-protein ligase complex that mediates monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1). H2BK120ub1 gives a specific tag for epigenetic transcriptional activation and is also prerequisite for histone H3 'Lys-4' and 'Lys-79' methylation (H3K4me and H3K79me, respectively). It thereby plays a central role in histone code and gene regulation. The RNF20/40 complex forms a H2B ubiquitin ligase complex in cooperation with the E2 enzyme UBE2A or UBE2B; reports about the cooperation with UBE2E1/UBCH are contradictory. Required for transcriptional activation of Hox genes. Recruited to the MDM2 promoter, probably by being recruited by p53/TP53, and thereby acts as a transcriptional coactivator.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5DTM8|BRE1A_MOUSE E3 ubiquitin-protein ligase BRE1A OS=Mus musculus GN=Rnf20 PE=1 SV=2

 Score =  308 bits (788), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 155/251 (61%), Positives = 198/251 (78%)

Query: 10  EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
           EEEALL+EM+VTGQAFEDMQEQN RL+QQLREKDDANFKLM+ERIKSNQ+HKL +EEK+ 
Sbjct: 722 EEEALLSEMDVTGQAFEDMQEQNIRLMQQLREKDDANFKLMSERIKSNQIHKLLKEEKEE 781

Query: 70  LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
           L +QV  LK Q+DA    +RKLEEKE  LQ+ +   EKEL LR QA+++NKRKA+E+AQ 
Sbjct: 782 LADQVLTLKTQVDAQLQVVRKLEEKEHLLQSNIGTGEKELGLRTQALEMNKRKAMEAAQL 841

Query: 130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
           A DLK  LE    +L + Q  + E + + E + +  KR QE+I++LRRK E  KK +   
Sbjct: 842 ADDLKAQLELAQKKLHDFQDEIVENSVTKEKDLFNFKRAQEDISRLRRKLETTKKPDNVP 901

Query: 190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
             DE++MEEI++YK  LTCP C +++KDAVLTKCFHVFC++C++TRY+TRQRKCPKCNAA
Sbjct: 902 KCDEILMEEIKDYKARLTCPCCNMRKKDAVLTKCFHVFCFECVKTRYDTRQRKCPKCNAA 961

Query: 250 FGANDYHRLYL 260
           FGAND+HR+Y+
Sbjct: 962 FGANDFHRIYI 972

Component of the RNF20/40 E3 ubiquitin-protein ligase complex that mediates monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1). H2BK120ub1 gives a specific tag for epigenetic transcriptional activation and is also prerequisite for histone H3 'Lys-4' and 'Lys-79' methylation (H3K4me and H3K79me, respectively). It thereby plays a central role in histone code and gene regulation. The RNF20/40 complex forms a H2B ubiquitin ligase complex in cooperation with the E2 enzyme UBE2A or UBE2B; reports about the cooperation with UBE2E1/UBCH are contradictory. Required for transcriptional activation of Hox genes. Recruited to the MDM2 promoter, probably by being recruited by p53/TP53, and thereby acts as a transcriptional coactivator.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q5ZLS3|BRE1A_CHICK E3 ubiquitin-protein ligase BRE1A OS=Gallus gallus GN=RNF20 PE=2 SV=1

 Score =  306 bits (785), Expect = 7e-83,   Method: Compositional matrix adjust.
 Identities = 154/251 (61%), Positives = 197/251 (78%)

Query: 10  EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
           EEEALL+EM+VTGQAFEDMQEQN RL+QQLREKDDANFKLM+ERIKSNQ+HKL +EEK+ 
Sbjct: 733 EEEALLSEMDVTGQAFEDMQEQNIRLMQQLREKDDANFKLMSERIKSNQIHKLLKEEKEE 792

Query: 70  LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
           L +QV  LK Q+DA    +RKLEEKE  LQ+ +   EKEL LR QA+++NKRKA+++AQ 
Sbjct: 793 LADQVLTLKTQVDAQLQVVRKLEEKEHLLQSSIGTGEKELGLRTQALEMNKRKAMDAAQL 852

Query: 130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
           A DLK  LE    +L + Q  + E   + E E +  KR +E+I++LRRK E  KK +   
Sbjct: 853 ADDLKTQLELAQKKLHDFQDEIVESRVTREKEMFNFKRAEEDISRLRRKLETTKKPDMVP 912

Query: 190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
             DE++MEEI++YK  LTCP C +++KDAVLTKCFHVFC++C++TRY+TRQRKCPKCNAA
Sbjct: 913 NCDEILMEEIKDYKARLTCPCCNMRKKDAVLTKCFHVFCFECVKTRYDTRQRKCPKCNAA 972

Query: 250 FGANDYHRLYL 260
           FGAND+HR+Y+
Sbjct: 973 FGANDFHRIYI 983

Component of the RNF20/40 E3 ubiquitin-protein ligase complex that mediates monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1). H2BK120ub1 gives a specific tag for epigenetic transcriptional activation and is also prerequisite for histone H3 'Lys-4' and 'Lys-79' methylation (H3K4me and H3K79me, respectively).

Gallus gallus (taxid: 9031)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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	262
350402387	957	PREDICTED: E3 ubiquitin-protein ligase B	0.965	0.264	0.861	1e-124
340711825	957	PREDICTED: e3 ubiquitin-protein ligase B	0.965	0.264	0.861	1e-124
383857052	957	PREDICTED: E3 ubiquitin-protein ligase B	0.965	0.264	0.861	1e-124
380030127	953	PREDICTED: E3 ubiquitin-protein ligase B	0.965	0.265	0.861	1e-124
328778821	930	PREDICTED: e3 ubiquitin-protein ligase B	0.965	0.272	0.861	1e-124
332020263	676	E3 ubiquitin-protein ligase Bre1 [Acromy	0.965	0.374	0.861	1e-124
307199111	957	E3 ubiquitin-protein ligase Bre1 [Harpeg	0.965	0.264	0.857	1e-124
307180966	964	E3 ubiquitin-protein ligase Bre1 [Campon	0.965	0.262	0.857	1e-123
345483701	955	PREDICTED: E3 ubiquitin-protein ligase B	0.965	0.264	0.857	1e-123
193678945	953	PREDICTED: e3 ubiquitin-protein ligase B	0.965	0.265	0.845	1e-122

>gi|350402387|ref|XP_003486466.1| PREDICTED: E3 ubiquitin-protein ligase Bre1-like [Bombus impatiens]

 Score =  449 bits (1156), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 218/253 (86%), Positives = 232/253 (91%)

Query: 10  EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
           EEEALLNEMEVTGQAFEDMQEQNSRL+QQLREKDDANFKLMTERIKSNQLHKLAREEKD+
Sbjct: 705 EEEALLNEMEVTGQAFEDMQEQNSRLIQQLREKDDANFKLMTERIKSNQLHKLAREEKDV 764

Query: 70  LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
           L EQV+ L  Q++A +  +RKLEEKER LQ  L  VEKEL LR QAM+++KRKAIESAQS
Sbjct: 765 LKEQVSTLTTQVEAANVVVRKLEEKERLLQNSLATVEKELALRQQAMEMHKRKAIESAQS 824

Query: 130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
           AADLKLHLEKYH+Q+KEAQQVV EKTSSLEAEAYKTKRLQEEIAQLRRK ERMKKIE A 
Sbjct: 825 AADLKLHLEKYHSQMKEAQQVVAEKTSSLEAEAYKTKRLQEEIAQLRRKVERMKKIELAE 884

Query: 190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
           TLDEVM EE+REYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCN A
Sbjct: 885 TLDEVMAEELREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNCA 944

Query: 250 FGANDYHRLYLES 262
           FGANDYHRLYL +
Sbjct: 945 FGANDYHRLYLST 957

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340711825|ref|XP_003394469.1| PREDICTED: e3 ubiquitin-protein ligase Bre1-like [Bombus terrestris]

 Score =  449 bits (1156), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 218/253 (86%), Positives = 232/253 (91%)

Query: 10  EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
           EEEALLNEMEVTGQAFEDMQEQNSRL+QQLREKDDANFKLMTERIKSNQLHKLAREEKD+
Sbjct: 705 EEEALLNEMEVTGQAFEDMQEQNSRLIQQLREKDDANFKLMTERIKSNQLHKLAREEKDV 764

Query: 70  LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
           L EQV+ L  Q++A +  +RKLEEKER LQ  L  VEKEL LR QAM+++KRKAIESAQS
Sbjct: 765 LKEQVSTLTTQVEAANVVVRKLEEKERLLQNSLATVEKELALRQQAMEMHKRKAIESAQS 824

Query: 130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
           AADLKLHLEKYH+Q+KEAQQVV EKTSSLEAEAYKTKRLQEEIAQLRRK ERMKKIE A 
Sbjct: 825 AADLKLHLEKYHSQMKEAQQVVAEKTSSLEAEAYKTKRLQEEIAQLRRKVERMKKIELAE 884

Query: 190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
           TLDEVM EE+REYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCN A
Sbjct: 885 TLDEVMAEELREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNCA 944

Query: 250 FGANDYHRLYLES 262
           FGANDYHRLYL +
Sbjct: 945 FGANDYHRLYLST 957

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383857052|ref|XP_003704020.1| PREDICTED: E3 ubiquitin-protein ligase Bre1-like [Megachile rotundata]

 Score =  449 bits (1156), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 218/253 (86%), Positives = 232/253 (91%)

Query: 10  EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
           EEEALLNEMEVTGQAFEDMQEQNSRL+QQLREKDDANFKLMTERIKSNQLHKLAREEKD+
Sbjct: 705 EEEALLNEMEVTGQAFEDMQEQNSRLIQQLREKDDANFKLMTERIKSNQLHKLAREEKDV 764

Query: 70  LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
           L EQV+ L  Q++A +  +RKLEEKER LQ  L  VEKEL LR QAM+++KRKAIESAQS
Sbjct: 765 LKEQVSTLTAQVEAANVVVRKLEEKERLLQNSLATVEKELALRQQAMEMHKRKAIESAQS 824

Query: 130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
           AADLKLHLEKYH+Q+KEAQQVV EKTSSLEAEAYKTKRLQEEIAQLRRK ERMKKIE A 
Sbjct: 825 AADLKLHLEKYHSQMKEAQQVVAEKTSSLEAEAYKTKRLQEEIAQLRRKVERMKKIELAE 884

Query: 190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
           TLDEVM EE+REYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCN A
Sbjct: 885 TLDEVMAEELREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNCA 944

Query: 250 FGANDYHRLYLES 262
           FGANDYHRLYL +
Sbjct: 945 FGANDYHRLYLST 957

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380030127|ref|XP_003698707.1| PREDICTED: E3 ubiquitin-protein ligase Bre1-like [Apis florea]

 Score =  449 bits (1155), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 218/253 (86%), Positives = 232/253 (91%)

Query: 10  EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
           EEEALLNEMEVTGQAFEDMQEQNSRL+QQLREKDDANFKLMTERIKSNQLHKLAREEKD+
Sbjct: 701 EEEALLNEMEVTGQAFEDMQEQNSRLIQQLREKDDANFKLMTERIKSNQLHKLAREEKDV 760

Query: 70  LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
           L EQV+ L  Q++A +  +RKLEEKER LQ  L  VEKEL LR QAM+++KRKAIESAQS
Sbjct: 761 LKEQVSTLTTQVEAANVVVRKLEEKERLLQNSLATVEKELALRQQAMEMHKRKAIESAQS 820

Query: 130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
           AADLKLHLEKYH+Q+KEAQQVV EKTSSLEAEAYKTKRLQEEIAQLRRK ERMKKIE A 
Sbjct: 821 AADLKLHLEKYHSQMKEAQQVVAEKTSSLEAEAYKTKRLQEEIAQLRRKVERMKKIELAE 880

Query: 190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
           TLDEVM EE+REYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCN A
Sbjct: 881 TLDEVMAEELREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNCA 940

Query: 250 FGANDYHRLYLES 262
           FGANDYHRLYL +
Sbjct: 941 FGANDYHRLYLST 953

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328778821|ref|XP_625025.3| PREDICTED: e3 ubiquitin-protein ligase Bre1, partial [Apis mellifera]

 Score =  449 bits (1154), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 218/253 (86%), Positives = 232/253 (91%)

Query: 10  EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
           EEEALLNEMEVTGQAFEDMQEQNSRL+QQLREKDDANFKLMTERIKSNQLHKLAREEKD+
Sbjct: 678 EEEALLNEMEVTGQAFEDMQEQNSRLIQQLREKDDANFKLMTERIKSNQLHKLAREEKDV 737

Query: 70  LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
           L EQV+ L  Q++A +  +RKLEEKER LQ  L  VEKEL LR QAM+++KRKAIESAQS
Sbjct: 738 LKEQVSTLTTQVEAANVVVRKLEEKERLLQNSLATVEKELALRQQAMEMHKRKAIESAQS 797

Query: 130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
           AADLKLHLEKYH+Q+KEAQQVV EKTSSLEAEAYKTKRLQEEIAQLRRK ERMKKIE A 
Sbjct: 798 AADLKLHLEKYHSQMKEAQQVVAEKTSSLEAEAYKTKRLQEEIAQLRRKVERMKKIELAE 857

Query: 190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
           TLDEVM EE+REYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCN A
Sbjct: 858 TLDEVMAEELREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNCA 917

Query: 250 FGANDYHRLYLES 262
           FGANDYHRLYL +
Sbjct: 918 FGANDYHRLYLST 930

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332020263|gb|EGI60697.1| E3 ubiquitin-protein ligase Bre1 [Acromyrmex echinatior]

 Score =  449 bits (1154), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 218/253 (86%), Positives = 232/253 (91%)

Query: 10  EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
           EEEALLNEMEVTGQAFEDMQEQNSRL+QQLREKDDANFKLMTERIKSNQLHKLAREEKD+
Sbjct: 424 EEEALLNEMEVTGQAFEDMQEQNSRLIQQLREKDDANFKLMTERIKSNQLHKLAREEKDV 483

Query: 70  LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
           L EQV+ L  Q++A +  +RKLEEKER LQ  L  VEKEL LR QAM+++KRKAIESAQS
Sbjct: 484 LKEQVSTLTTQVEAANVVVRKLEEKERLLQNSLATVEKELALRQQAMEMHKRKAIESAQS 543

Query: 130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
           AADLKLHLEKYH+Q+KEAQQVV EKTSSLEAEAYKTKRLQEEIAQLRRK ERMKKIE A 
Sbjct: 544 AADLKLHLEKYHSQMKEAQQVVAEKTSSLEAEAYKTKRLQEEIAQLRRKVERMKKIELAE 603

Query: 190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
           TLDEVM EE+REYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCN A
Sbjct: 604 TLDEVMAEELREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNCA 663

Query: 250 FGANDYHRLYLES 262
           FGANDYHRLYL +
Sbjct: 664 FGANDYHRLYLST 676

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307199111|gb|EFN79821.1| E3 ubiquitin-protein ligase Bre1 [Harpegnathos saltator]

 Score =  448 bits (1153), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 217/253 (85%), Positives = 232/253 (91%)

Query: 10  EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
           EEEALLNEMEVTGQAFEDMQEQNSRL+QQLREKDDANFKLMTERIKSNQLHKLAREEKD+
Sbjct: 705 EEEALLNEMEVTGQAFEDMQEQNSRLIQQLREKDDANFKLMTERIKSNQLHKLAREEKDV 764

Query: 70  LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
           L EQV+ L  Q++A +  +RKLEEKER LQ  L  VEKEL +R QAM+++KRKAIESAQS
Sbjct: 765 LKEQVSTLTTQVEAANVVVRKLEEKERLLQNSLATVEKELAVRQQAMEMHKRKAIESAQS 824

Query: 130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
           AADLKLHLEKYH+Q+KEAQQVV EKTSSLEAEAYKTKRLQEEIAQLRRK ERMKKIE A 
Sbjct: 825 AADLKLHLEKYHSQMKEAQQVVAEKTSSLEAEAYKTKRLQEEIAQLRRKVERMKKIELAE 884

Query: 190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
           TLDEVM EE+REYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCN A
Sbjct: 885 TLDEVMAEELREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNCA 944

Query: 250 FGANDYHRLYLES 262
           FGANDYHRLYL +
Sbjct: 945 FGANDYHRLYLST 957

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307180966|gb|EFN68754.1| E3 ubiquitin-protein ligase Bre1 [Camponotus floridanus]

 Score =  448 bits (1153), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 217/253 (85%), Positives = 232/253 (91%)

Query: 10  EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
           EEEALLNEMEVTGQAFEDMQEQNSRL+QQLREKDDANFKLMTERIKSNQLHKLAREEKD+
Sbjct: 712 EEEALLNEMEVTGQAFEDMQEQNSRLIQQLREKDDANFKLMTERIKSNQLHKLAREEKDV 771

Query: 70  LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
           L EQV+ L  Q++A +  +RKLEEKER LQ  L  VEKEL +R QAM+++KRKAIESAQS
Sbjct: 772 LKEQVSTLTTQVEAANVVVRKLEEKERLLQNSLATVEKELAVRQQAMEMHKRKAIESAQS 831

Query: 130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
           AADLKLHLEKYH+Q+KEAQQVV EKTSSLEAEAYKTKRLQEEIAQLRRK ERMKKIE A 
Sbjct: 832 AADLKLHLEKYHSQMKEAQQVVAEKTSSLEAEAYKTKRLQEEIAQLRRKVERMKKIELAE 891

Query: 190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
           TLDEVM EE+REYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCN A
Sbjct: 892 TLDEVMAEELREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNCA 951

Query: 250 FGANDYHRLYLES 262
           FGANDYHRLYL +
Sbjct: 952 FGANDYHRLYLST 964

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345483701|ref|XP_001601663.2| PREDICTED: E3 ubiquitin-protein ligase Bre1-like [Nasonia vitripennis]

 Score =  448 bits (1152), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 217/253 (85%), Positives = 232/253 (91%)

Query: 10  EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
           EEEALLNEMEVTGQAFEDMQEQNSRL+QQLREKDDANFKLMTERIKSNQLHKLAREEKD+
Sbjct: 703 EEEALLNEMEVTGQAFEDMQEQNSRLIQQLREKDDANFKLMTERIKSNQLHKLAREEKDV 762

Query: 70  LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
           L EQV+ L  Q++A +  +RKLEEKER LQ  L  VEKEL LR QAM+++KRKAIESAQS
Sbjct: 763 LKEQVSTLTTQVEAANVVVRKLEEKERLLQNSLATVEKELALRQQAMEMHKRKAIESAQS 822

Query: 130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
           AADLKLHLEKYH+Q+KEAQQVV EKTSSLEAEAYKTKRLQEEIAQLRRK ERMKKIE A 
Sbjct: 823 AADLKLHLEKYHSQMKEAQQVVAEKTSSLEAEAYKTKRLQEEIAQLRRKVERMKKIELAE 882

Query: 190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
           T+DEVM EE+REYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCN A
Sbjct: 883 TVDEVMAEELREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNCA 942

Query: 250 FGANDYHRLYLES 262
           FGANDYHRLYL +
Sbjct: 943 FGANDYHRLYLST 955

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193678945|ref|XP_001949533.1| PREDICTED: e3 ubiquitin-protein ligase Bre1-like [Acyrthosiphon pisum]

 Score =  444 bits (1141), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 214/253 (84%), Positives = 231/253 (91%)

Query: 10  EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
           EEEA+L+EMEVTGQAFEDMQEQNSRL+QQLREKDDANFKLMTERIKSNQLHK+AREE D 
Sbjct: 701 EEEAMLSEMEVTGQAFEDMQEQNSRLIQQLREKDDANFKLMTERIKSNQLHKMAREETDT 760

Query: 70  LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
           L E +  L  Q++  +T +RKLEEKER LQ  L  VEKE  +R QAM+++KRKAIESAQS
Sbjct: 761 LKELIKTLTNQVEMTNTVVRKLEEKERILQNSLATVEKECSIRQQAMEMHKRKAIESAQS 820

Query: 130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
           AADLKLHL+KYHAQ+KEAQQVVTEKTS+LEAEAYKTKRLQEEI QLRRKTERMKKIEQAG
Sbjct: 821 AADLKLHLDKYHAQMKEAQQVVTEKTSALEAEAYKTKRLQEEIVQLRRKTERMKKIEQAG 880

Query: 190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
           TLDEVM+EEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNA 
Sbjct: 881 TLDEVMVEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAT 940

Query: 250 FGANDYHRLYLES 262
           FGANDYHRLYL S
Sbjct: 941 FGANDYHRLYLGS 953

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	262
FB|FBgn0086694	1044	Bre1 "Bre1" [Drosophila melano	0.977	0.245	0.809	4.8e-110
UNIPROTKB|F8W8Z4	693	RNF40 "E3 ubiquitin-protein li	0.958	0.362	0.645	2.4e-85
UNIPROTKB|H3BP71	961	RNF40 "E3 ubiquitin-protein li	0.958	0.261	0.645	2.4e-85
UNIPROTKB|O75150	1001	RNF40 "E3 ubiquitin-protein li	0.958	0.250	0.645	2.4e-85
UNIPROTKB|Q4R7K7	1001	RNF40 "E3 ubiquitin-protein li	0.958	0.250	0.645	2.4e-85
UNIPROTKB|Q5RAU7	1001	RNF40 "E3 ubiquitin-protein li	0.958	0.250	0.645	2.4e-85
UNIPROTKB|E1BCI2	1001	RNF40 "Uncharacterized protein	0.958	0.250	0.645	3e-85
UNIPROTKB|E2R1L5	1001	RNF40 "Uncharacterized protein	0.958	0.250	0.645	3e-85
MGI|MGI:2142048	1001	Rnf40 "ring finger protein 40"	0.958	0.250	0.645	3e-85
RGD|628638	1002	Rnf40 "ring finger protein 40,	0.958	0.250	0.645	3e-85

FB|FBgn0086694 Bre1 "Bre1" [Drosophila melanogaster (taxid:7227)]

 Score = 1087 (387.7 bits), Expect = 4.8e-110, P = 4.8e-110
 Identities = 208/257 (80%), Positives = 233/257 (90%)

Query:     6 VSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLARE 65
             V  +EEEALLNEMEVTGQAFEDMQEQNSRL+QQLREKDDANFKLM+ERIK+NQLHKL RE
Sbjct:   788 VGSHEEEALLNEMEVTGQAFEDMQEQNSRLIQQLREKDDANFKLMSERIKANQLHKLLRE 847

Query:    66 EKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIE 125
             EK +L +Q+     QI+AMH  +RKLEEKER LQ  + ++EKEL LR QAM+++KRKAIE
Sbjct:   848 EKTVLEDQMATATTQIEAMHIVLRKLEEKERSLQATVASIEKELMLRQQAMEMHKRKAIE 907

Query:   126 SAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKI 185
             SAQSAADLKLHLEKYHAQ+KEAQQVV EKTSSLEAEAYKTKRLQEE+AQ +RK ERMKK+
Sbjct:   908 SAQSAADLKLHLEKYHAQMKEAQQVVAEKTSSLEAEAYKTKRLQEELAQFKRKAERMKKM 967

Query:   186 EQAGT-LDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCP 244
             E +GT +DEVM+EEIREYKETLTCPSCKVKRKDAVL+KCFHVFC+DCLRTRYETRQRKCP
Sbjct:   968 EMSGTTIDEVMIEEIREYKETLTCPSCKVKRKDAVLSKCFHVFCYDCLRTRYETRQRKCP 1027

Query:   245 KCNAAFGANDYHRLYLE 261
             KCN AFGANDYHRLYL+
Sbjct:  1028 KCNCAFGANDYHRLYLQ 1044

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016570 "histone modification" evidence=IMP

GO:0007422 "peripheral nervous system development" evidence=NAS

GO:0006911 "phagocytosis, engulfment" evidence=IMP

UNIPROTKB|F8W8Z4 RNF40 "E3 ubiquitin-protein ligase BRE1B" [Homo sapiens (taxid:9606)]

 Score = 854 (305.7 bits), Expect = 2.4e-85, P = 2.4e-85
 Identities = 162/251 (64%), Positives = 201/251 (80%)

Query:    10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
             EEEALL+EM+VTGQAFEDMQEQN RLLQQLREKDDANFKLM+ERIK+NQ+HKL REEKD 
Sbjct:   442 EEEALLSEMDVTGQAFEDMQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDE 501

Query:    70 LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
             L EQV  LK Q+DA    ++KLEEKER LQ  L  VEKEL LR+QA++LNKRKA+E+AQ 
Sbjct:   502 LGEQVLGLKSQVDAQLLTVQKLEEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQL 561

Query:   130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
             A DLK+ LE    +L+E Q  + E  ++ E E++  KR QE+I++LRRK E+ +K+E   
Sbjct:   562 AEDLKVQLEHVQTRLREIQPCLAESRAAREKESFNLKRAQEDISRLRRKLEKQRKVEVYA 621

Query:   190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
               DE++ EEI+EYK  LTCP C  ++KDAVLTKCFHVFC++C+R RYE RQRKCPKCNAA
Sbjct:   622 DADEILQEEIKEYKARLTCPCCNTRKKDAVLTKCFHVFCFECVRGRYEARQRKCPKCNAA 681

Query:   250 FGANDYHRLYL 260
             FGA+D+HR+Y+
Sbjct:   682 FGAHDFHRIYI 692

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|H3BP71 RNF40 "E3 ubiquitin-protein ligase BRE1B" [Homo sapiens (taxid:9606)]

 Score = 854 (305.7 bits), Expect = 2.4e-85, P = 2.4e-85
 Identities = 162/251 (64%), Positives = 201/251 (80%)

Query:    10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
             EEEALL+EM+VTGQAFEDMQEQN RLLQQLREKDDANFKLM+ERIK+NQ+HKL REEKD 
Sbjct:   710 EEEALLSEMDVTGQAFEDMQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDE 769

Query:    70 LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
             L EQV  LK Q+DA    ++KLEEKER LQ  L  VEKEL LR+QA++LNKRKA+E+AQ 
Sbjct:   770 LGEQVLGLKSQVDAQLLTVQKLEEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQL 829

Query:   130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
             A DLK+ LE    +L+E Q  + E  ++ E E++  KR QE+I++LRRK E+ +K+E   
Sbjct:   830 AEDLKVQLEHVQTRLREIQPCLAESRAAREKESFNLKRAQEDISRLRRKLEKQRKVEVYA 889

Query:   190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
               DE++ EEI+EYK  LTCP C  ++KDAVLTKCFHVFC++C+R RYE RQRKCPKCNAA
Sbjct:   890 DADEILQEEIKEYKARLTCPCCNTRKKDAVLTKCFHVFCFECVRGRYEARQRKCPKCNAA 949

Query:   250 FGANDYHRLYL 260
             FGA+D+HR+Y+
Sbjct:   950 FGAHDFHRIYI 960

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|O75150 RNF40 "E3 ubiquitin-protein ligase BRE1B" [Homo sapiens (taxid:9606)]

 Score = 854 (305.7 bits), Expect = 2.4e-85, P = 2.4e-85
 Identities = 162/251 (64%), Positives = 201/251 (80%)

Query:    10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
             EEEALL+EM+VTGQAFEDMQEQN RLLQQLREKDDANFKLM+ERIK+NQ+HKL REEKD 
Sbjct:   750 EEEALLSEMDVTGQAFEDMQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDE 809

Query:    70 LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
             L EQV  LK Q+DA    ++KLEEKER LQ  L  VEKEL LR+QA++LNKRKA+E+AQ 
Sbjct:   810 LGEQVLGLKSQVDAQLLTVQKLEEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQL 869

Query:   130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
             A DLK+ LE    +L+E Q  + E  ++ E E++  KR QE+I++LRRK E+ +K+E   
Sbjct:   870 AEDLKVQLEHVQTRLREIQPCLAESRAAREKESFNLKRAQEDISRLRRKLEKQRKVEVYA 929

Query:   190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
               DE++ EEI+EYK  LTCP C  ++KDAVLTKCFHVFC++C+R RYE RQRKCPKCNAA
Sbjct:   930 DADEILQEEIKEYKARLTCPCCNTRKKDAVLTKCFHVFCFECVRGRYEARQRKCPKCNAA 989

Query:   250 FGANDYHRLYL 260
             FGA+D+HR+Y+
Sbjct:   990 FGAHDFHRIYI 1000

GO:0008270 "zinc ion binding" evidence=IEA

GO:0017075 "syntaxin-1 binding" evidence=IEA

GO:0032403 "protein complex binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

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

GO:0033523 "histone H2B ubiquitination" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

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

GO:0010390 "histone monoubiquitination" evidence=IDA

GO:0000151 "ubiquitin ligase complex" evidence=IDA

GO:0031625 "ubiquitin protein ligase binding" evidence=IPI

GO:0042803 "protein homodimerization activity" evidence=IPI

GO:0043005 "neuron projection" evidence=ISS

GO:0033503 "HULC complex" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

UNIPROTKB|Q4R7K7 RNF40 "E3 ubiquitin-protein ligase BRE1B" [Macaca fascicularis (taxid:9541)]

 Score = 854 (305.7 bits), Expect = 2.4e-85, P = 2.4e-85
 Identities = 162/251 (64%), Positives = 201/251 (80%)

Query:    10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
             EEEALL+EM+VTGQAFEDMQEQN RLLQQLREKDDANFKLM+ERIK+NQ+HKL REEKD 
Sbjct:   750 EEEALLSEMDVTGQAFEDMQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDE 809

Query:    70 LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
             L EQV  LK Q+DA    ++KLEEKER LQ  L  VEKEL LR+QA++LNKRKA+E+AQ 
Sbjct:   810 LGEQVLGLKSQVDAQLLTVQKLEEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQL 869

Query:   130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
             A DLK+ LE    +L+E Q  + E  ++ E E++  KR QE+I++LRRK E+ +K+E   
Sbjct:   870 AEDLKVQLEHVQTRLREIQPCLAESRAAREKESFNLKRAQEDISRLRRKLEKQRKVEVYA 929

Query:   190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
               DE++ EEI+EYK  LTCP C  ++KDAVLTKCFHVFC++C+R RYE RQRKCPKCNAA
Sbjct:   930 DADEILQEEIKEYKARLTCPCCNTRKKDAVLTKCFHVFCFECVRGRYEARQRKCPKCNAA 989

Query:   250 FGANDYHRLYL 260
             FGA+D+HR+Y+
Sbjct:   990 FGAHDFHRIYI 1000

GO:0000151 "ubiquitin ligase complex" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0010390 "histone monoubiquitination" evidence=ISS

GO:0031625 "ubiquitin protein ligase binding" evidence=ISS

GO:0033503 "HULC complex" evidence=ISS

GO:0033523 "histone H2B ubiquitination" evidence=ISS

GO:0042803 "protein homodimerization activity" evidence=ISS

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

UNIPROTKB|Q5RAU7 RNF40 "E3 ubiquitin-protein ligase BRE1B" [Pongo abelii (taxid:9601)]

 Score = 854 (305.7 bits), Expect = 2.4e-85, P = 2.4e-85
 Identities = 162/251 (64%), Positives = 201/251 (80%)

Query:    10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
             EEEALL+EM+VTGQAFEDMQEQN RLLQQLREKDDANFKLM+ERIK+NQ+HKL REEKD 
Sbjct:   750 EEEALLSEMDVTGQAFEDMQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDE 809

Query:    70 LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
             L EQV  LK Q+DA    ++KLEEKER LQ  L  VEKEL LR+QA++LNKRKA+E+AQ 
Sbjct:   810 LGEQVLGLKSQVDAQLLTVQKLEEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQL 869

Query:   130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
             A DLK+ LE    +L+E Q  + E  ++ E E++  KR QE+I++LRRK E+ +K+E   
Sbjct:   870 AEDLKVQLEHVQTRLREIQPCLAESRAAREKESFNLKRAQEDISRLRRKLEKQRKVEVYA 929

Query:   190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
               DE++ EEI+EYK  LTCP C  ++KDAVLTKCFHVFC++C+R RYE RQRKCPKCNAA
Sbjct:   930 DADEILQEEIKEYKARLTCPCCNTRKKDAVLTKCFHVFCFECVRGRYEARQRKCPKCNAA 989

Query:   250 FGANDYHRLYL 260
             FGA+D+HR+Y+
Sbjct:   990 FGAHDFHRIYI 1000

GO:0000151 "ubiquitin ligase complex" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0010390 "histone monoubiquitination" evidence=ISS

GO:0031625 "ubiquitin protein ligase binding" evidence=ISS

GO:0033503 "HULC complex" evidence=ISS

GO:0033523 "histone H2B ubiquitination" evidence=ISS

GO:0042803 "protein homodimerization activity" evidence=ISS

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

UNIPROTKB|E1BCI2 RNF40 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 853 (305.3 bits), Expect = 3.0e-85, P = 3.0e-85
 Identities = 162/251 (64%), Positives = 201/251 (80%)

Query:    10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
             EEEALL+EM+VTGQAFEDMQEQN RLLQQLREKDDANFKLM+ERIK+NQ+HKL REEKD 
Sbjct:   750 EEEALLSEMDVTGQAFEDMQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDE 809

Query:    70 LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
             L EQV  LK Q+DA    ++KLEEKER LQ  L  VEKEL LR+QA++LNKRKA+E+AQ 
Sbjct:   810 LGEQVLGLKSQVDAQLLTVQKLEEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQL 869

Query:   130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
             A DLK+ LE    +L+E Q  + E  ++ E E++  KR QE+I++LRRK E+ +K+E   
Sbjct:   870 AEDLKVQLEHVQTRLREIQPCLAESRAAREKESFNLKRAQEDISRLRRKLEKQRKVEVYA 929

Query:   190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
               DE++ EEI+EYK  LTCP C  ++KDAVLTKCFHVFC++C+R RYE RQRKCPKCNAA
Sbjct:   930 DADEILQEEIKEYKARLTCPCCNTRKKDAVLTKCFHVFCFECVRGRYEARQRKCPKCNAA 989

Query:   250 FGANDYHRLYL 260
             FGA+D+HR+Y+
Sbjct:   990 FGAHDFHRVYI 1000

GO:0042803 "protein homodimerization activity" evidence=IEA

GO:0033523 "histone H2B ubiquitination" evidence=IEA

GO:0033503 "HULC complex" evidence=IEA

GO:0031625 "ubiquitin protein ligase binding" evidence=IEA

GO:0010390 "histone monoubiquitination" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E2R1L5 RNF40 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 853 (305.3 bits), Expect = 3.0e-85, P = 3.0e-85
 Identities = 162/251 (64%), Positives = 201/251 (80%)

Query:    10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
             EEEALL+EM+VTGQAFEDMQEQN RLLQQLREKDDANFKLM+ERIK+NQ+HKL REEKD 
Sbjct:   750 EEEALLSEMDVTGQAFEDMQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDE 809

Query:    70 LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
             L EQV  LK Q+DA    ++KLEEKER LQ  L  VEKEL LR+QA++LNKRKA+E+AQ 
Sbjct:   810 LGEQVLGLKSQVDAQLLTVQKLEEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQL 869

Query:   130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
             A DLK+ LE    +L+E Q  + E  ++ E E++  KR QE+I++LRRK E+ +K+E   
Sbjct:   870 AEDLKVQLEHVQTRLREIQPCLAESRAAREKESFNLKRAQEDISRLRRKLEKQRKVEVYA 929

Query:   190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
               DE++ EEI+EYK  LTCP C  ++KDAVLTKCFHVFC++C+R RYE RQRKCPKCNAA
Sbjct:   930 DADEILQEEIKEYKARLTCPCCNTRKKDAVLTKCFHVFCFECVRGRYEARQRKCPKCNAA 989

Query:   250 FGANDYHRLYL 260
             FGA+D+HR+Y+
Sbjct:   990 FGAHDFHRVYI 1000

GO:0042803 "protein homodimerization activity" evidence=IEA

GO:0033523 "histone H2B ubiquitination" evidence=IEA

GO:0033503 "HULC complex" evidence=IEA

GO:0031625 "ubiquitin protein ligase binding" evidence=IEA

GO:0010390 "histone monoubiquitination" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

MGI|MGI:2142048 Rnf40 "ring finger protein 40" [Mus musculus (taxid:10090)]

 Score = 853 (305.3 bits), Expect = 3.0e-85, P = 3.0e-85
 Identities = 162/251 (64%), Positives = 201/251 (80%)

Query:    10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
             EEEALL+EM+VTGQAFEDMQEQN RLLQQLREKDDANFKLM+ERIK+NQ+HKL REEKD 
Sbjct:   750 EEEALLSEMDVTGQAFEDMQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDE 809

Query:    70 LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
             L EQV  LK Q+DA    ++KLEEKER LQ  L  VEKEL LR+QA++LNKRKA+E+AQ 
Sbjct:   810 LGEQVLGLKSQVDAQLLTVQKLEEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQL 869

Query:   130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
             A DLK+ LE    +L+E Q  + E  ++ E E++  KR QE+I++LRRK E+ +K+E   
Sbjct:   870 AEDLKVQLEHVQTRLREIQPCLAESRAAREKESFNLKRAQEDISRLRRKLEKQRKVEVYA 929

Query:   190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
               DE++ EEI+EYK  LTCP C  ++KDAVLTKCFHVFC++C+R RYE RQRKCPKCNAA
Sbjct:   930 DADEILQEEIKEYKARLTCPCCNTRKKDAVLTKCFHVFCFECVRGRYEARQRKCPKCNAA 989

Query:   250 FGANDYHRLYL 260
             FGA+D+HR+Y+
Sbjct:   990 FGAHDFHRVYI 1000

GO:0000151 "ubiquitin ligase complex" evidence=ISO

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

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO

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

GO:0008270 "zinc ion binding" evidence=IEA

GO:0010390 "histone monoubiquitination" evidence=ISO

GO:0016568 "chromatin modification" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0017075 "syntaxin-1 binding" evidence=ISO

GO:0031625 "ubiquitin protein ligase binding" evidence=ISO

GO:0032403 "protein complex binding" evidence=ISO

GO:0033503 "HULC complex" evidence=ISO

GO:0033523 "histone H2B ubiquitination" evidence=ISO

GO:0042803 "protein homodimerization activity" evidence=ISO

GO:0043005 "neuron projection" evidence=ISO

GO:0043234 "protein complex" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

RGD|628638 Rnf40 "ring finger protein 40, E3 ubiquitin protein ligase" [Rattus norvegicus (taxid:10116)]

 Score = 853 (305.3 bits), Expect = 3.0e-85, P = 3.0e-85
 Identities = 162/251 (64%), Positives = 201/251 (80%)

Query:    10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
             EEEALL+EM+VTGQAFEDMQEQN RLLQQLREKDDANFKLM+ERIK+NQ+HKL REEKD 
Sbjct:   751 EEEALLSEMDVTGQAFEDMQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDE 810

Query:    70 LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
             L EQV  LK Q+DA    ++KLEEKER LQ  L  VEKEL LR+QA++LNKRKA+E+AQ 
Sbjct:   811 LGEQVLGLKSQVDAQLLTVQKLEEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQL 870

Query:   130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
             A DLK+ LE    +L+E Q  + E  ++ E E++  KR QE+I++LRRK E+ +K+E   
Sbjct:   871 AEDLKVQLEHVQTRLREIQPCLAESRAAREKESFNLKRAQEDISRLRRKLEKQRKVEVYA 930

Query:   190 TLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
               DE++ EEI+EYK  LTCP C  ++KDAVLTKCFHVFC++C+R RYE RQRKCPKCNAA
Sbjct:   931 DADEILQEEIKEYKARLTCPCCNTRKKDAVLTKCFHVFCFECVRGRYEARQRKCPKCNAA 990

Query:   250 FGANDYHRLYL 260
             FGA+D+HR+Y+
Sbjct:   991 FGAHDFHRVYI 1001

GO:0000151 "ubiquitin ligase complex" evidence=ISO

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

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0005886 "plasma membrane" evidence=IEA;ISO

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

GO:0008270 "zinc ion binding" evidence=IEA

GO:0010390 "histone monoubiquitination" evidence=IEA;ISO

GO:0017075 "syntaxin-1 binding" evidence=IPI

GO:0031625 "ubiquitin protein ligase binding" evidence=IEA;ISO

GO:0032403 "protein complex binding" evidence=IDA

GO:0033503 "HULC complex" evidence=ISO;ISS

GO:0033523 "histone H2B ubiquitination" evidence=IEA;ISO

GO:0042803 "protein homodimerization activity" evidence=IEA;ISO

GO:0043005 "neuron projection" evidence=IDA

GO:0043234 "protein complex" evidence=IDA

GO:0005730 "nucleolus" evidence=ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q5ZLS3	BRE1A_CHICK	6, ., 3, ., 2, ., -	0.6135	0.9580	0.2550	yes	N/A
Q3U319	BRE1B_MOUSE	6, ., 3, ., 2, ., -	0.6454	0.9580	0.2507	yes	N/A
Q9VRP9	BRE1_DROME	6, ., 3, ., 2, ., -	0.8093	0.9770	0.2452	yes	N/A
Q8CJB9	BRE1B_RAT	6, ., 3, ., 2, ., -	0.6454	0.9580	0.2504	yes	N/A
Q5RAU7	BRE1B_PONAB	6, ., 3, ., 2, ., -	0.6454	0.9580	0.2507	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	LOW CONFIDENCE prediction!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	262
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	5e-09
smart00184	40	smart00184, RING, Ring finger	2e-08
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	6e-08
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	4e-05
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	5e-05
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	8e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-04
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	8e-04
COG4372	499	COG4372, COG4372, Uncharacterized protein conserve	8e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.001
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	0.002
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	0.002
TIGR00599	397	TIGR00599, rad18, DNA repair protein rad18	0.003
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.004

>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 = 50.5 bits (121), Expect = 5e-09
 Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 1/45 (2%)

Query: 207 TCPSCK-VKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF 250
            CP C    R+  VL  C HVFC  C+    ++ +  CP C    
Sbjct: 1   ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 49.0 bits (117), Expect = 2e-08
 Identities = 16/40 (40%), Positives = 19/40 (47%), Gaps = 1/40 (2%)

Query: 208 CPSCK-VKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKC 246
           CP C     KD V+  C H FC  C+R   E+    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|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger)

 Score = 47.5 bits (113), Expect = 6e-08
 Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 1/40 (2%)

Query: 208 CPSCKVKRKDAV-LTKCFHVFCWDCLRTRYETRQRKCPKC 246
           CP C  + KD V +  C H+FC  C+ +  E+    CP C
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

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

 Score = 46.0 bits (109), Expect = 2e-07
 Identities = 20/44 (45%), Positives = 25/44 (56%), Gaps = 2/44 (4%)

Query: 206 LTCPSCKVKRKDA-VLTKCFHVFCWDCLRTRYETRQRKCPKCNA 248
           L CP C    +D  VLT C HVFC +C+  RY  ++ KCP C  
Sbjct: 3   LECPICLDLLRDPVVLTPCGHVFCRECIL-RYLKKKSKCPICRT 45

Length = 45

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 46.2 bits (110), Expect = 1e-05
 Identities = 38/208 (18%), Positives = 93/208 (44%), Gaps = 7/208 (3%)

Query: 1   MSLGQVSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLH 60
           ++ G  +     A   E++   +   +++ Q  +L ++L+   +    L     +  +  
Sbjct: 652 ITGGSRNKRSSLAQKRELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQL 711

Query: 61  KLAREEKDIL-------HEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRN 113
           +    + + L        E++  L+ +++ +   + +LEE+   LQ  L  +E+EL    
Sbjct: 712 EELERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLE 771

Query: 114 QAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIA 173
           +A+   K +  E  +    L+  LE+   +L+EA++ +      LE+   + +RL++EI 
Sbjct: 772 EALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIE 831

Query: 174 QLRRKTERMKKIEQAGTLDEVMMEEIRE 201
           +L  + E +++       +   +E+  E
Sbjct: 832 ELEEEIEELEEKLDELEEELEELEKELE 859

Length = 1163

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 44.3 bits (105), Expect = 4e-05
 Identities = 40/185 (21%), Positives = 94/185 (50%), Gaps = 4/185 (2%)

Query: 26  EDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMH 85
             ++E+ SR+  +LRE +    +L  E+    +  +  +E++  L EQ+ +++ +I+ ++
Sbjct: 801 SKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLN 860

Query: 86  TAIRKLEEKERYLQTVLTNVEKEL-HLRNQAMDL-NKRKAIESAQSAADLKLHLEKYH-A 142
               +LEE+   L+  L ++E  L  L+ +  +L  + + +E      + ++  ++   +
Sbjct: 861 GKKEELEEELEELEAALRDLESRLGDLKKERDELEAQLRELERKIEELEAQIEKKRKRLS 920

Query: 143 QLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQA-GTLDEVMMEEIRE 201
           +LK   + + E+ S +E    + + + EE   L      ++++E+    L+ V M  I+E
Sbjct: 921 ELKAKLEALEEELSEIEDPKGEDEEIPEEELSLEDVQAELQRVEEEIRALEPVNMLAIQE 980

Query: 202 YKETL 206
           Y+E L
Sbjct: 981 YEEVL 985

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

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

 Score = 39.7 bits (93), Expect = 5e-05
 Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 4/45 (8%)

Query: 207 TCPSCK---VKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNA 248
            CP C       ++ V+  C HVF  +CL  ++      CP C A
Sbjct: 2   ECPICLDEFEPGEEVVVLPCGHVFHKECLD-KWLRSSNTCPLCRA 45

Length = 46

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 43.1 bits (102), Expect = 8e-05
 Identities = 38/201 (18%), Positives = 93/201 (46%), Gaps = 11/201 (5%)

Query: 9   NEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKS-NQLHKLAREEK 67
            + E L  ++    +  ++++E+ + LL++L E    + + + ER+K     +    E K
Sbjct: 549 EKLEELKKKLAELEKKLDELEEELAELLKELEELGFESVEELEERLKELEPFYNEYLELK 608

Query: 68  DILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESA 127
           D   E    L+ +   +     +L++    L      +E+   LR +  +L K+ + E  
Sbjct: 609 DAEKE----LEREEKELKKLEEELDKAFEELAETEKRLEE---LRKELEELEKKYSEEEY 661

Query: 128 QSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQ 187
           +   +  L L +  A L+   + + ++   ++      ++L+EE+ +  +  + ++K+E+
Sbjct: 662 EELREEYLELSRELAGLRAELEELEKRREEIKKTL---EKLKEELEEREKAKKELEKLEK 718

Query: 188 AGTLDEVMMEEIREYKETLTC 208
           A    E + E++++YK  L  
Sbjct: 719 ALERVEELREKVKKYKALLKE 739

Length = 880

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 41.6 bits (98), Expect = 3e-04
 Identities = 41/198 (20%), Positives = 86/198 (43%), Gaps = 23/198 (11%)

Query: 9    NEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKD 68
               E+L   +  T +  ED++EQ   L + +        +L     +     +    E+ 
Sbjct: 824  ERLESLERRIAATERRLEDLEEQIEELSEDIESLAAEIEELEELIEELESELEALLNERA 883

Query: 69   ILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQ 128
             L E +  L+ +++ +   +R+LE K   L+                     R+  E  +
Sbjct: 884  SLEEALALLRSELEELSEELRELESKRSELR---------------------RELEELRE 922

Query: 129  SAADLKLHLEKYHAQLKEAQQVVTEKTS-SLEAEAYKTKRLQEEIAQLRRKTERMK-KIE 186
              A L+L LE    ++   Q+ ++E+ S +LE       +++++  + RR+ +R++ KI+
Sbjct: 923  KLAQLELRLEGLEVRIDNLQERLSEEYSLTLEEAEALENKIEDDEEEARRRLKRLENKIK 982

Query: 187  QAGTLDEVMMEEIREYKE 204
            + G ++   +EE  E KE
Sbjct: 983  ELGPVNLAAIEEYEELKE 1000

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|193335 pfam12861, zf-Apc11, Anaphase-promoting complex subunit 11 RING-H2 finger

 Score = 37.1 bits (86), Expect = 8e-04
 Identities = 18/48 (37%), Positives = 19/48 (39%), Gaps = 4/48 (8%)

Query: 207 TCPSCKVKRKDA--VLTKCFHVFCWDCLRTRYETRQRK--CPKCNAAF 250
           TCP CK    D   V  KC H F   C+     T   K  CP C   F
Sbjct: 34  TCPQCKFPGDDCPLVWGKCKHNFHMHCILKWLATETSKGLCPMCRQTF 81

Apc11 is one of the subunits of the anaphase-promoting complex or cyclosome. The APC subunits are cullin family proteins with ubiquitin ligase activity. Polyubiquitination marks proteins for degradation by the 26S proteasome and is carried out by a cascade of enzymes that includes ubiquitin-activating enzymes (E1s), ubiquitin-conjugating enzymes (E2s), and ubiquitin ligases (E3s). Apc11 acts as an E3 enzyme and is responsible for recruiting E2s to the APC and for mediating the subsequent transfer of ubiquitin to APC substrates in vivo. In Saccharomyces cerevisiae this RING-H2 finger protein defines the minimal ubiquitin ligase activity of the APC, and the integrity of the RING-H2 finger is essential for budding yeast cell viability. Length = 85

>gnl|CDD|226809 COG4372, COG4372, Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

 Score = 40.0 bits (93), Expect = 8e-04
 Identities = 33/185 (17%), Positives = 78/185 (42%), Gaps = 4/185 (2%)

Query: 26  EDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMH 85
           +D++ Q   L  +L           TER  +    + AR+E++ + +++ A +  +    
Sbjct: 77  DDIRPQLRALRTELGTAQGEKRAAETEREAARSELQKARQEREAVRQELAAARQNLAKAQ 136

Query: 86  TAIRKLEEKERYLQTVLTNVEKELHLRNQAMD--LNKRKAIESAQSAADLK-LHLEKYHA 142
             + +L ++ + LQT L  + ++              +K ++++ +    + L L+   A
Sbjct: 137 QELARLTKQAQDLQTRLKTLAEQRRQLEAQAQSLQASQKQLQASATQLKSQVLDLKLRSA 196

Query: 143 QLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRK-TERMKKIEQAGTLDEVMMEEIRE 201
           Q+++  Q +  + ++ +A   +  R      Q  +   +R  +I Q         E+IRE
Sbjct: 197 QIEQEAQNLATRANAAQARTEELARRAAAAQQTAQAIQQRDAQISQKAQQIAARAEQIRE 256

Query: 202 YKETL 206
            +  L
Sbjct: 257 RERQL 261

Length = 499

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 40.1 bits (94), Expect = 0.001
 Identities = 39/193 (20%), Positives = 90/193 (46%), Gaps = 3/193 (1%)

Query: 9   NEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKD 68
            E E L   +E   +  E ++E  ++L +++ E ++    L  E  +  +  + A    D
Sbjct: 751 EELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLD 810

Query: 69  ILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQ 128
            L  ++ +L+ + + +   I +LEE+   L+  L  +E+EL    + ++  K +  E   
Sbjct: 811 ALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEA 870

Query: 129 SAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQA 188
              +L+  L++   + +E ++ + E  S L     + ++L+E + +L     +++++E  
Sbjct: 871 EKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEELE---AKLERLEVE 927

Query: 189 GTLDEVMMEEIRE 201
               E  +EE  E
Sbjct: 928 LPELEEELEEEYE 940

Length = 1163

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 38.9 bits (91), Expect = 0.002
 Identities = 47/209 (22%), Positives = 102/209 (48%), Gaps = 10/209 (4%)

Query: 9   NEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKD 68
              E L   ++ T    E ++E+   L + LRE ++ + +L   R +  +L K   +E +
Sbjct: 176 RRIERLEKFIKRTENIEELIKEKEKELEEVLREINEISSELPELREELEKLEKE-VKELE 234

Query: 69  ILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELH-LRNQAMDLNK------- 120
            L E++  L+ +++++  + RKLEEK R L+  +  ++KE+  L  +  +L +       
Sbjct: 235 ELKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVKELKELKEKAEE 294

Query: 121 -RKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKT 179
             K  E  +   D    +EK  ++L+E    + E+   LE +  + + L++++ +L ++ 
Sbjct: 295 YIKLSEFYEEYLDELREIEKRLSRLEEEINGIEERIKELEEKEERLEELKKKLKELEKRL 354

Query: 180 ERMKKIEQAGTLDEVMMEEIREYKETLTC 208
           E +++  +     +   EE+   K+ LT 
Sbjct: 355 EELEERHELYEEAKAKKEELERLKKRLTG 383

Length = 880

>gnl|CDD|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger)

 Score = 35.0 bits (81), Expect = 0.002
 Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 3/46 (6%)

Query: 204 ETLTCPSCKVKRKDAVLTKCFH-VFCWDCLRTRYETRQRKCPKCNA 248
           E   C  C  + ++ V   C H   C +C +      ++KCP C  
Sbjct: 1   EDDLCVICLERPRNVVFLPCGHLCLCEECAKRLR--SKKKCPICRQ 44

Length = 49

>gnl|CDD|233043 TIGR00599, rad18, DNA repair protein rad18

 Score = 38.4 bits (89), Expect = 0.003
 Identities = 20/45 (44%), Positives = 22/45 (48%), Gaps = 1/45 (2%)

Query: 206 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF 250
           L C  CK      VLT C H FC  C+R R  + Q KCP C A  
Sbjct: 27  LRCHICKDFFDVPVLTSCSHTFCSLCIR-RCLSNQPKCPLCRAED 70

All proteins in this family for which functions are known are involved in nucleotide excision repair.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 397

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 38.1 bits (89), Expect = 0.004
 Identities = 51/203 (25%), Positives = 93/203 (45%), Gaps = 13/203 (6%)

Query: 10  EEEALLNEMEVTGQAFEDMQEQNSRLLQQL----REKDDANFKLMTERIKSNQLHKLARE 65
           ++E  L E+E   +  E +        QQL    RE++ A      ER ++    K   E
Sbjct: 171 KKEKALEELEEVEENIERLDLIIDEKRQQLERLRREREKA------ERYQALLKEKREYE 224

Query: 66  EKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAM-DLNKRKAI 124
             ++L E   AL+ Q +A+   +  LEE+   L   ++ +EK L    Q + +LNK+   
Sbjct: 225 GYELLKE-KEALERQKEAIERQLASLEEELEKLTEEISELEKRLEEIEQLLEELNKKIKD 283

Query: 125 ESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKK 184
              +    +K  + +  A++   ++ + EK   LE    +  +L+ EI +L  + E +++
Sbjct: 284 LGEEEQLRVKEKIGELEAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELER 343

Query: 185 -IEQAGTLDEVMMEEIREYKETL 206
            IE+     + + EE  E KE L
Sbjct: 344 EIEEERKRRDKLTEEYAELKEEL 366

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	262
KOG0978|consensus	698		100.0
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	99.61
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.46
KOG0320|consensus	187		99.44
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.39
KOG0823|consensus	230		99.36
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	99.32
KOG0317|consensus	293		99.32
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.28
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.26
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	99.25
KOG0287|consensus	442		99.2
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	99.16
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	99.15
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	99.14
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	99.14
KOG2164|consensus	513		99.13
PHA02929	238	N1R/p28-like protein; Provisional	99.12
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.11
PHA02926	242	zinc finger-like protein; Provisional	99.1
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	99.08
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.06
PF14634	44	zf-RING_5: zinc-RING finger domain	99.05
KOG0978|consensus	698		99.01
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	99.0
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	98.98
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.97
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.9
KOG2177|consensus	386		98.68
KOG4172|consensus	62		98.66
KOG0824|consensus	324		98.55
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.53
COG5152	259	Uncharacterized conserved protein, contains RING a	98.5
PRK02224	880	chromosome segregation protein; Provisional	98.48
KOG0311|consensus	381		98.46
PRK02224	880	chromosome segregation protein; Provisional	98.46
KOG2879|consensus	298		98.44
KOG4628|consensus	348		98.4
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.36
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	98.35
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	98.35
KOG0802|consensus	543		98.33
KOG4265|consensus	349		98.28
KOG1813|consensus	313		98.24
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	98.17
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	98.15
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	98.15
KOG1785|consensus	563		98.13
PF04641	260	Rtf2: Rtf2 RING-finger	98.1
KOG4159|consensus	398		98.08
KOG4275|consensus	350		98.04
PRK03918	880	chromosome segregation protein; Provisional	98.03
KOG2660|consensus	331		98.02
KOG2817|consensus	394		97.97
PF14662	193	CCDC155: Coiled-coil region of CCDC155	97.94
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.89
KOG4185|consensus	296		97.87
PRK11637	428	AmiB activator; Provisional	97.87
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.86
KOG0297|consensus	391		97.86
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	97.85
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	97.84
COG5222	427	Uncharacterized conserved protein, contains RING Z	97.83
PRK03918	880	chromosome segregation protein; Provisional	97.72
KOG1571|consensus	355		97.72
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	97.72
KOG0161|consensus	1930		97.72
KOG3039|consensus	303		97.71
KOG0161|consensus	1930		97.66
KOG1039|consensus	344		97.66
KOG1002|consensus	791		97.65
KOG0825|consensus	1134		97.64
KOG0828|consensus	636		97.64
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	97.63
KOG1645|consensus	463		97.63
KOG0250|consensus	1074		97.62
KOG0250|consensus	1074		97.61
KOG0827|consensus	465		97.59
KOG0826|consensus	357		97.57
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	97.56
KOG0804|consensus	493		97.55
KOG0999|consensus	772		97.51
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	97.5
KOG0971|consensus	1243		97.49
KOG4674|consensus	1822		97.48
PRK09039	343	hypothetical protein; Validated	97.48
PRK09039	343	hypothetical protein; Validated	97.45
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	97.45
KOG4367|consensus	699		97.43
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	97.42
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	97.38
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	97.37
PHA02562	562	46 endonuclease subunit; Provisional	97.36
KOG4692|consensus	489		97.33
KOG3002|consensus	299		97.3
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.27
PRK11637	428	AmiB activator; Provisional	97.24
PRK01156	895	chromosome segregation protein; Provisional	97.22
KOG3800|consensus	300		97.21
KOG0995|consensus	581		97.2
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	97.2
PF14662	193	CCDC155: Coiled-coil region of CCDC155	97.16
KOG1029|consensus	1118		97.14
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	97.12
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	97.08
KOG4674|consensus	1822		97.08
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.06
KOG0996|consensus	1293		97.06
KOG0996|consensus	1293		97.04
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	97.03
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	97.0
KOG2114|consensus	933		97.0
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	97.0
KOG0933|consensus	1174		96.99
KOG1001|consensus	674		96.99
KOG0933|consensus	1174		96.95
KOG0971|consensus	1243		96.94
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	96.92
PRK01156	895	chromosome segregation protein; Provisional	96.86
KOG4643|consensus	1195		96.83
COG5109	396	Uncharacterized conserved protein, contains RING Z	96.8
PRK04778	569	septation ring formation regulator EzrA; Provision	96.8
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.77
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	96.77
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	96.76
KOG0977|consensus	546		96.75
KOG1100|consensus	207		96.67
KOG1493|consensus	84		96.63
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	96.63
PRK04778	569	septation ring formation regulator EzrA; Provision	96.63
KOG2034|consensus	911		96.63
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	96.6
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	96.59
KOG1814|consensus	445		96.52
PF00038	312	Filament: Intermediate filament protein; InterPro:	96.49
PRK04863	1486	mukB cell division protein MukB; Provisional	96.46
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	96.41
KOG4673|consensus	961		96.41
KOG1734|consensus	328		96.41
COG4372	499	Uncharacterized protein conserved in bacteria with	96.39
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	96.34
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	96.3
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	96.29
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.29
COG5219	1525	Uncharacterized conserved protein, contains RING Z	96.28
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	96.27
COG5175	480	MOT2 Transcriptional repressor [Transcription]	96.24
KOG4809|consensus	654		96.24
KOG0977|consensus	546		96.15
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	96.15
KOG1941|consensus	518		96.15
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	96.12
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	96.11
KOG3161|consensus	861		96.11
PRK04863	1486	mukB cell division protein MukB; Provisional	96.07
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	96.04
KOG0980|consensus	980		96.01
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	95.98
PF00038	312	Filament: Intermediate filament protein; InterPro:	95.9
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	95.89
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	95.88
KOG3113|consensus	293		95.86
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	95.81
KOG4643|consensus	1195		95.77
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	95.66
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	95.65
KOG0980|consensus	980		95.62
KOG2930|consensus	114		95.61
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	95.61
KOG0999|consensus	772		95.58
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	95.55
KOG3970|consensus	299		95.55
KOG0964|consensus	1200		95.52
COG4942	420	Membrane-bound metallopeptidase [Cell division and	95.48
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.44
KOG4362|consensus	684		95.36
KOG4185|consensus	296		95.27
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	95.25
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	95.23
KOG4360|consensus	596		95.21
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	95.18
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	95.14
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	94.95
PHA03096	284	p28-like protein; Provisional	94.86
PF15294	278	Leu_zip: Leucine zipper	94.82
KOG1029|consensus	1118		94.81
COG4026	290	Uncharacterized protein containing TOPRIM domain,	94.8
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	94.74
KOG2932|consensus	389		94.73
KOG3579|consensus	352		94.73
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	94.61
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	94.57
PF02318	118	FYVE_2: FYVE-type zinc finger; InterPro: IPR003315	94.56
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	94.53
PF06906	57	DUF1272: Protein of unknown function (DUF1272); In	94.5
COG3813	84	Uncharacterized protein conserved in bacteria [Fun	94.48
KOG0994|consensus	1758		94.2
KOG4739|consensus	233		94.06
KOG4360|consensus	596		94.02
KOG0946|consensus	970		93.97
KOG3899|consensus	381		93.94
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	93.91
PF14992	280	TMCO5: TMCO5 family	93.91
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	93.8
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	93.78
KOG0995|consensus	581		93.77
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	93.76
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	93.73
KOG0298|consensus	1394		93.71
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	93.66
KOG3799|consensus	169		93.64
KOG0964|consensus	1200		93.59
KOG1853|consensus	333		93.57
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	93.45
KOG0243|consensus	1041		93.44
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	93.4
KOG3039|consensus	303		93.21
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	93.19
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	93.13
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	93.08
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	93.06
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	93.06
KOG4445|consensus	368		93.05
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	92.97
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	92.92
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	92.92
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	92.84
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	92.84
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	92.8
COG5185	622	HEC1 Protein involved in chromosome segregation, i	92.79
PF14569	80	zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.	92.74
COG4372	499	Uncharacterized protein conserved in bacteria with	92.67
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	92.55
KOG1812|consensus	384		92.53
KOG0993|consensus	542		92.4
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	92.29
COG4477	570	EzrA Negative regulator of septation ring formatio	92.29
KOG3842|consensus	429		92.21
KOG0963|consensus	629		92.17
COG2433	652	Uncharacterized conserved protein [Function unknow	92.09
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	91.98
PF15254	861	CCDC14: Coiled-coil domain-containing protein 14	91.97
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	91.87
KOG0249|consensus	916		91.86
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	91.86
PF15254	861	CCDC14: Coiled-coil domain-containing protein 14	91.84
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	91.82
cd00065	57	FYVE FYVE domain; Zinc-binding domain; targets pro	91.79
PF04216	290	FdhE: Protein involved in formate dehydrogenase fo	91.74
KOG0804|consensus	493		91.64
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	91.63
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	91.59
PRK04023	1121	DNA polymerase II large subunit; Validated	91.59
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	91.59
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	91.55
KOG1940|consensus	276		91.55
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	91.51
TIGR01562	305	FdhE formate dehydrogenase accessory protein FdhE.	91.4
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	91.39
KOG0994|consensus	1758		91.36
KOG0827|consensus	465		91.31
PF13248	26	zf-ribbon_3: zinc-ribbon domain	91.15
KOG1815|consensus	444		91.12
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	91.07
PF13240	23	zinc_ribbon_2: zinc-ribbon domain	91.05
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	91.01
PF04710	416	Pellino: Pellino; InterPro: IPR006800 Pellino is i	90.92
KOG1899|consensus	861		90.77
COG4647	165	AcxC Acetone carboxylase, gamma subunit [Secondary	90.65
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	90.51
COG4942	420	Membrane-bound metallopeptidase [Cell division and	90.27
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	90.25
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	90.16
PF10186	302	Atg14: UV radiation resistance protein and autopha	90.14
KOG2462|consensus	279		90.08
KOG0612|consensus	1317		90.03
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	89.98
KOG0288|consensus	459		89.96
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	89.9
PF13863	126	DUF4200: Domain of unknown function (DUF4200)	89.85
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	89.75
KOG1962|consensus	216		89.71
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	89.69
KOG4673|consensus	961		89.21
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	89.18
PF01363	69	FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc f	89.16
PRK10246	1047	exonuclease subunit SbcC; Provisional	89.07
KOG0018|consensus	1141		88.91
KOG3564|consensus	604		88.89
PF06156	107	DUF972: Protein of unknown function (DUF972); Inte	88.86
PF12660	99	zf-TFIIIC: Putative zinc-finger of transcription f	88.83
PF14353	128	CpXC: CpXC protein	88.8
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	88.78
PHA02825	162	LAP/PHD finger-like protein; Provisional	88.76
PF14319	111	Zn_Tnp_IS91: Transposase zinc-binding domain	88.68
PRK03564	309	formate dehydrogenase accessory protein FdhE; Prov	88.45
KOG0982|consensus	502		88.07
KOG2979|consensus	262		88.04
COG5185	622	HEC1 Protein involved in chromosome segregation, i	88.03
KOG1428|consensus	3738		87.86
PF07058	351	Myosin_HC-like: Myosin II heavy chain-like; InterP	87.77
KOG3268|consensus	234		87.7
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	87.53
PF10235	90	Cript: Microtubule-associated protein CRIPT; Inter	87.42
KOG1952|consensus	950		87.27
PHA02862	156	5L protein; Provisional	87.07
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	86.85
PRK13169	110	DNA replication intiation control protein YabA; Re	86.84
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	86.57
cd00350	33	rubredoxin_like Rubredoxin_like; nonheme iron bind	86.49
KOG0979|consensus	1072		86.46
PF08581	79	Tup_N: Tup N-terminal; InterPro: IPR013890 The N-t	86.42
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	86.41
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	86.38
KOG1812|consensus	384		86.37
PRK14714	1337	DNA polymerase II large subunit; Provisional	86.21
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	86.1
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	86.01
KOG1850|consensus	391		85.92
KOG0612|consensus	1317		85.91
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	85.16
KOG0976|consensus	1265		85.02
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	84.62
KOG2113|consensus	394		84.43
PF07111	739	HCR: Alpha helical coiled-coil rod protein (HCR);	84.43
PF05605	54	zf-Di19: Drought induced 19 protein (Di19), zinc-b	84.35
PF15616	131	TerY-C: TerY-C metal binding domain	84.14
PLN02939	977	transferase, transferring glycosyl groups	84.12
KOG0825|consensus	1134		84.06
PF07503	35	zf-HYPF: HypF finger; InterPro: IPR011125 Zinc fin	83.81
KOG0243|consensus	1041		83.74
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	83.69
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	83.62
KOG0963|consensus	629		83.27
COG2433	652	Uncharacterized conserved protein [Function unknow	83.24
KOG0979|consensus	1072		83.18
COG0068	750	HypF Hydrogenase maturation factor [Posttranslatio	83.17
TIGR00622	112	ssl1 transcription factor ssl1. This family is bas	83.14
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	83.14
PF12773	50	DZR: Double zinc ribbon	82.74
PF10046	99	BLOC1_2: Biogenesis of lysosome-related organelles	82.52
PF14205	55	Cys_rich_KTR: Cysteine-rich KTR	82.5
smart00064	68	FYVE Protein present in Fab1, YOTB, Vac1, and EEA1	82.44
PF10083	158	DUF2321: Uncharacterized protein conserved in bact	82.26
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	82.2
PLN02189	1040	cellulose synthase	82.16
KOG2129|consensus	552		82.1
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	81.95
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	81.75
PF08826	61	DMPK_coil: DMPK coiled coil domain like; InterPro:	81.71
PF06156	107	DUF972: Protein of unknown function (DUF972); Inte	81.71
KOG4460|consensus	741		81.63
PLN02436	1094	cellulose synthase A	81.6
COG4357	105	Zinc finger domain containing protein (CHY type) [	81.47
KOG1937|consensus	521		81.41
KOG4593|consensus	716		81.23
KOG2068|consensus	327		81.2
KOG1962|consensus	216		81.18
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	81.16
PF13166	712	AAA_13: AAA domain	81.07
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	81.01
PF15397	258	DUF4618: Domain of unknown function (DUF4618)	80.92
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	80.92
TIGR02300	129	FYDLN_acid conserved hypothetical protein TIGR0230	80.88
PRK00846	77	hypothetical protein; Provisional	80.37
PF13942	179	Lipoprotein_20: YfhG lipoprotein	80.27

>KOG0978|consensus

Probab=100.00  E-value=9.5e-48  Score=357.45  Aligned_cols=257  Identities=55%  Similarity=0.807  Sum_probs=250.4

Q ss_pred             cccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          4 GQVSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDA   83 (262)
Q Consensus         4 ~~~~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~   83 (262)
                      |+..-++..+|.+||+++|+||++||++|++|++++.+.|++|++||+++++++|.|+.++.++..++.++..+..+++.
T Consensus       442 Lqk~~~~~k~ll~e~~t~gsA~ed~Qeqn~kL~~el~ekdd~nfklm~e~~~~~q~~k~L~~ek~~l~~~i~~l~~~~~~  521 (698)
T KOG0978|consen  442 LQKKEKNFKCLLSEMETIGSAFEDMQEQNQKLLQELREKDDKNFKLMSERIKANQKHKLLREEKSKLEEQILTLKASVDK  521 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566777899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q psy16189         84 MHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAY  163 (262)
Q Consensus        84 ~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~  163 (262)
                      +...|.+++++++.++.....+.+++..+.+.++.++++..+..+...+|+..++...+.+.+++..+.+....++.+++
T Consensus       522 ~~~~i~~leeq~~~lt~~~~~l~~el~~~~~~le~~kk~~~e~~~~~~~Lq~~~ek~~~~le~i~~~~~e~~~ele~~~~  601 (698)
T KOG0978|consen  522 LELKIGKLEEQERGLTSNESKLIKELTTLTQSLEMLKKKAQEAKQSLEDLQIELEKSEAKLEQIQEQYAELELELEIEKF  601 (698)
T ss_pred             HHHHHHHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhCCchHHHHHHHHhccccCcccccccccccceeccccccccHHHHHHHhccCCCCc
Q psy16189        164 KTKRLQEEIAQLRRKTERMKKIEQAGTLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKC  243 (262)
Q Consensus       164 ~~~~~e~e~~~l~~~~~~~~~~~~~~~~~~~l~~e~~~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~C  243 (262)
                      +.+++++++..+++++++.++.......+..|.+++..++..++||+|..+|++.|+++|||.||..|+.+++..|+++|
T Consensus       602 k~~rleEE~e~L~~kle~~k~~~~~~s~d~~L~EElk~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKC  681 (698)
T KOG0978|consen  602 KRKRLEEELERLKRKLERLKKEESGASADEVLAEELKEYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKC  681 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHhccccccccccHHHHHHHHHHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCC
Confidence            99999999999999999999887777789999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCcccCCCCcccccc
Q psy16189        244 PKCNAAFGANDYHRLYL  260 (262)
Q Consensus       244 P~Cr~~~~~~d~~~iy~  260 (262)
                      |.|+++||++||++||+
T Consensus       682 P~Cn~aFganDv~~I~l  698 (698)
T KOG0978|consen  682 PKCNAAFGANDVHRIHL  698 (698)
T ss_pred             CCCCCCCCcccccccCC
Confidence            99999999999999997

>PF08647 BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR013956 BRE1 is an E3 ubiquitin ligase that has been shown to act as a transcriptional activator through direct activator interactions []

Probab=99.61  E-value=1.6e-14  Score=105.35  Aligned_cols=96  Identities=29%  Similarity=0.407  Sum_probs=93.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         14 LLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEE   93 (262)
Q Consensus        14 l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e   93 (262)
                      |..||..+.+||++...+...++.+++.+++...+|.+|+.||+|+||++|+.++++..+++.|+.++.++...|.+|++
T Consensus         1 L~~EL~~~~~a~~~~~~~~~~k~~~~~~lE~k~~rl~~Ek~kadqkyfa~mr~~d~l~~e~k~L~~~~~Ks~~~i~~L~~   80 (96)
T PF08647_consen    1 LQTELVSMEQAFKELSEQADKKVKELTILEQKKLRLEAEKAKADQKYFAAMRSKDALDNEMKKLNTQLSKSSELIEQLKE   80 (96)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHH
Q psy16189         94 KERYLQTVLTNVEKEL  109 (262)
Q Consensus        94 ~e~~l~~~i~~lekel  109 (262)
                      .|..+...+..+|+|+
T Consensus        81 ~E~~~~~~l~~~Eke~   96 (96)
T PF08647_consen   81 TEKEFVRKLKNLEKEL   96 (96)
T ss_pred             HHHHHHHHHHHhhccC
Confidence            9999999999999873

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.46  E-value=3.8e-14  Score=114.18  Aligned_cols=58  Identities=28%  Similarity=0.691  Sum_probs=51.1

Q ss_pred             cccCcccccccccccceeccccccccHHHHHHHhcc---------------CCCCccCCCcccCCCCcccccc
Q psy16189        203 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYET---------------RQRKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~---------------~~~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      ...+.|+||.+.+++|++++|||.||+.|+..|+..               +...||.|+.++...++.+||-
T Consensus        16 ~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiyg   88 (193)
T PLN03208         16 GGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYG   88 (193)
T ss_pred             CCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeec
Confidence            346899999999999999999999999999998742               2357999999999999999984

>KOG0320|consensus

Probab=99.44  E-value=4.1e-14  Score=111.06  Aligned_cols=55  Identities=38%  Similarity=0.905  Sum_probs=49.0

Q ss_pred             cCccccccccccc--ceeccccccccHHHHHHHhccCCCCccCCCcccCCCCcccccc
Q psy16189        205 TLTCPSCKVKRKD--AVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       205 ~~~C~iC~~~~~~--~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      .+.||||+..+..  |+.++|||+||..||...+.. .++||.||..+....+++|||
T Consensus       131 ~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~-~~~CP~C~kkIt~k~~~rI~L  187 (187)
T KOG0320|consen  131 TYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN-TNKCPTCRKKITHKQFHRIYL  187 (187)
T ss_pred             ccCCCceecchhhccccccccchhHHHHHHHHHHHh-CCCCCCcccccchhhheeccC
Confidence            4889999998844  567899999999999998884 578999999999999999997

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

Probab=99.39  E-value=2.8e-13  Score=83.36  Aligned_cols=39  Identities=38%  Similarity=0.886  Sum_probs=32.1

Q ss_pred             ccccccccccceeccccccccHHHHHHHhccCCC---CccCC
Q psy16189        208 CPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQR---KCPKC  246 (262)
Q Consensus       208 C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~---~CP~C  246 (262)
                      ||||.+.|.+|+.++|||+||..|+..+|.....   .||.|
T Consensus         1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999999999999999999999999986543   59987

>KOG0823|consensus

Probab=99.36  E-value=3e-13  Score=110.87  Aligned_cols=56  Identities=38%  Similarity=0.807  Sum_probs=51.3

Q ss_pred             ccCcccccccccccceeccccccccHHHHHHHhccCCC--CccCCCcccCCCCccccc
Q psy16189        204 ETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQR--KCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~--~CP~Cr~~~~~~d~~~iy  259 (262)
                      ..+.|.||.+.-++||++.|||.||+.|+..|+..+..  .||+|+..++...+.+||
T Consensus        46 ~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlY  103 (230)
T KOG0823|consen   46 GFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLY  103 (230)
T ss_pred             CceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeee
Confidence            35889999999999999999999999999999987654  389999999999999998

>smart00504 Ubox Modified RING finger domain

Probab=99.32  E-value=1.3e-12  Score=88.02  Aligned_cols=53  Identities=13%  Similarity=0.147  Sum_probs=48.2

Q ss_pred             CcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        206 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      +.||||...+.+|++++|||+||..|+..|+.. ...||.||.+++..|+.+.+
T Consensus         2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~~~~l~~~~   54 (63)
T smart00504        2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLS-HGTDPVTGQPLTHEDLIPNL   54 (63)
T ss_pred             cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHH-CCCCCCCcCCCChhhceeCH
Confidence            679999999999999999999999999999986 67899999999888877653

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

>KOG0317|consensus

Probab=99.32  E-value=8e-13  Score=111.46  Aligned_cols=56  Identities=29%  Similarity=0.717  Sum_probs=48.8

Q ss_pred             ccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCcccc
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRL  258 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~i  258 (262)
                      .+....|.+|+++..+|..+||||.||++||..|...+. .||.||.+|..+++.-+
T Consensus       236 ~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~-eCPlCR~~~~pskvi~L  291 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKA-ECPLCREKFQPSKVICL  291 (293)
T ss_pred             CCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcccc-CCCcccccCCCcceeee
Confidence            344688999999999999999999999999999998654 49999999998877544

>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=99.28  E-value=2.3e-12  Score=78.21  Aligned_cols=38  Identities=42%  Similarity=1.010  Sum_probs=33.5

Q ss_pred             ccccccccccc-eeccccccccHHHHHHHhccCCCCccCC
Q psy16189        208 CPSCKVKRKDA-VLTKCFHVFCWDCLRTRYETRQRKCPKC  246 (262)
Q Consensus       208 C~iC~~~~~~~-v~l~CgH~fC~~Ci~~~~~~~~~~CP~C  246 (262)
                      |+||.+.+.+| ++++|||+||..|+..|+.. ...||.|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK-NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence            89999999999 68899999999999999987 6889998

>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=99.26  E-value=4.3e-12  Score=81.41  Aligned_cols=45  Identities=36%  Similarity=0.854  Sum_probs=40.0

Q ss_pred             Ccccccccccccceecccccc-ccHHHHHHHhccCCCCccCCCcccC
Q psy16189        206 LTCPSCKVKRKDAVLTKCFHV-FCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      ..|+||.+.+.+++++||||. ||..|+..|+. +...||+||.++.
T Consensus         3 ~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~-~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    3 EECPICFENPRDVVLLPCGHLCFCEECAERLLK-RKKKCPICRQPIE   48 (50)
T ss_dssp             SB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH-TTSBBTTTTBB-S
T ss_pred             CCCccCCccCCceEEeCCCChHHHHHHhHHhcc-cCCCCCcCChhhc
Confidence            689999999999999999999 99999999988 6778999999875

...

>TIGR00599 rad18 DNA repair protein rad18

Probab=99.25  E-value=3e-12  Score=114.85  Aligned_cols=60  Identities=32%  Similarity=0.583  Sum_probs=51.9

Q ss_pred             HHhccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        199 IREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       199 ~~~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      +..++..+.|+||...|..|++++|||+||..|+..|+.. ...||.|+.+++..++.+.|
T Consensus        20 l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~-~~~CP~Cr~~~~~~~Lr~N~   79 (397)
T TIGR00599        20 LYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSN-QPKCPLCRAEDQESKLRSNW   79 (397)
T ss_pred             ccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhC-CCCCCCCCCccccccCccch
Confidence            4567788999999999999999999999999999999875 45799999999876665544

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

>KOG0287|consensus

Probab=99.20  E-value=2.8e-12  Score=109.97  Aligned_cols=58  Identities=24%  Similarity=0.540  Sum_probs=50.9

Q ss_pred             ccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCcccccc
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      +...++|.||.++|+.|+++||||+||+-||..++. .++.||.|..+|...+++..++
T Consensus        20 lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~-~~p~CP~C~~~~~Es~Lr~n~i   77 (442)
T KOG0287|consen   20 LDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLS-YKPQCPTCCVTVTESDLRNNRI   77 (442)
T ss_pred             hHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhc-cCCCCCceecccchhhhhhhhH
Confidence            344589999999999999999999999999999887 4677999999999888876654

>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=99.16  E-value=2.4e-11  Score=74.54  Aligned_cols=39  Identities=49%  Similarity=1.010  Sum_probs=36.1

Q ss_pred             ccccccccccce-eccccccccHHHHHHHhc-cCCCCccCC
Q psy16189        208 CPSCKVKRKDAV-LTKCFHVFCWDCLRTRYE-TRQRKCPKC  246 (262)
Q Consensus       208 C~iC~~~~~~~v-~l~CgH~fC~~Ci~~~~~-~~~~~CP~C  246 (262)
                      |+||...+..++ +++|||.||..|+..|+. .+...||.|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999999998 899999999999999999 667789988

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 ....

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

Probab=99.15  E-value=9.3e-12  Score=81.74  Aligned_cols=53  Identities=30%  Similarity=0.660  Sum_probs=30.6

Q ss_pred             hccccCccccccccccccee-ccccccccHHHHHHHhccCCCCccCCCcccCCCCcc
Q psy16189        201 EYKETLTCPSCKVKRKDAVL-TKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYH  256 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~-l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~  256 (262)
                      .++..+.|++|...++.||. ..|.|+||+.|+...+.+   .||+|+.|.-..|++
T Consensus         3 ~le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~---~CPvC~~Paw~qD~~   56 (65)
T PF14835_consen    3 RLEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS---ECPVCHTPAWIQDIQ   56 (65)
T ss_dssp             HHHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTT---B-SSS--B-S-SS--
T ss_pred             HHHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC---CCCCcCChHHHHHHH
Confidence            45667999999999999986 599999999999887664   499999999888875

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

Probab=99.14  E-value=3.2e-11  Score=83.62  Aligned_cols=55  Identities=15%  Similarity=0.181  Sum_probs=45.1

Q ss_pred             cCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      .+.||||+..+.+||+++|||+|+..||..|+..+...||.|+.++...++.+.+
T Consensus         4 ~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~   58 (73)
T PF04564_consen    4 EFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNR   58 (73)
T ss_dssp             GGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-H
T ss_pred             ccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECH
Confidence            4889999999999999999999999999999998789999999999988877653

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 ....

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

Probab=99.14  E-value=1.3e-11  Score=103.80  Aligned_cols=54  Identities=28%  Similarity=0.549  Sum_probs=46.6

Q ss_pred             ccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCcc
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYH  256 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~  256 (262)
                      +...+.|-||..+++.|+.++|||+||+-||..++.. ++.||.||.++...-.+
T Consensus        22 LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~-qp~CP~Cr~~~~esrlr   75 (391)
T COG5432          22 LDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGT-QPFCPVCREDPCESRLR   75 (391)
T ss_pred             chhHHHhhhhhheeecceecccccchhHHHHHHHhcC-CCCCccccccHHhhhcc
Confidence            4556899999999999999999999999999999984 56799999998654433

>KOG2164|consensus

Probab=99.13  E-value=2.1e-11  Score=110.28  Aligned_cols=57  Identities=26%  Similarity=0.663  Sum_probs=52.1

Q ss_pred             cCcccccccccccceeccccccccHHHHHHHhccC----CCCccCCCcccCCCCccccccC
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETR----QRKCPKCNAAFGANDYHRLYLE  261 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~~~d~~~iy~~  261 (262)
                      ...||||..++.-|+.+.|||.||..||-.+|...    ...||.|+..+...|+.+||+.
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e  246 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIE  246 (513)
T ss_pred             CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeec
Confidence            68899999999999999999999999999998765    4679999999999999999874

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.12  E-value=3.6e-11  Score=100.98  Aligned_cols=49  Identities=31%  Similarity=0.777  Sum_probs=40.8

Q ss_pred             cccCcccccccccccc--------eeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        203 KETLTCPSCKVKRKDA--------VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~--------v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      .....|+||++.+.++        ++++|||.||..|+..|+. +...||.||.+|..
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~-~~~tCPlCR~~~~~  228 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK-EKNTCPVCRTPFIS  228 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh-cCCCCCCCCCEeeE
Confidence            3458899999986542        5669999999999999987 56789999999974

>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=99.11  E-value=2.6e-11  Score=75.55  Aligned_cols=40  Identities=30%  Similarity=0.757  Sum_probs=34.0

Q ss_pred             cccccccccc---cceeccccccccHHHHHHHhccCCCCccCCC
Q psy16189        207 TCPSCKVKRK---DAVLTKCFHVFCWDCLRTRYETRQRKCPKCN  247 (262)
Q Consensus       207 ~C~iC~~~~~---~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr  247 (262)
                      .|+||.+.+.   .++.++|||.||.+|+..|+.. ...||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~-~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR-NNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH-SSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh-CCcCCccC
Confidence            5999999984   4577899999999999999986 56899996

...

>PHA02926 zinc finger-like protein; Provisional

Probab=99.10  E-value=6.2e-11  Score=96.69  Aligned_cols=58  Identities=26%  Similarity=0.610  Sum_probs=45.4

Q ss_pred             ccccCcccccccccc---------cceeccccccccHHHHHHHhccC-----CCCccCCCcccCCCCccccc
Q psy16189        202 YKETLTCPSCKVKRK---------DAVLTKCFHVFCWDCLRTRYETR-----QRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~---------~~v~l~CgH~fC~~Ci~~~~~~~-----~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      ......|+||++...         -+++.+|+|+||..|+..|...+     .+.||.||.+|..=.+.++|
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSrf~  238 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSKFY  238 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeeccccce
Confidence            344688999998642         14667999999999999998754     34599999999866666666

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

Probab=99.08  E-value=4.4e-11  Score=73.53  Aligned_cols=36  Identities=42%  Similarity=0.915  Sum_probs=23.0

Q ss_pred             cccccccccc----ceeccccccccHHHHHHHhccC---CCCcc
Q psy16189        208 CPSCKVKRKD----AVLTKCFHVFCWDCLRTRYETR---QRKCP  244 (262)
Q Consensus       208 C~iC~~~~~~----~v~l~CgH~fC~~Ci~~~~~~~---~~~CP  244 (262)
                      ||||.+ |.+    |+.|+|||+||.+|+..++..+   .++||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 877    8999999999999999999854   56787

>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=99.06  E-value=1.3e-10  Score=72.20  Aligned_cols=44  Identities=30%  Similarity=0.845  Sum_probs=37.5

Q ss_pred             cccccccccccceec-cccccccHHHHHHHhccCCCCccCCCccc
Q psy16189        207 TCPSCKVKRKDAVLT-KCFHVFCWDCLRTRYETRQRKCPKCNAAF  250 (262)
Q Consensus       207 ~C~iC~~~~~~~v~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  250 (262)
                      .|+||...+..++.+ +|||.||..|+..|+..+...||.|+..+
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            499999999666655 59999999999999987678899998754

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.05  E-value=1.3e-10  Score=72.42  Aligned_cols=41  Identities=37%  Similarity=0.805  Sum_probs=35.2

Q ss_pred             ccccccccc---ccceeccccccccHHHHHHHhccCCCCccCCCc
Q psy16189        207 TCPSCKVKR---KDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNA  248 (262)
Q Consensus       207 ~C~iC~~~~---~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~  248 (262)
                      .|++|...|   ..+++++|||+||..|+..+. .....||+|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence            489999998   356889999999999999987 45678999984

>KOG0978|consensus

Probab=99.01  E-value=9.2e-08  Score=90.83  Aligned_cols=175  Identities=15%  Similarity=0.140  Sum_probs=145.0

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          9 NEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAI   88 (262)
Q Consensus         9 ~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i   88 (262)
                      .+...+..|+..+..+|..+-......-+-+.++.+.|.+|..++.++++++|.+|.++..+....+.|+.....+...|
T Consensus       433 ~~~~~~~e~Lqk~~~~~k~ll~e~~t~gsA~ed~Qeqn~kL~~el~ekdd~nfklm~e~~~~~q~~k~L~~ek~~l~~~i  512 (698)
T KOG0978|consen  433 RQVEELSEELQKKEKNFKCLLSEMETIGSAFEDMQEQNQKLLQELREKDDKNFKLMSERIKANQKHKLLREEKSKLEEQI  512 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35566778888888888888888888889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q psy16189         89 RKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRL  168 (262)
Q Consensus        89 ~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~  168 (262)
                      ..++.....+...+..++.+.+.+............-..+.+..++.....+...+..++..+......++.........
T Consensus       513 ~~l~~~~~~~~~~i~~leeq~~~lt~~~~~l~~el~~~~~~le~~kk~~~e~~~~~~~Lq~~~ek~~~~le~i~~~~~e~  592 (698)
T KOG0978|consen  513 LTLKASVDKLELKIGKLEEQERGLTSNESKLIKELTTLTQSLEMLKKKAQEAKQSLEDLQIELEKSEAKLEQIQEQYAEL  592 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999998776665555555555556667777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHHHHHH
Q psy16189        169 QEEIAQLRRKTERMK  183 (262)
Q Consensus       169 e~e~~~l~~~~~~~~  183 (262)
                      ..+++..+.+..+++
T Consensus       593 ~~ele~~~~k~~rle  607 (698)
T KOG0978|consen  593 ELELEIEKFKRKRLE  607 (698)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            777777666655544

>smart00184 RING Ring finger

Probab=99.00  E-value=2.8e-10  Score=68.23  Aligned_cols=39  Identities=38%  Similarity=0.972  Sum_probs=35.9

Q ss_pred             ccccccccccceeccccccccHHHHHHHhccCCCCccCC
Q psy16189        208 CPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKC  246 (262)
Q Consensus       208 C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~C  246 (262)
                      |+||......+++++|||.||..|+..|+..+...||.|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            889999999999999999999999999998667789987

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)

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

Probab=98.98  E-value=1.9e-06  Score=72.47  Aligned_cols=127  Identities=19%  Similarity=0.244  Sum_probs=75.9

Q ss_pred             HHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHH
Q psy16189         27 DMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYL--QTVLTN  104 (262)
Q Consensus        27 ~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l--~~~i~~  104 (262)
                      .++.+..++--...+....+.++.+++..++..+.++..+.+.++.++..+...+.+..+.+...++.....  ...+..
T Consensus        14 ~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~a   93 (239)
T COG1579          14 KLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRA   93 (239)
T ss_pred             HHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHH
Confidence            555566666666667777788888888888888888888888888888888887777777776666544332  223444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        105 VEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTE  153 (262)
Q Consensus       105 lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~  153 (262)
                      |..++...+.....+...+.++......+..++..+..++......+.+
T Consensus        94 L~~E~~~ak~r~~~le~el~~l~~~~~~l~~~i~~l~~~~~~~e~~~~e  142 (239)
T COG1579          94 LNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLERLEKNLAE  142 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555544444444444444444444444444444444444433333333

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.97  E-value=4.6e-10  Score=97.03  Aligned_cols=56  Identities=21%  Similarity=0.669  Sum_probs=45.7

Q ss_pred             cCcccccccc-cccce----eccccccccHHHHHHHhccCCCCccCCCcccCCCCcccccc
Q psy16189        205 TLTCPSCKVK-RKDAV----LTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       205 ~~~C~iC~~~-~~~~v----~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      ...||+|... +.+|.    +.+|||.||.+|+...|..+...||.|+.++...++.+..|
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~q~F   63 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRVQLF   63 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcccccc
Confidence            3679999994 44552    22799999999999999877888999999999888777655

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).

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

Probab=98.90  E-value=5.4e-10  Score=93.38  Aligned_cols=51  Identities=25%  Similarity=0.523  Sum_probs=44.3

Q ss_pred             cCcccccccccccceeccccccccHHHHHH-HhccCCCCccCCCcccCCCCc
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHVFCWDCLRT-RYETRQRKCPKCNAAFGANDY  255 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~-~~~~~~~~CP~Cr~~~~~~d~  255 (262)
                      .+.|++|.+....|..++|||.||..|+-. |-..+.-.||.||+.....++
T Consensus       215 d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v  266 (271)
T COG5574         215 DYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV  266 (271)
T ss_pred             ccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence            578999999999999999999999999999 666555569999998876655

>KOG2177|consensus

Probab=98.68  E-value=6.7e-09  Score=90.75  Aligned_cols=47  Identities=38%  Similarity=0.821  Sum_probs=42.2

Q ss_pred             hccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCc
Q psy16189        201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNA  248 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~  248 (262)
                      .+...+.|+||...|..|++++|||+||..|+..++. ....||.|+.
T Consensus         9 ~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~   55 (386)
T KOG2177|consen    9 VLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-GPLSCPVCRP   55 (386)
T ss_pred             hccccccChhhHHHhhcCccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence            3556799999999999999999999999999999998 6678999993

>KOG4172|consensus

Probab=98.66  E-value=2.2e-09  Score=67.59  Aligned_cols=52  Identities=29%  Similarity=0.580  Sum_probs=45.5

Q ss_pred             Ccccccccccccceeccccccc-cHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        206 LTCPSCKVKRKDAVLTKCFHVF-CWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~CgH~f-C~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      -.|.||.+.+.+.|+-.|||+. |+.|--+.+...+..||.||+|+.  |+.+.|
T Consensus         8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~--dvIkTY   60 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK--DVIKTY   60 (62)
T ss_pred             cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH--HHHHhh
Confidence            5799999999999999999997 999999988877888999999874  566655

>KOG0824|consensus

Probab=98.55  E-value=2.7e-08  Score=84.67  Aligned_cols=48  Identities=25%  Similarity=0.693  Sum_probs=44.8

Q ss_pred             CcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        206 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      -.|+||.....-|+.++|+|.||.-||+..+..++..||+||.||..+
T Consensus         8 ~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~   55 (324)
T KOG0824|consen    8 KECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST   55 (324)
T ss_pred             CcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence            569999999999999999999999999999998999999999999764

>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=98.53  E-value=7.2e-08  Score=66.67  Aligned_cols=41  Identities=27%  Similarity=0.747  Sum_probs=32.3

Q ss_pred             Ccccccccccccc-------------eeccccccccHHHHHHHhccCCCCccCCC
Q psy16189        206 LTCPSCKVKRKDA-------------VLTKCFHVFCWDCLRTRYETRQRKCPKCN  247 (262)
Q Consensus       206 ~~C~iC~~~~~~~-------------v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr  247 (262)
                      -.|+||...+.++             +..+|||.|...||..|+.. ...||.||
T Consensus        20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR   73 (73)
T PF12678_consen   20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ-NNTCPLCR   73 (73)
T ss_dssp             SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT-SSB-TTSS
T ss_pred             CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc-CCcCCCCC
Confidence            3499999998322             34589999999999999984 55899997

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 ....

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

Probab=98.50  E-value=3.4e-08  Score=79.09  Aligned_cols=45  Identities=31%  Similarity=0.714  Sum_probs=39.8

Q ss_pred             cCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCccc
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF  250 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  250 (262)
                      .+.|.||...|..||.+.|||.||..|....+. ....|.+|++..
T Consensus       196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~-kg~~C~~Cgk~t  240 (259)
T COG5152         196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQ-KGDECGVCGKAT  240 (259)
T ss_pred             ceeehhchhhccchhhhhcchhHHHHHHHHHhc-cCCcceecchhh
Confidence            467999999999999999999999999998877 346799998765

>PRK02224 chromosome segregation protein; Provisional

Probab=98.48  E-value=9.9e-05  Score=74.25  Aligned_cols=15  Identities=27%  Similarity=0.718  Sum_probs=10.2

Q ss_pred             CCccCCCcccCCCCc
Q psy16189        241 RKCPKCNAAFGANDY  255 (262)
Q Consensus       241 ~~CP~Cr~~~~~~d~  255 (262)
                      ..||.|+.+|...++
T Consensus       452 ~~Cp~C~r~~~~~~~  466 (880)
T PRK02224        452 GKCPECGQPVEGSPH  466 (880)
T ss_pred             ccCCCCCCcCCCcch
Confidence            468888887766544

>KOG0311|consensus

Probab=98.46  E-value=2.2e-08  Score=86.97  Aligned_cols=59  Identities=25%  Similarity=0.746  Sum_probs=50.8

Q ss_pred             HHHHHHhccccCcccccccccccceec-cccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        195 MMEEIREYKETLTCPSCKVKRKDAVLT-KCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       195 l~~e~~~~~~~~~C~iC~~~~~~~v~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      +.-.+..+...+.||||+..++...++ .|+|-||++||...+..+...||.||+.+...
T Consensus        33 i~~~l~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   33 IMVDLAMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             heecHHHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            445566777889999999999887665 89999999999999999999999999988643

>PRK02224 chromosome segregation protein; Provisional

Probab=98.46  E-value=0.00011  Score=73.85  Aligned_cols=15  Identities=27%  Similarity=0.620  Sum_probs=10.8

Q ss_pred             ccCcccccccccccc
Q psy16189        204 ETLTCPSCKVKRKDA  218 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~  218 (262)
                      ..-.||+|..++...
T Consensus       450 ~~~~Cp~C~r~~~~~  464 (880)
T PRK02224        450 EAGKCPECGQPVEGS  464 (880)
T ss_pred             hcccCCCCCCcCCCc
Confidence            457799999877543

>KOG2879|consensus

Probab=98.44  E-value=1.5e-07  Score=79.14  Aligned_cols=47  Identities=26%  Similarity=0.629  Sum_probs=39.7

Q ss_pred             cCcccccccccccceec-cccccccHHHHHHHhccC-CCCccCCCcccC
Q psy16189        205 TLTCPSCKVKRKDAVLT-KCFHVFCWDCLRTRYETR-QRKCPKCNAAFG  251 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l-~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~  251 (262)
                      ...||+|...+..|.+. +|||.||..|+....... ...||.|+.+..
T Consensus       239 ~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  239 DTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             CceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            58899999999999655 799999999999866543 467999999876

>KOG4628|consensus

Probab=98.40  E-value=1.4e-07  Score=83.09  Aligned_cols=46  Identities=22%  Similarity=0.530  Sum_probs=40.2

Q ss_pred             Ccccccccccccc---eeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        206 LTCPSCKVKRKDA---VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       206 ~~C~iC~~~~~~~---v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      ..|.||.+.|...   ++|||+|.|-..||++|+......||+|+....
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~  278 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIR  278 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCC
Confidence            6999999999664   679999999999999999976566999998764

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

Probab=98.36  E-value=2e-07  Score=81.42  Aligned_cols=47  Identities=28%  Similarity=0.603  Sum_probs=40.2

Q ss_pred             cccCccccccccc-------------ccceeccccccccHHHHHHHhccCCCCccCCCccc
Q psy16189        203 KETLTCPSCKVKR-------------KDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF  250 (262)
Q Consensus       203 ~~~~~C~iC~~~~-------------~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  250 (262)
                      ..+..|.||++.+             +.|..+||||.+-..|++.|.+ |.-+||.||.|+
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~E-RqQTCPICr~p~  344 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLE-RQQTCPICRRPV  344 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHH-hccCCCcccCcc
Confidence            4468899999983             2247889999999999999998 788999999995

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=98.35  E-value=1.7e-07  Score=59.72  Aligned_cols=48  Identities=25%  Similarity=0.609  Sum_probs=39.5

Q ss_pred             cCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCc
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDY  255 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~  255 (262)
                      ...|-.|...-...+++||||..|..|...   .|..-||+|+++|...++
T Consensus         7 ~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~---~rYngCPfC~~~~~~~~~   54 (55)
T PF14447_consen    7 EQPCVFCGFVGTKGTVLPCGHLICDNCFPG---ERYNGCPFCGTPFEFDDP   54 (55)
T ss_pred             ceeEEEccccccccccccccceeeccccCh---hhccCCCCCCCcccCCCC
Confidence            466778888777889999999999999876   356679999999976653

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

Probab=98.35  E-value=2.5e-07  Score=78.87  Aligned_cols=49  Identities=22%  Similarity=0.472  Sum_probs=41.6

Q ss_pred             ccCccccccccccc---ceeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        204 ETLTCPSCKVKRKD---AVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       204 ~~~~C~iC~~~~~~---~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      ....|.||+..|..   .+.+||.|.|-..|+..|+..-...||+||.+++.
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            34789999998843   37789999999999999998666789999998864

>KOG0802|consensus

Probab=98.33  E-value=2.1e-07  Score=88.38  Aligned_cols=49  Identities=29%  Similarity=0.596  Sum_probs=42.5

Q ss_pred             ccCccccccccccc-----ceeccccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        204 ETLTCPSCKVKRKD-----AVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       204 ~~~~C~iC~~~~~~-----~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      ....|+||.+.+..     |..++|||.||..|+..|+. +...||.||..+-..
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~e-r~qtCP~CR~~~~~~  343 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFE-RQQTCPTCRTVLYDY  343 (543)
T ss_pred             cCCeeeeechhhccccccccceeecccchHHHHHHHHHH-HhCcCCcchhhhhcc
Confidence            35789999999877     78999999999999999998 678899999955433

>KOG4265|consensus

Probab=98.28  E-value=3.6e-07  Score=79.87  Aligned_cols=55  Identities=22%  Similarity=0.615  Sum_probs=45.0

Q ss_pred             cccCcccccccccccceeccccccc-cHHHHHHHhccCCCCccCCCcccCCCCcccccc
Q psy16189        203 KETLTCPSCKVKRKDAVLTKCFHVF-CWDCLRTRYETRQRKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~v~l~CgH~f-C~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      .....|.||+...++++++||.|+. |+.|.+..- -..+.||+||.+|..  +..||.
T Consensus       288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr-~q~n~CPICRqpi~~--ll~i~~  343 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLR-YQTNNCPICRQPIEE--LLEIYV  343 (349)
T ss_pred             cCCCeeEEEecCCcceEEecchhhehhHhHHHHHH-HhhcCCCccccchHh--hheecc
Confidence            4467899999999999999999997 999998844 346789999999864  344443

>KOG1813|consensus

Probab=98.24  E-value=3e-07  Score=78.14  Aligned_cols=46  Identities=30%  Similarity=0.608  Sum_probs=40.0

Q ss_pred             cCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      .+.|.||...|.+||.+.|||.||..|....+. +...|++|+....
T Consensus       241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~q-k~~~c~vC~~~t~  286 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQ-KGEKCYVCSQQTH  286 (313)
T ss_pred             CccccccccccccchhhcCCceeehhhhccccc-cCCcceecccccc
Confidence            356999999999999999999999999988776 4567999988763

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

Probab=98.17  E-value=1.2e-06  Score=57.36  Aligned_cols=43  Identities=26%  Similarity=0.492  Sum_probs=30.2

Q ss_pred             ccCcccccccccccceec-cccccccHHHHHHHhc-cCCCCccCC
Q psy16189        204 ETLTCPSCKVKRKDAVLT-KCFHVFCWDCLRTRYE-TRQRKCPKC  246 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~v~l-~CgH~fC~~Ci~~~~~-~~~~~CP~C  246 (262)
                      ..+.|||....|.+||.- .|||+|....|..++. .+...||.-
T Consensus        10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv~   54 (57)
T PF11789_consen   10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPVA   54 (57)
T ss_dssp             --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SCC
T ss_pred             eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCCC
Confidence            358999999999999874 9999999999999993 345679993

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=98.15  E-value=0.004  Score=64.31  Aligned_cols=20  Identities=20%  Similarity=0.285  Sum_probs=7.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q psy16189         12 EALLNEMEVTGQAFEDMQEQ   31 (262)
Q Consensus        12 ~~l~~Eie~~~~a~e~~q~q   31 (262)
                      ..+..+++.+....++++..
T Consensus       673 ~~l~~e~~~l~~~~~~l~~~  692 (1179)
T TIGR02168       673 LERRREIEELEEKIEELEEK  692 (1179)
T ss_pred             hhHHHHHHHHHHHHHHHHHH
Confidence            33444444444433333333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=98.15  E-value=0.0033  Score=64.85  Aligned_cols=35  Identities=20%  Similarity=0.337  Sum_probs=15.4

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q psy16189         10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDD   44 (262)
Q Consensus        10 ~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~   44 (262)
                      +.+.+-.+++.+...+..++.....+-..+.+...
T Consensus       678 e~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~~  712 (1179)
T TIGR02168       678 EIEELEEKIEELEEKIAELEKALAELRKELEELEE  712 (1179)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444444333333333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.

>KOG1785|consensus

Probab=98.13  E-value=9e-07  Score=78.07  Aligned_cols=48  Identities=25%  Similarity=0.687  Sum_probs=42.3

Q ss_pred             cccccccccccceeccccccccHHHHHHHhccC-CCCccCCCcccCCCC
Q psy16189        207 TCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETR-QRKCPKCNAAFGAND  254 (262)
Q Consensus       207 ~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~~d  254 (262)
                      .|-||-++-++..+-||||..|..|+..|..+. ...||+||..+....
T Consensus       371 LCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte  419 (563)
T KOG1785|consen  371 LCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE  419 (563)
T ss_pred             HHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence            499999999999999999999999999999655 678999999885543

>PF04641 Rtf2: Rtf2 RING-finger

Probab=98.10  E-value=2.6e-06  Score=73.43  Aligned_cols=58  Identities=24%  Similarity=0.436  Sum_probs=46.7

Q ss_pred             ccccCccccccccccc----ceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccccC
Q psy16189        202 YKETLTCPSCKVKRKD----AVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLE  261 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~----~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~~  261 (262)
                      ....+.|||+...|..    .++.||||+|+..++...-  ....||.|+.+|...|+.+|.-+
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~~DiI~Lnp~  171 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTEEDIIPLNPP  171 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccccCCEEEecCC
Confidence            3456889999998844    2455999999999999963  34569999999999999988654

>KOG4159|consensus

Probab=98.08  E-value=1.5e-06  Score=78.46  Aligned_cols=49  Identities=27%  Similarity=0.710  Sum_probs=43.2

Q ss_pred             cccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        203 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      ...+.|.||...+..||.+||||+||..|+.+... ....||.|+.+|..
T Consensus        82 ~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld-~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLD-QETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCCccccccccccHHHHHHHhc-cCCCCccccccccc
Confidence            56689999999999999999999999999999666 45669999999874

>KOG4275|consensus

Probab=98.04  E-value=5.9e-07  Score=76.16  Aligned_cols=48  Identities=27%  Similarity=0.666  Sum_probs=39.5

Q ss_pred             cCcccccccccccceeccccccc-cHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHVF-CWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~f-C~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      ...|.||++.+.+.++|+|||+. |..|-.     ++..||+||..+..  +.+||
T Consensus       300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGk-----rm~eCPICRqyi~r--vvrif  348 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLECGHMVTCTKCGK-----RMNECPICRQYIVR--VVRIF  348 (350)
T ss_pred             HHHHHHHhcCCcceEEeecCcEEeehhhcc-----ccccCchHHHHHHH--HHhhh
Confidence            46799999999999999999998 999954     45689999997743  45555

>PRK03918 chromosome segregation protein; Provisional

Probab=98.03  E-value=0.01  Score=59.87  Aligned_cols=12  Identities=33%  Similarity=0.935  Sum_probs=7.8

Q ss_pred             CccCCCcccCCC
Q psy16189        242 KCPKCNAAFGAN  253 (262)
Q Consensus       242 ~CP~Cr~~~~~~  253 (262)
                      .||+|+.|++..
T Consensus       437 ~Cp~c~~~L~~~  448 (880)
T PRK03918        437 KCPVCGRELTEE  448 (880)
T ss_pred             CCCCCCCcCCch
Confidence            477777777643

>KOG2660|consensus

Probab=98.02  E-value=1.9e-06  Score=74.59  Aligned_cols=53  Identities=30%  Similarity=0.713  Sum_probs=45.0

Q ss_pred             HhccccCcccccccccccce-eccccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        200 REYKETLTCPSCKVKRKDAV-LTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       200 ~~~~~~~~C~iC~~~~~~~v-~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      ..+...+.|.+|...+.++. ++-|-|+||.+||-.++.. ...||.|+..++..
T Consensus        10 ~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   10 TELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE-SKYCPTCDIVIHKT   63 (331)
T ss_pred             hhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHH-hccCCccceeccCc
Confidence            34566789999999998874 5599999999999999985 77899999988765

>KOG2817|consensus

Probab=97.97  E-value=4.5e-06  Score=74.00  Aligned_cols=59  Identities=27%  Similarity=0.509  Sum_probs=50.4

Q ss_pred             ccccCccccccccc---ccceeccccccccHHHHHHHhccCC--CCccCCCcccCCCCcccccc
Q psy16189        202 YKETLTCPSCKVKR---KDAVLTKCFHVFCWDCLRTRYETRQ--RKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       202 ~~~~~~C~iC~~~~---~~~v~l~CgH~fC~~Ci~~~~~~~~--~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      +.+.+.|||=.+.-   ..|+.+.|||+.|.+-+.....++.  ++||+|.......+..+|||
T Consensus       331 fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~~~~kql~F  394 (394)
T KOG2817|consen  331 FHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLASDTKQLYF  394 (394)
T ss_pred             ccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCHHhcccccC
Confidence            44567899866543   4579999999999999999998887  89999999999999999997

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=97.94  E-value=0.0069  Score=49.06  Aligned_cols=127  Identities=20%  Similarity=0.211  Sum_probs=67.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHH----------HHHHHHHHHHHHHHHHHHHHH
Q psy16189         13 ALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHK----------LAREEKDILHEQVNALKLQID   82 (262)
Q Consensus        13 ~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~----------~~~~~k~~l~~e~~~l~~~~~   82 (262)
                      -|++=|+.+...-..+..+|.++-..+.-.++.+.+|..+.......+.          ++.++.+.|......|.....
T Consensus         5 dL~~~v~dL~~~n~~L~~en~kL~~~ve~~ee~na~L~~e~~~L~~q~~s~Qqal~~aK~l~eEledLk~~~~~lEE~~~   84 (193)
T PF14662_consen    5 DLLSCVEDLQLNNQKLADENAKLQRSVETAEEGNAQLAEEITDLRKQLKSLQQALQKAKALEEELEDLKTLAKSLEEENR   84 (193)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666666666666666666666666777777777666665544333          333333333333333333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         83 AMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEK  139 (262)
Q Consensus        83 ~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~  139 (262)
                      ........++.....+...+..|..+...+....+..+++..++......|+.++-.
T Consensus        85 ~L~aq~rqlEkE~q~L~~~i~~Lqeen~kl~~e~~~lk~~~~eL~~~~~~Lq~Ql~~  141 (193)
T PF14662_consen   85 SLLAQARQLEKEQQSLVAEIETLQEENGKLLAERDGLKKRSKELATEKATLQRQLCE  141 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHhhHHHHHHHHH
Confidence            333333344444444555555555555555555555555555555555555555533

>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT)

Probab=97.89  E-value=0.023  Score=53.42  Aligned_cols=93  Identities=25%  Similarity=0.287  Sum_probs=51.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         15 LNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKS-------NQLHKLAREEKDILHEQVNALKLQIDAMHTA   87 (262)
Q Consensus        15 ~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka-------~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~   87 (262)
                      -..++.+.+-.+++...+..+-..+..+...+.+|.+++...       .+.+..+....+.+..++..|..+...+...
T Consensus       142 Q~qlE~~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L~~q~~e~~~r  221 (546)
T PF07888_consen  142 QNQLEECQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESLKEQLAEARQR  221 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444445555555555555555444444444444444333       3334444455666677777777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q psy16189         88 IRKLEEKERYLQTVLTNVEK  107 (262)
Q Consensus        88 i~~l~e~e~~l~~~i~~lek  107 (262)
                      |..|++....+..+....++
T Consensus       222 i~~LEedi~~l~qk~~E~e~  241 (546)
T PF07888_consen  222 IRELEEDIKTLTQKEKEQEK  241 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            77777666655555543333

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

>KOG4185|consensus

Probab=97.87  E-value=7.2e-06  Score=72.07  Aligned_cols=52  Identities=21%  Similarity=0.467  Sum_probs=43.4

Q ss_pred             cCcccccccccc------cceeccccccccHHHHHHHhccCCCCccCCCcc--cCCCCcc
Q psy16189        205 TLTCPSCKVKRK------DAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAA--FGANDYH  256 (262)
Q Consensus       205 ~~~C~iC~~~~~------~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~--~~~~d~~  256 (262)
                      ...|.||...|.      .|.++.|||+||..|+.+........||+||.+  +...++.
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~   62 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVK   62 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcccCCchhHh
Confidence            478999999884      478889999999999999998888889999999  4444443

>PRK11637 AmiB activator; Provisional

Probab=97.87  E-value=0.023  Score=52.67  Aligned_cols=82  Identities=15%  Similarity=0.228  Sum_probs=53.7

Q ss_pred             chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          7 SGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHT   86 (262)
Q Consensus         7 ~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~   86 (262)
                      .+++.+.+..+|+.+.+...+++.+...+..++...+..+..+..+.....+....+..+.+.++.++..++..++...+
T Consensus        45 ~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~  124 (428)
T PRK11637         45 NRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQER  124 (428)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666667777777777777777777777777776666666666666666666666666666666666666666555544


Q ss_pred             HH
Q psy16189         87 AI   88 (262)
Q Consensus        87 ~i   88 (262)
                      .+
T Consensus       125 ~l  126 (428)
T PRK11637        125 LL  126 (428)
T ss_pred             HH
Confidence            44

>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT)

Probab=97.86  E-value=0.026  Score=53.07  Aligned_cols=88  Identities=24%  Similarity=0.370  Sum_probs=61.0

Q ss_pred             chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          7 SGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHT   86 (262)
Q Consensus         7 ~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~   86 (262)
                      ...+.+.|..+...+......|+.++.++-..+........+|..+.-........+..+++.|..+...+...+..+..
T Consensus       148 ~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L~~q~~e~~~ri~~LEe  227 (546)
T PF07888_consen  148 CQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESLKEQLAEARQRIRELEE  227 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566667777788888888888888888777777777777777665555556666667777777777766666666665


Q ss_pred             HHHHHHHH
Q psy16189         87 AIRKLEEK   94 (262)
Q Consensus        87 ~i~~l~e~   94 (262)
                      .|..+..+
T Consensus       228 di~~l~qk  235 (546)
T PF07888_consen  228 DIKTLTQK  235 (546)
T ss_pred             HHHHHHHH
Confidence            55555443

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

>KOG0297|consensus

Probab=97.86  E-value=6.5e-06  Score=74.98  Aligned_cols=52  Identities=35%  Similarity=0.762  Sum_probs=45.3

Q ss_pred             ccccCccccccccccccee-ccccccccHHHHHHHhccCCCCccCCCcccCCCC
Q psy16189        202 YKETLTCPSCKVKRKDAVL-TKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAND  254 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~-l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d  254 (262)
                      +...+.|++|...+.+|+. +.|||.||..|+..|... +..||.|+.+.....
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~~   70 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQAE   70 (391)
T ss_pred             CcccccCccccccccCCCCCCCCCCcccccccchhhcc-CcCCcccccccchhh
Confidence            4556999999999999998 499999999999999886 788999988776543

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

Probab=97.85  E-value=0.0051  Score=51.95  Aligned_cols=109  Identities=23%  Similarity=0.236  Sum_probs=60.6

Q ss_pred             cccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhH--HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          4 GQVSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKS--NQLHKLAREEKDILHEQVNALKLQI   81 (262)
Q Consensus         4 ~~~~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka--~q~~~~~~~~k~~l~~e~~~l~~~~   81 (262)
                      |.+.+++.+++...+..+..++++++.|...+-..+.+......++......+  .--|.++..+.+.+.....+|...+
T Consensus        33 l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~le~el  112 (239)
T COG1579          33 LKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDEL  112 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666777777777777777777777777777777666666655554333111  3444455555555555555555544


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         82 DAMHTAIRKLEEKERYLQTVLTNVEKELHLR  112 (262)
Q Consensus        82 ~~~~~~i~~l~e~e~~l~~~i~~lekel~~~  112 (262)
                      ......+..+.+....+...+..+++.+...
T Consensus       113 ~~l~~~~~~l~~~i~~l~~~~~~~e~~~~e~  143 (239)
T COG1579         113 AELMEEIEKLEKEIEDLKERLERLEKNLAEA  143 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444444333

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

Probab=97.84  E-value=1.4e-05  Score=56.07  Aligned_cols=48  Identities=27%  Similarity=0.630  Sum_probs=36.0

Q ss_pred             cCcccccccccc-----------c-c-eeccccccccHHHHHHHhccC--CCCccCCCcccCC
Q psy16189        205 TLTCPSCKVKRK-----------D-A-VLTKCFHVFCWDCLRTRYETR--QRKCPKCNAAFGA  252 (262)
Q Consensus       205 ~~~C~iC~~~~~-----------~-~-v~l~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~~  252 (262)
                      .-.|+||...|.           + | +.-.|+|.|-..||..|+.+.  ...||.||.++..
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            355777766663           2 3 334899999999999999964  4679999998854

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

Probab=97.83  E-value=7.8e-06  Score=69.70  Aligned_cols=43  Identities=35%  Similarity=0.824  Sum_probs=38.8

Q ss_pred             Ccccccccccccceec-cccccccHHHHHHHhccCCCCccCCCc
Q psy16189        206 LTCPSCKVKRKDAVLT-KCFHVFCWDCLRTRYETRQRKCPKCNA  248 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~  248 (262)
                      +.|+.|+...++|+.+ -|||+||..||..-+-...+.||.|..
T Consensus       275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            8899999999999888 679999999999877767789999976

>PRK03918 chromosome segregation protein; Provisional

Probab=97.72  E-value=0.068  Score=53.93  Aligned_cols=9  Identities=33%  Similarity=0.947  Sum_probs=4.7

Q ss_pred             ccccccccc
Q psy16189        207 TCPSCKVKR  215 (262)
Q Consensus       207 ~C~iC~~~~  215 (262)
                      .||+|..+.
T Consensus       437 ~Cp~c~~~L  445 (880)
T PRK03918        437 KCPVCGREL  445 (880)
T ss_pred             CCCCCCCcC
Confidence            455555543

>KOG1571|consensus

Probab=97.72  E-value=1.1e-05  Score=70.85  Aligned_cols=50  Identities=28%  Similarity=0.594  Sum_probs=37.1

Q ss_pred             ccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        204 ETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      ....|.||...+.+.+.+||||+.|  |..-..  ..+.||.||..+..  +.++|
T Consensus       304 ~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~--~l~~CPvCR~rI~~--~~k~y  353 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSK--HLPQCPVCRQRIRL--VRKRY  353 (355)
T ss_pred             CCCceEEecCCccceeeecCCcEEE--chHHHh--hCCCCchhHHHHHH--HHHHh
Confidence            3567999999999999999999986  544322  23459999997754  35555

>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=97.72  E-value=0.023  Score=48.39  Aligned_cols=95  Identities=11%  Similarity=0.150  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         14 LLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEE   93 (262)
Q Consensus        14 l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e   93 (262)
                      +-...+....++..+...+..--..+..++..+..+..-...++.+|..+......++..+......++.....|..|++
T Consensus        69 ~e~~~de~er~~k~lE~r~~~~eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~  148 (237)
T PF00261_consen   69 AEKRADESERARKVLENREQSDEERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEE  148 (237)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHH
Confidence            33344444444444444444444444455555555555555555555555555555555555444444444444444444


Q ss_pred             HHHHHHHHHHHHHHH
Q psy16189         94 KERYLQTVLTNVEKE  108 (262)
Q Consensus        94 ~e~~l~~~i~~leke  108 (262)
                      .-+.+...+..|+..
T Consensus       149 el~~~~~~lk~lE~~  163 (237)
T PF00261_consen  149 ELKSVGNNLKSLEAS  163 (237)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhh
Confidence            444444444433333

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>KOG0161|consensus

Probab=97.72  E-value=0.034  Score=59.50  Aligned_cols=55  Identities=22%  Similarity=0.304  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKK  184 (262)
Q Consensus       130 ~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~~  184 (262)
                      +.+....+..+...+.+++..+.++...++.++.....++.....+...++.++.
T Consensus      1085 ~e~e~~~~~~l~k~i~eL~~~i~el~e~le~er~~r~K~ek~r~dL~~ele~l~~ 1139 (1930)
T KOG0161|consen 1085 LEDEQAEVAQLQKQIKELEARIKELEEELEAERASRAKAERQRRDLSEELEELKE 1139 (1930)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555555666666666666666666666666555555555555555554443

>KOG3039|consensus

Probab=97.71  E-value=2.6e-05  Score=64.80  Aligned_cols=54  Identities=19%  Similarity=0.286  Sum_probs=45.3

Q ss_pred             ccCcccccccccccc----eeccccccccHHHHHHHhccCCCCccCCCcccCCCCcccc
Q psy16189        204 ETLTCPSCKVKRKDA----VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRL  258 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~----v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~i  258 (262)
                      ..+.||+|...+.+.    ++-||||+||..|+...+..+ -.||+|+.++...|+..+
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D-~v~pv~d~plkdrdiI~L  277 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKD-MVDPVTDKPLKDRDIIGL  277 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhcccc-ccccCCCCcCcccceEee
Confidence            457899999988764    455999999999999988754 459999999999988754

>KOG0161|consensus

Probab=97.66  E-value=0.053  Score=58.09  Aligned_cols=13  Identities=31%  Similarity=0.675  Sum_probs=4.7

Q ss_pred             HHHHHHHHHHHHH
Q psy16189        164 KTKRLQEEIAQLR  176 (262)
Q Consensus       164 ~~~~~e~e~~~l~  176 (262)
                      ....+..++..++
T Consensus      1126 ~r~dL~~ele~l~ 1138 (1930)
T KOG0161|consen 1126 QRRDLSEELEELK 1138 (1930)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

>KOG1039|consensus

Probab=97.66  E-value=2.3e-05  Score=69.49  Aligned_cols=55  Identities=22%  Similarity=0.609  Sum_probs=41.3

Q ss_pred             cCcccccccccccce-----e---ccccccccHHHHHHHhccCC------CCccCCCcccCCCCccccc
Q psy16189        205 TLTCPSCKVKRKDAV-----L---TKCFHVFCWDCLRTRYETRQ------RKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v-----~---l~CgH~fC~~Ci~~~~~~~~------~~CP~Cr~~~~~~d~~~iy  259 (262)
                      ...|.||++....++     +   .+|-|.||..|+..|-..+.      +.||.||.+........+|
T Consensus       161 ~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~~W  229 (344)
T KOG1039|consen  161 EKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSSFW  229 (344)
T ss_pred             cccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccccccee
Confidence            578999999875554     3   67999999999999875444      6799999977654333333

>KOG1002|consensus

Probab=97.65  E-value=1.8e-05  Score=72.33  Aligned_cols=52  Identities=25%  Similarity=0.653  Sum_probs=43.7

Q ss_pred             cccCcccccccccccceeccccccccHHHHHHHhcc----CCCCccCCCcccCCCC
Q psy16189        203 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYET----RQRKCPKCNAAFGAND  254 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~----~~~~CP~Cr~~~~~~d  254 (262)
                      .....|.+|.++-.+++...|.|.||.-|+..++..    ...+||+|..+++..+
T Consensus       534 k~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl  589 (791)
T KOG1002|consen  534 KGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL  589 (791)
T ss_pred             cCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence            345789999999999999999999999999777653    3467999999987654

>KOG0825|consensus

Probab=97.64  E-value=9e-06  Score=77.31  Aligned_cols=53  Identities=23%  Similarity=0.495  Sum_probs=40.5

Q ss_pred             Ccccccccccccce---eccccccccHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        206 LTCPSCKVKRKDAV---LTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       206 ~~C~iC~~~~~~~v---~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      ..||+|...|.+..   -.+|+|.||..|+..|... .-.||+||..|+.-+|.-.|
T Consensus       124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~-aqTCPiDR~EF~~v~V~eS~  179 (1134)
T KOG0825|consen  124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC-AQTCPVDRGEFGEVKVLEST  179 (1134)
T ss_pred             hhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh-cccCchhhhhhheeeeeccc
Confidence            45888887776542   2499999999999998873 45799999999876655433

>KOG0828|consensus

Probab=97.64  E-value=2.3e-05  Score=71.04  Aligned_cols=49  Identities=29%  Similarity=0.621  Sum_probs=40.0

Q ss_pred             ccCcccccccccc-----------------cceeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        204 ETLTCPSCKVKRK-----------------DAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       204 ~~~~C~iC~~~~~-----------------~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      ...-|+||+....                 +...+||-|.|-..|+..|..+..-.||+||.+++.
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            3466999999752                 234569999999999999999777789999999863

>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]

Probab=97.63  E-value=1.6e-05  Score=65.82  Aligned_cols=49  Identities=22%  Similarity=0.676  Sum_probs=39.2

Q ss_pred             cCcccccccc-cccc--eec--c-ccccccHHHHHHHhccCCCCcc--CCCcccCCC
Q psy16189        205 TLTCPSCKVK-RKDA--VLT--K-CFHVFCWDCLRTRYETRQRKCP--KCNAAFGAN  253 (262)
Q Consensus       205 ~~~C~iC~~~-~~~~--v~l--~-CgH~fC~~Ci~~~~~~~~~~CP--~Cr~~~~~~  253 (262)
                      ...||+|... |-+|  .++  | |.|.+|.+|+++.+..|+..||  .|+.-+...
T Consensus        10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~   66 (314)
T COG5220          10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKI   66 (314)
T ss_pred             cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHh
Confidence            4689999984 5555  222  5 9999999999999999999999  898766543

>KOG1645|consensus

Probab=97.63  E-value=1.5e-05  Score=70.84  Aligned_cols=55  Identities=25%  Similarity=0.539  Sum_probs=44.2

Q ss_pred             cCcccccccccccc-----eeccccccccHHHHHHHhccCC-CCccCCCcccCCCCccccc
Q psy16189        205 TLTCPSCKVKRKDA-----VLTKCFHVFCWDCLRTRYETRQ-RKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       205 ~~~C~iC~~~~~~~-----v~l~CgH~fC~~Ci~~~~~~~~-~~CP~Cr~~~~~~d~~~iy  259 (262)
                      ..+||||.+.|.-+     +++.|||.|..+||..|+.... ..||.|...-..+++.+.|
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e~   64 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPEY   64 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHHH
Confidence            36899999988654     6789999999999999995221 2499998887777777766

>KOG0250|consensus

Probab=97.62  E-value=0.067  Score=53.67  Aligned_cols=80  Identities=21%  Similarity=0.270  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        101 VLTNVEKELHLRNQAM-DLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKT  179 (262)
Q Consensus       101 ~i~~lekel~~~~~~~-~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~  179 (262)
                      .+..+++++..+.... ........+....+..|..+++.++.+++.+..........+..........+..+..+++++
T Consensus       373 ~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~~~~~~~~~ee~~~i~~~i~~l~k~i  452 (1074)
T KOG0250|consen  373 EVDRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQINSLREELNEVKEKAKEEEEEKEHIEGEILQLRKKI  452 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            3344444444433222 233334445555555566666666666555555555555554444444444444444444443


Q ss_pred             H
Q psy16189        180 E  180 (262)
Q Consensus       180 ~  180 (262)
                      +
T Consensus       453 ~  453 (1074)
T KOG0250|consen  453 E  453 (1074)
T ss_pred             H
Confidence            3

>KOG0250|consensus

Probab=97.61  E-value=0.097  Score=52.58  Aligned_cols=148  Identities=21%  Similarity=0.274  Sum_probs=81.4

Q ss_pred             HHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHH
Q psy16189         37 QQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKEL-HLRNQA  115 (262)
Q Consensus        37 ~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel-~~~~~~  115 (262)
                      +.+++.+..+..+..+..--+--...+++..+.+..++..++.........|.+++.....+..+|..++++. ..+...
T Consensus       316 ~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~re~~~~~~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~~~~~~~~~  395 (1074)
T KOG0250|consen  316 QKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRREVNDLKEEIREIENSIRKLKKEVDRLEKQIADLEKQTNNELGSE  395 (1074)
T ss_pred             hhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence            3444444444444444433344444444444444444445555544445555555666666666666666666 345555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        116 MDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKK  184 (262)
Q Consensus       116 ~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~~  184 (262)
                      +.....+...+.+++..+..++..+......+.........+.......+..+...+......+..+++
T Consensus       396 ~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~~~~~~~~~ee~~~i~~~i~~l~k~i~~~~~~l~~lk~  464 (1074)
T KOG0250|consen  396 LEERENKLEQLKKEVEKLEEQINSLREELNEVKEKAKEEEEEKEHIEGEILQLRKKIENISEELKDLKK  464 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            555555666666666666666666666666666666666666655555555555555555555555543

>KOG0827|consensus

Probab=97.59  E-value=2.9e-05  Score=68.50  Aligned_cols=51  Identities=25%  Similarity=0.579  Sum_probs=38.3

Q ss_pred             Ccccccccccccc----eeccccccccHHHHHHHhccCC--CCccCCCcccCCCCcc
Q psy16189        206 LTCPSCKVKRKDA----VLTKCFHVFCWDCLRTRYETRQ--RKCPKCNAAFGANDYH  256 (262)
Q Consensus       206 ~~C~iC~~~~~~~----v~l~CgH~fC~~Ci~~~~~~~~--~~CP~Cr~~~~~~d~~  256 (262)
                      -.|.||.+.+.+.    .+-.|||+|-..|+..|+...+  |.||.|+..++...+.
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~   61 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHVA   61 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceeee
Confidence            5699996655433    2336999999999999999765  4799999666655444

>KOG0826|consensus

Probab=97.57  E-value=2.3e-05  Score=67.82  Aligned_cols=56  Identities=23%  Similarity=0.498  Sum_probs=48.3

Q ss_pred             cCcccccccccccceec-cccccccHHHHHHHhccCCCCccCCCcccCCCCccccccC
Q psy16189        205 TLTCPSCKVKRKDAVLT-KCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLE  261 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~~  261 (262)
                      .-.||+|.....+|..+ .-|.+||..|+..++. ....||+-+.|....++.++|-+
T Consensus       300 ~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~-~~~~CPVT~~p~~v~~l~rl~~~  356 (357)
T KOG0826|consen  300 REVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVV-NYGHCPVTGYPASVDHLIRLFNK  356 (357)
T ss_pred             cccChhHHhccCCCceEEecceEEeHHHHHHHHH-hcCCCCccCCcchHHHHHHHhcC
Confidence            45699999998888555 5599999999999988 56789999999999999998865

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=97.56  E-value=0.079  Score=50.36  Aligned_cols=140  Identities=18%  Similarity=0.234  Sum_probs=98.9

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---
Q psy16189         45 ANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKR---  121 (262)
Q Consensus        45 ~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~---  121 (262)
                      .+..+..|+..++.....+..+...|...+..|+..+++.+..+..+.+.+......+..|+.++...+..++...-   
T Consensus       282 ~l~s~~~ELe~ak~~L~~~k~E~~~L~~~vesL~~ELe~~K~el~~lke~e~~a~~~v~~L~~eL~~~r~eLea~~~~e~  361 (522)
T PF05701_consen  282 SLASAKKELEEAKKELEKAKEEASSLRASVESLRSELEKEKEELERLKEREKEASSEVSSLEAELNKTRSELEAAKAEEE  361 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHHHHHHHhhhc
Confidence            35566677777777777777788888889999999999999999999999999999999999999988888764322   


Q ss_pred             ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        122 ----KAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKK  184 (262)
Q Consensus       122 ----k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~~  184 (262)
                          ...++...+..+..+.+..+......+..+.....+++..+..+..++..+....+.++..+.
T Consensus       362 ~~k~~~~~l~~~Lqql~~Eae~Ak~ea~~~~~E~~~~k~E~e~~ka~i~t~E~rL~aa~ke~eaaKa  428 (522)
T PF05701_consen  362 KAKEAMSELPKALQQLSSEAEEAKKEAEEAKEEVEKAKEEAEQTKAAIKTAEERLEAALKEAEAAKA  428 (522)
T ss_pred             chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                223344445555555555555555555566666666666666666666666666665555544

Several sequences in this family are described as being myosin heavy chain-like.

>KOG0804|consensus

Probab=97.55  E-value=2.7e-05  Score=69.93  Aligned_cols=45  Identities=29%  Similarity=0.694  Sum_probs=36.9

Q ss_pred             ccCcccccccccccc----eeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        204 ETLTCPSCKVKRKDA----VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~----v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      ..-+||||.+++.+.    +.+.|.|+|-..|+..|+..   .||+||-...
T Consensus       174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~---scpvcR~~q~  222 (493)
T KOG0804|consen  174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS---SCPVCRYCQS  222 (493)
T ss_pred             cCCCcchhHhhcCccccceeeeecccccchHHHhhcccC---cChhhhhhcC
Confidence            357899999998654    45699999999999999874   6999987544

>KOG0999|consensus

Probab=97.51  E-value=0.046  Score=50.97  Aligned_cols=75  Identities=12%  Similarity=0.147  Sum_probs=44.1

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          8 GNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKS-NQLHKLAREEKDILHEQVNALKLQID   82 (262)
Q Consensus         8 ~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka-~q~~~~~~~~k~~l~~e~~~l~~~~~   82 (262)
                      .++.+..+.||+.+..||-+.+.+..+--.+=.++++.++.-.+-+.-. .++.+.+..+...++.++...+..++
T Consensus        56 eaeyd~~R~Eldqtkeal~q~~s~hkk~~~~g~e~EesLLqESaakE~~yl~kI~eleneLKq~r~el~~~q~E~e  131 (772)
T KOG0999|consen   56 EAEYDLARTELDQTKEALGQYRSQHKKVARDGEEREESLLQESAAKEEYYLQKILELENELKQLRQELTNVQEENE  131 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4677888999999999999999888776655555555555433332222 34444444443334443333333333

>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=97.50  E-value=0.049  Score=46.33  Aligned_cols=80  Identities=10%  Similarity=0.075  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         12 EALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKL   91 (262)
Q Consensus        12 ~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l   91 (262)
                      ..+..+++......+........+-..+.-+++.+-+...-...+.++...+....+....-.+.|..........|..|
T Consensus        18 ~~~~~~l~~~~~~~~~aE~e~~~l~rri~~lE~~le~~eerL~~~~~kL~~~e~~~de~er~~k~lE~r~~~~eeri~~l   97 (237)
T PF00261_consen   18 EEAEEKLKEAEKRAEKAEAEVASLQRRIQLLEEELERAEERLEEATEKLEEAEKRADESERARKVLENREQSDEERIEEL   97 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHCCCCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            44444555555555555555555555666555555555555555566666666666666555555555555444444433

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>KOG0971|consensus

Probab=97.49  E-value=0.099  Score=51.47  Aligned_cols=171  Identities=22%  Similarity=0.286  Sum_probs=99.9

Q ss_pred             hhHHHHHHHHHHHH--------HHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhH--------------HHHHHHHHHHH
Q psy16189         10 EEEALLNEMEVTGQ--------AFEDMQEQNSRLLQQLREKDDANFKLMTERIKS--------------NQLHKLAREEK   67 (262)
Q Consensus        10 ~~~~l~~Eie~~~~--------a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka--------------~q~~~~~~~~k   67 (262)
                      +.+.|.+||+.=|-        -|..+..||.+|-.-+..+.|.+..-..+..|+              ......+.++.
T Consensus       347 dlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLRDlsA~ek~d~qK~~kelE~k~sE~~eL~r~kE~Lsr~~  426 (1243)
T KOG0971|consen  347 DLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLRDLSASEKQDHQKLQKELEKKNSELEELRRQKERLSREL  426 (1243)
T ss_pred             HHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            44566777765432        378899999999888877776655444444443              23333333344


Q ss_pred             HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHH---
Q psy16189         68 DILHEQVNALKLQIDAM---HTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS-AADLKLHLEKY---  140 (262)
Q Consensus        68 ~~l~~e~~~l~~~~~~~---~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~-~~~l~~~l~~l---  140 (262)
                      +.+++.+..|+.|++..   .+.+.+|.++.-++..++-.||.++..+.. ++.....+.+.+++ ..+|+.+++.+   
T Consensus       427 d~aEs~iadlkEQVDAAlGAE~MV~qLtdknlnlEekVklLeetv~dlEa-lee~~EQL~Esn~ele~DLreEld~~~g~  505 (1243)
T KOG0971|consen  427 DQAESTIADLKEQVDAALGAEEMVEQLTDKNLNLEEKVKLLEETVGDLEA-LEEMNEQLQESNRELELDLREELDMAKGA  505 (1243)
T ss_pred             HHHHHHHHHHHHHHHHhhcHHHHHHHHHhhccCHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence            44444445555555543   245566666666667777777777776632 22233344444443 44566666654   


Q ss_pred             ----HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        141 ----HAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTER  181 (262)
Q Consensus       141 ----~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~  181 (262)
                          ..++...+.-+-+.+..+-+.+.....+++.+..++.+...
T Consensus       506 ~kel~~r~~aaqet~yDrdqTI~KfRelva~Lqdqlqe~~dq~~S  550 (1243)
T KOG0971|consen  506 RKELQKRVEAAQETVYDRDQTIKKFRELVAHLQDQLQELTDQQES  550 (1243)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence                45555555556666666777777777777777766654433

>KOG4674|consensus

Probab=97.48  E-value=0.11  Score=54.98  Aligned_cols=87  Identities=18%  Similarity=0.248  Sum_probs=70.6

Q ss_pred             cccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          4 GQVSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDA   83 (262)
Q Consensus         4 ~~~~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~   83 (262)
                      ..+++.....|...|+....-.+.+..++..+...|...+..+..+..+...++-+...+.-+...|..|...++..-+.
T Consensus       684 ~~fA~ekle~L~~~ie~~K~e~~tL~er~~~l~~~i~~~~q~~~~~s~eL~~a~~k~~~le~ev~~LKqE~~ll~~t~~r  763 (1822)
T KOG4674|consen  684 LNLAKEKLENLEKNLELTKEEVETLEERNKNLQSTISKQEQTVHTLSQELLSANEKLEKLEAELSNLKQEKLLLKETEER  763 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45678889999999999999999999999999999999999999999999988888888777777777777666655444


Q ss_pred             HHHHHHH
Q psy16189         84 MHTAIRK   90 (262)
Q Consensus        84 ~~~~i~~   90 (262)
                      +......
T Consensus       764 L~~e~~~  770 (1822)
T KOG4674|consen  764 LSQELEK  770 (1822)
T ss_pred             HHHHHHH
Confidence            4443333

>PRK09039 hypothetical protein; Validated

Probab=97.48  E-value=0.063  Score=48.23  Aligned_cols=68  Identities=15%  Similarity=0.103  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q psy16189         98 LQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKT  165 (262)
Q Consensus        98 l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~  165 (262)
                      ...++..+..++...+.........+.-+++++..|+.++..++..+...+....+....++.....+
T Consensus       114 ~~~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L  181 (343)
T PRK09039        114 AEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRL  181 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455555555554444444455555555555555555555555555555555544444444333

>PRK09039 hypothetical protein; Validated

Probab=97.45  E-value=0.079  Score=47.60  Aligned_cols=22  Identities=18%  Similarity=0.249  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q psy16189         15 LNEMEVTGQAFEDMQEQNSRLL   36 (262)
Q Consensus        15 ~~Eie~~~~a~e~~q~q~~~~~   36 (262)
                      ..+|....+..++++.+...+.
T Consensus        45 s~~i~~~~~eL~~L~~qIa~L~   66 (343)
T PRK09039         45 SREISGKDSALDRLNSQIAELA   66 (343)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHH
Confidence            3444445555555544444433

>PF10174 Cast: RIM-binding protein of the cytomatrix active zone; InterPro: IPR019323 This entry represents a family of proteins that form part of the CAZ (cytomatrix at the active zone) complex which is involved in determining the site of synaptic vesicle fusion []

Probab=97.45  E-value=0.14  Score=50.55  Aligned_cols=50  Identities=24%  Similarity=0.222  Sum_probs=34.9

Q ss_pred             cccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHH
Q psy16189          4 GQVSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTER   53 (262)
Q Consensus         4 ~~~~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~   53 (262)
                      |+-.++|..++..+++++...+.+++.=...+--++..++.....|.++.
T Consensus       296 L~rk~~E~~~~qt~l~~~~~~~~d~r~hi~~lkesl~~ke~~~~~Lqsdv  345 (775)
T PF10174_consen  296 LSRKKSELEALQTRLETLEEQDSDMRQHIEVLKESLRAKEQEAEMLQSDV  345 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            34456677778888888887777776666666667777777766666665

Located at the C terminus is a PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). These proteins also contain four coiled-coil domains [].

>KOG4367|consensus

Probab=97.43  E-value=9.5e-05  Score=66.26  Aligned_cols=36  Identities=28%  Similarity=0.695  Sum_probs=31.9

Q ss_pred             cccCcccccccccccceeccccccccHHHHHHHhcc
Q psy16189        203 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYET  238 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~  238 (262)
                      +..+.||||...|.+|+++||||..|.-|....+.+
T Consensus         2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             cccccCceehhhccCceEeecccHHHHHHHHhhccc
Confidence            346899999999999999999999999999876654

>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B

Probab=97.42  E-value=0.00012  Score=45.66  Aligned_cols=43  Identities=26%  Similarity=0.702  Sum_probs=22.4

Q ss_pred             ccccccccc--cceec--cccccccHHHHHHHhccCCCCccCCCccc
Q psy16189        208 CPSCKVKRK--DAVLT--KCFHVFCWDCLRTRYETRQRKCPKCNAAF  250 (262)
Q Consensus       208 C~iC~~~~~--~~v~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  250 (262)
                      ||+|...+.  +.-+.  +||+.+|..|...........||.||.++
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            788888762  22344  77999999999998876677899999876

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=97.38  E-value=0.043  Score=42.94  Aligned_cols=117  Identities=22%  Similarity=0.237  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHH
Q psy16189         66 EKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAI----------ESAQSAADLKL  135 (262)
Q Consensus        66 ~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~----------e~~~~~~~l~~  135 (262)
                      +++.....+..+..++........++......|..++..++.++..+...+...+.++.          .+.+.+.-|..
T Consensus         8 E~d~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~~~~~~~~E~l~rriq~LEe   87 (143)
T PF12718_consen    8 EADNAQDRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEESEKRKSNAEQLNRRIQLLEE   87 (143)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHhhHHHHHH
Confidence            33333333333333333333333333333344444444444444443333332222222          23333444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        136 HLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERM  182 (262)
Q Consensus       136 ~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~  182 (262)
                      +++.....+......+...+...+....+.+.++.+......+++.+
T Consensus        88 ele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~eel  134 (143)
T PF12718_consen   88 ELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYEEL  134 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            55555555555555555555555555555555555555555554444

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=97.37  E-value=0.044  Score=42.89  Aligned_cols=129  Identities=16%  Similarity=0.163  Sum_probs=63.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         13 ALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLE   92 (262)
Q Consensus        13 ~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~   92 (262)
                      +|..|.+....-++.+..+..       +.++.+.++-.+..-...+...+..+.+.+...+..++..++.........+
T Consensus         4 ~lk~E~d~a~~r~e~~e~~~K-------~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~~~~~~~~E   76 (143)
T PF12718_consen    4 ALKLEADNAQDRAEELEAKVK-------QLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEESEKRKSNAE   76 (143)
T ss_pred             HHHHhHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHH
Confidence            444454444444444443333       3333333333333333444444555555555555555555554443333332


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         93 EKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVT  152 (262)
Q Consensus        93 e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~  152 (262)
                          .+..+|..||.++......+.....++.+.......+.+.+..+..+.......+.
T Consensus        77 ----~l~rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~e  132 (143)
T PF12718_consen   77 ----QLNRRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYE  132 (143)
T ss_pred             ----HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHH
Confidence                56677777777777666555544445555544444444444444444444333333

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>PHA02562 46 endonuclease subunit; Provisional

Probab=97.36  E-value=0.15  Score=48.77  Aligned_cols=15  Identities=33%  Similarity=0.078  Sum_probs=6.0

Q ss_pred             hhhHHHHHHHHHhhH
Q psy16189         42 KDDANFKLMTERIKS   56 (262)
Q Consensus        42 ~e~~~~kl~~e~~ka   56 (262)
                      .++.+.++..+..++
T Consensus       253 ~~~~L~~l~~~~~~~  267 (562)
T PHA02562        253 PSAALNKLNTAAAKI  267 (562)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333344444444443

>KOG4692|consensus

Probab=97.33  E-value=0.00011  Score=64.31  Aligned_cols=46  Identities=24%  Similarity=0.607  Sum_probs=40.0

Q ss_pred             cCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      ...||||..-..+.++.||||.-|+.||..++-+ ...|.+|++.+.
T Consensus       422 d~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN-~k~CFfCktTv~  467 (489)
T KOG4692|consen  422 DNLCPICYAGPINAVFAPCSHRSCYGCITQHLMN-CKRCFFCKTTVI  467 (489)
T ss_pred             cccCcceecccchhhccCCCCchHHHHHHHHHhc-CCeeeEecceee
Confidence            4679999999999999999999999999998874 455999988664

>KOG3002|consensus

Probab=97.30  E-value=0.00012  Score=64.03  Aligned_cols=43  Identities=30%  Similarity=0.756  Sum_probs=35.7

Q ss_pred             ccCcccccccccccceeccc--cccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        204 ETLTCPSCKVKRKDAVLTKC--FHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~v~l~C--gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      ..+.||||...+..| +..|  ||+.|.+|-..    ....||+|+.+++
T Consensus        47 ~lleCPvC~~~l~~P-i~QC~nGHlaCssC~~~----~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   47 DLLDCPVCFNPLSPP-IFQCDNGHLACSSCRTK----VSNKCPTCRLPIG   91 (299)
T ss_pred             hhccCchhhccCccc-ceecCCCcEehhhhhhh----hcccCCccccccc
Confidence            357899999999888 5556  99999999865    3457999999998

>TIGR00606 rad50 rad50

Probab=97.27  E-value=0.32  Score=51.44  Aligned_cols=76  Identities=12%  Similarity=0.184  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         12 EALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKL   91 (262)
Q Consensus        12 ~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l   91 (262)
                      .++-.+++.+...++.++.....+-.+|..+.+.+..+..++.+...   .+. .+..+..++..+...+..+...|..+
T Consensus       832 ~~~~~el~~l~~~~e~l~~e~e~~~~eI~~Lq~ki~el~~~klkl~~---~l~-~r~~le~~L~el~~el~~l~~~~~~~  907 (1311)
T TIGR00606       832 QEKQHELDTVVSKIELNRKLIQDQQEQIQHLKSKTNELKSEKLQIGT---NLQ-RRQQFEEQLVELSTEVQSLIREIKDA  907 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444555555555555554444444444444433   111 33444444444444444443333333

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

>PRK11637 AmiB activator; Provisional

Probab=97.24  E-value=0.17  Score=46.92  Aligned_cols=82  Identities=11%  Similarity=0.051  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         12 EALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKL   91 (262)
Q Consensus        12 ~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l   91 (262)
                      +.+..+++.+.+..++++.....+-.++.+.+..+..+..+...+...+.....+...++.++..++..+......|...
T Consensus        43 ~~~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~  122 (428)
T PRK11637         43 SDNRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQ  122 (428)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666666666666666666666666666666666666666666666666666666666776766666666666666555


Q ss_pred             HH
Q psy16189         92 EE   93 (262)
Q Consensus        92 ~e   93 (262)
                      .+
T Consensus       123 ~~  124 (428)
T PRK11637        123 ER  124 (428)
T ss_pred             HH
Confidence            44

>PRK01156 chromosome segregation protein; Provisional

Probab=97.22  E-value=0.3  Score=49.49  Aligned_cols=6  Identities=50%  Similarity=1.580  Sum_probs=2.3

Q ss_pred             cccccc
Q psy16189        208 CPSCKV  213 (262)
Q Consensus       208 C~iC~~  213 (262)
                      ||+|..
T Consensus       455 Cp~c~~  460 (895)
T PRK01156        455 CPVCGT  460 (895)
T ss_pred             CCCCCC
Confidence            333333

>KOG3800|consensus

Probab=97.21  E-value=0.00022  Score=60.93  Aligned_cols=35  Identities=23%  Similarity=0.729  Sum_probs=31.6

Q ss_pred             cccccccHHHHHHHhccCCCCccCCCcccCCCCcc
Q psy16189        222 KCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYH  256 (262)
Q Consensus       222 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~  256 (262)
                      +|||..|.+|++..+..+...||.|+.++..+.+.
T Consensus        22 ~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr   56 (300)
T KOG3800|consen   22 ECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFR   56 (300)
T ss_pred             cccchHHHHHHHHHHhcCCCCCCcccchhhhcccc
Confidence            99999999999999999999999999988766553

>KOG0995|consensus

Probab=97.20  E-value=0.2  Score=47.03  Aligned_cols=25  Identities=16%  Similarity=0.308  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhh
Q psy16189         16 NEMEVTGQAFEDMQEQNSRLLQQLR   40 (262)
Q Consensus        16 ~Eie~~~~a~e~~q~q~~~~~~~l~   40 (262)
                      .....+..-+++++.+|.++..+|.
T Consensus       228 ~~~~~i~~~ie~l~~~n~~l~e~i~  252 (581)
T KOG0995|consen  228 KYFTSIANEIEDLKKTNRELEEMIN  252 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344466667777777777777666

>PF10174 Cast: RIM-binding protein of the cytomatrix active zone; InterPro: IPR019323 This entry represents a family of proteins that form part of the CAZ (cytomatrix at the active zone) complex which is involved in determining the site of synaptic vesicle fusion []

Probab=97.20  E-value=0.28  Score=48.58  Aligned_cols=31  Identities=19%  Similarity=0.338  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHH
Q psy16189         21 TGQAFEDMQEQNSRLLQQLREKDDANFKLMT   51 (262)
Q Consensus        21 ~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~   51 (262)
                      +..+++........+-..+.+.++.+..|.+
T Consensus       229 lq~~ie~Kd~ki~~lEr~l~~le~Ei~~L~~  259 (775)
T PF10174_consen  229 LQTVIEEKDTKIASLERMLRDLEDEIYRLRS  259 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3334444444444444444444444444444

Located at the C terminus is a PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). These proteins also contain four coiled-coil domains [].

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=97.16  E-value=0.096  Score=42.54  Aligned_cols=50  Identities=28%  Similarity=0.292  Sum_probs=29.8

Q ss_pred             HHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         33 SRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQID   82 (262)
Q Consensus        33 ~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~   82 (262)
                      +-|+..|.+++.-+.+|.-|..|.......+..-...|..++..|+.++.
T Consensus         4 ~dL~~~v~dL~~~n~~L~~en~kL~~~ve~~ee~na~L~~e~~~L~~q~~   53 (193)
T PF14662_consen    4 SDLLSCVEDLQLNNQKLADENAKLQRSVETAEEGNAQLAEEITDLRKQLK   53 (193)
T ss_pred             hHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566666666666666666666666666655555555555555554444

>KOG1029|consensus

Probab=97.14  E-value=0.17  Score=49.21  Aligned_cols=18  Identities=28%  Similarity=0.315  Sum_probs=9.5

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q psy16189         14 LLNEMEVTGQAFEDMQEQ   31 (262)
Q Consensus        14 l~~Eie~~~~a~e~~q~q   31 (262)
                      =..||+....|-+++..|
T Consensus       391 rkkeie~rEaar~ElEkq  408 (1118)
T KOG1029|consen  391 RKKEIERREAAREELEKQ  408 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            345555555555555544

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

Probab=97.12  E-value=0.0033  Score=47.69  Aligned_cols=50  Identities=20%  Similarity=0.509  Sum_probs=42.3

Q ss_pred             ccCcccccccccccceec----cccccccHHHHHHHhccC--CCCccCCCcccCCC
Q psy16189        204 ETLTCPSCKVKRKDAVLT----KCFHVFCWDCLRTRYETR--QRKCPKCNAAFGAN  253 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~v~l----~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~~~  253 (262)
                      ....|.||.+...+..++    -||-..|.-|--..|..-  ++.||+|.++|..+
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            347899999998888777    699999999999988743  57899999999654

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=97.08  E-value=0.12  Score=42.46  Aligned_cols=92  Identities=17%  Similarity=0.197  Sum_probs=67.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         60 HKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEK  139 (262)
Q Consensus        60 ~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~  139 (262)
                      ...+....+.+..|++.|+...-.+...|.++++.+..+...+.....++..++..+...+.+.....+.+.+...++..
T Consensus        21 l~elq~~l~~l~~ENk~Lk~lq~Rq~kAL~k~e~~e~~Lpqll~~h~eEvr~Lr~~LR~~q~~~r~~~~klk~~~~el~k  100 (194)
T PF15619_consen   21 LAELQRKLQELRKENKTLKQLQKRQEKALQKYEDTEAELPQLLQRHNEEVRVLRERLRKSQEQERELERKLKDKDEELLK  100 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445566777788888888888888888888888888888888888888888877776666666666666666666666


Q ss_pred             HHHHHHHHHHHH
Q psy16189        140 YHAQLKEAQQVV  151 (262)
Q Consensus       140 l~~~~~~~~~~~  151 (262)
                      +.+.+..+...+
T Consensus       101 ~~~~l~~L~~L~  112 (194)
T PF15619_consen  101 TKDELKHLKKLS  112 (194)
T ss_pred             HHHHHHHHHHHH
Confidence            666666555543

>KOG4674|consensus

Probab=97.08  E-value=0.51  Score=50.36  Aligned_cols=176  Identities=19%  Similarity=0.284  Sum_probs=94.5

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHH--H--HHHHH-hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          8 GNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANF--K--LMTER-IKSNQLHKLAREEKDILHEQVNALKLQID   82 (262)
Q Consensus         8 ~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~--k--l~~e~-~ka~q~~~~~~~~k~~l~~e~~~l~~~~~   82 (262)
                      ....++|..|+......+.++..||+.+-.+|.++-+...  .  .+.+. ......+..++.+++.++.++..++..+.
T Consensus      1098 ~E~~~~Leqe~~~~~~~~~~L~~qNslLh~qie~~s~~~~~~n~S~~~~g~sdL~~iv~~LR~Ekei~~tk~~~lk~e~~ 1177 (1822)
T KOG4674|consen 1098 SEKEDALEQEVNELKKRIESLEKQNSLLHDQFEELSQQSAVSNLSAMLLGLSDLQNIVSFLRKEKEIAETKLDTLKRENA 1177 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccccccccchHHHHHHHHHHHhHHHHHhhhHHHHHHHHH
Confidence            4567899999999999999999999999999887666533  1  11111 11234444555555555555554444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHH-----------------HHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         83 AMHTAIRKLEEKERYLQTVL-----------------TNVEKE---LHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHA  142 (262)
Q Consensus        83 ~~~~~i~~l~e~e~~l~~~i-----------------~~leke---l~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~  142 (262)
                      .....+.-+......++..+                 ..+-+.   +..+...+-.+.....-....+.+++..+++++.
T Consensus      1178 ~L~qq~~~~~k~i~dL~~sL~~~r~~~q~~a~s~~e~~~i~~~v~~vNll~EsN~~LRee~~~~~~k~qEl~~~i~kl~~ 1257 (1822)
T KOG4674|consen 1178 RLKQQVASLNRTIDDLQRSLTAERASSQKSAVSDDEHKEILEKVEEVNLLRESNKVLREENEANLEKIQELRDKIEKLNF 1257 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33333322221111111111                 111111   1111122222222222222335556666666666


Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        143 QLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMK  183 (262)
Q Consensus       143 ~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~  183 (262)
                      .+..++..+.++..++......+..++.+...-+.+...+.
T Consensus      1258 el~plq~~l~el~~e~~~~~ael~~l~~e~~~wK~R~q~L~ 1298 (1822)
T KOG4674|consen 1258 ELAPLQNELKELKAELQEKVAELKKLEEENDRWKQRNQDLL 1298 (1822)
T ss_pred             hHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666666666666677777666666555553

>TIGR00606 rad50 rad50

Probab=97.06  E-value=0.56  Score=49.65  Aligned_cols=81  Identities=19%  Similarity=0.203  Sum_probs=46.3

Q ss_pred             ccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHH---HHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          5 QVSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMT---ERIKSNQLHKLAREEKDILHEQVNALKLQI   81 (262)
Q Consensus         5 ~~~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~---e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~   81 (262)
                      .....+.+++..+++.+...++.++.+...+-..+.+..+...++..   .+....-....+..+...+..++..+...+
T Consensus       832 ~~~~~el~~l~~~~e~l~~e~e~~~~eI~~Lq~ki~el~~~klkl~~~l~~r~~le~~L~el~~el~~l~~~~~~~~~~~  911 (1311)
T TIGR00606       832 QEKQHELDTVVSKIELNRKLIQDQQEQIQHLKSKTNELKSEKLQIGTNLQRRQQFEEQLVELSTEVQSLIREIKDAKEQD  911 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34567788888999999999999998888884444443333333332   333333333444444444444444444444


Q ss_pred             HHHH
Q psy16189         82 DAMH   85 (262)
Q Consensus        82 ~~~~   85 (262)
                      ....
T Consensus       912 ~~~~  915 (1311)
T TIGR00606       912 SPLE  915 (1311)
T ss_pred             hhhh
Confidence            4333

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

>KOG0996|consensus

Probab=97.06  E-value=0.34  Score=49.17  Aligned_cols=96  Identities=20%  Similarity=0.283  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         18 MEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKS-NQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKER   96 (262)
Q Consensus        18 ie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka-~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~   96 (262)
                      |+.+.+-++++++.... -+++.+..+.+-.+..++.+. +-+...+....+.+.+.+..+...+......|.++.....
T Consensus       867 ie~l~kE~e~~qe~~~K-k~~i~~lq~~i~~i~~e~~q~qk~kv~~~~~~~~~l~~~i~k~~~~i~~s~~~i~k~q~~l~  945 (1293)
T KOG0996|consen  867 IEELKKEVEELQEKAAK-KARIKELQNKIDEIGGEKVQAQKDKVEKINEQLDKLEADIAKLTVAIKTSDRNIAKAQKKLS  945 (1293)
T ss_pred             HHHHHHHHHHHHHhhhH-HHHHHHHHHHHHHhhchhhHHhHHHHHHHHHHHHHHHHHHHHhHHHHhcCcccHHHHHHHHH
Confidence            44444444444433333 344445555555544444444 2333344444444444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q psy16189         97 YLQTVLTNVEKELHLRNQ  114 (262)
Q Consensus        97 ~l~~~i~~lekel~~~~~  114 (262)
                      .+...+..+++++..+.+
T Consensus       946 ~le~~~~~~e~e~~~L~e  963 (1293)
T KOG0996|consen  946 ELEREIEDTEKELDDLTE  963 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            444444444444444333

>KOG0996|consensus

Probab=97.04  E-value=0.46  Score=48.30  Aligned_cols=53  Identities=23%  Similarity=0.342  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        133 LKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKI  185 (262)
Q Consensus       133 l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~~~  185 (262)
                      .+..+..+...+..++.++.+....+...+...+.+...+..++.+++.++..
T Consensus       540 ~~~~l~~~k~~l~~~k~e~~~~~k~l~~~~~e~~~~~~~~~~~rqrveE~ks~  592 (1293)
T KOG0996|consen  540 KKTELDDLKEELPSLKQELKEKEKELPKLRKEERNLKSQLNKLRQRVEEAKSS  592 (1293)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444555555555555555555555555666666665554

>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]

Probab=97.03  E-value=0.19  Score=43.68  Aligned_cols=106  Identities=23%  Similarity=0.266  Sum_probs=46.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
Q psy16189         11 EEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVN---ALKLQIDAMHTA   87 (262)
Q Consensus        11 ~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~---~l~~~~~~~~~~   87 (262)
                      ..+|.++.+.+.+-..+|..+...+..+..+.-+.+..+...+...+.....++..-..+.....   .....+......
T Consensus        36 ~~~~~ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~eL~~~~~~l~e~~~~~~~~~~~~~~ler~  115 (294)
T COG1340          36 ASELAEKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQELRKEYRELKEKRNEFNLGGRSIKSLERE  115 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCHHHHHHH
Confidence            34445555555555555555555555444444444444444444444333333333222222222   111112222333


Q ss_pred             HHHHH----------HHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         88 IRKLE----------EKERYLQTVLTNVEKELHLRNQAM  116 (262)
Q Consensus        88 i~~l~----------e~e~~l~~~i~~lekel~~~~~~~  116 (262)
                      |.+|.          +.+..+-..|..|++++...+..+
T Consensus       116 i~~Le~~~~T~~L~~e~E~~lvq~I~~L~k~le~~~k~~  154 (294)
T COG1340         116 IERLEKKQQTSVLTPEEERELVQKIKELRKELEDAKKAL  154 (294)
T ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33332          234555556666666666554433

>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes

Probab=97.00  E-value=0.24  Score=48.66  Aligned_cols=95  Identities=14%  Similarity=0.184  Sum_probs=61.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         12 EALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKL   91 (262)
Q Consensus        12 ~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l   91 (262)
                      .-|-.||..+..-...++....-|-.+|.-++.--..+       ..-...++.+.+.|+..+..|......-+..+..|
T Consensus       421 ~rLE~dvkkLraeLq~~Rq~E~ELRsqis~l~~~Er~l-------k~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~L  493 (697)
T PF09726_consen  421 SRLEADVKKLRAELQSSRQSEQELRSQISSLTNNERSL-------KSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQL  493 (697)
T ss_pred             HHHHHHHHHHHHHHHhhhhhHHHHHHHHhhccccchHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34666666666666666666666666655444332333       33344456667777777777777777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q psy16189         92 EEKERYLQTVLTNVEKELHLRN  113 (262)
Q Consensus        92 ~e~e~~l~~~i~~lekel~~~~  113 (262)
                      +.+-+..+..-..+|+||..-+
T Consensus       494 EkrL~eE~~~R~~lEkQL~eEr  515 (697)
T PF09726_consen  494 EKRLAEERRQRASLEKQLQEER  515 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777888877543

; GO: 0016021 integral to membrane

>KOG2114|consensus

Probab=97.00  E-value=0.001  Score=64.39  Aligned_cols=41  Identities=29%  Similarity=0.662  Sum_probs=34.5

Q ss_pred             Ccccccccccccc-eeccccccccHHHHHHHhccCCCCccCCCccc
Q psy16189        206 LTCPSCKVKRKDA-VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF  250 (262)
Q Consensus       206 ~~C~iC~~~~~~~-v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  250 (262)
                      ..|+.|.....-| |...|||.|-..|+..    +...||.|....
T Consensus       841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e~----~~~~CP~C~~e~  882 (933)
T KOG2114|consen  841 SKCSACEGTLDLPFVHFLCGHSYHQHCLED----KEDKCPKCLPEL  882 (933)
T ss_pred             eeecccCCccccceeeeecccHHHHHhhcc----CcccCCccchhh
Confidence            6799999998777 6789999999999883    456899998744

>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

Probab=97.00  E-value=0.00064  Score=46.63  Aligned_cols=32  Identities=25%  Similarity=0.497  Sum_probs=27.8

Q ss_pred             cccccccHHHHHHHhccCCCCccCCCcccCCCC
Q psy16189        222 KCFHVFCWDCLRTRYETRQRKCPKCNAAFGAND  254 (262)
Q Consensus       222 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d  254 (262)
                      .|.|.|-..||.+|+.++ ..||.||.+|...|
T Consensus        53 ~CnHaFH~HCI~rWL~Tk-~~CPld~q~w~~~~   84 (88)
T COG5194          53 VCNHAFHDHCIYRWLDTK-GVCPLDRQTWVLAD   84 (88)
T ss_pred             ecchHHHHHHHHHHHhhC-CCCCCCCceeEEec
Confidence            899999999999999974 56999999986544

>KOG0933|consensus

Probab=96.99  E-value=0.46  Score=47.54  Aligned_cols=102  Identities=18%  Similarity=0.182  Sum_probs=60.1

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          9 NEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAI   88 (262)
Q Consensus         9 ~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i   88 (262)
                      .+..-+.++++.+..-+++++.+......-+..-++.+..+......++...   .+....+..+++.++..++.+....
T Consensus       734 ~e~~~~~~~~~~~~e~v~e~~~~Ike~~~~~k~~~~~i~~lE~~~~d~~~~r---e~rlkdl~keik~~k~~~e~~~~~~  810 (1174)
T KOG0933|consen  734 NEFHKLLDDLKELLEEVEESEQQIKEKERALKKCEDKISTLEKKMKDAKANR---ERRLKDLEKEIKTAKQRAEESSKEL  810 (1174)
T ss_pred             ChHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhh---HhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455667777777778888887777777777777777766655555543332   2234566777777777776665554


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         89 RKLEEKERYLQTVLTNVEKELHLRN  113 (262)
Q Consensus        89 ~~l~e~e~~l~~~i~~lekel~~~~  113 (262)
                      .+-...-..+.-.++.+++++...+
T Consensus       811 ek~~~e~e~l~lE~e~l~~e~~~~k  835 (1174)
T KOG0933|consen  811 EKRENEYERLQLEHEELEKEISSLK  835 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4433333333333444444444333

>KOG1001|consensus

Probab=96.99  E-value=0.00025  Score=68.66  Aligned_cols=48  Identities=25%  Similarity=0.644  Sum_probs=40.6

Q ss_pred             CcccccccccccceeccccccccHHHHHHHhccCCC-CccCCCcccCCCC
Q psy16189        206 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQR-KCPKCNAAFGAND  254 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~-~CP~Cr~~~~~~d  254 (262)
                      ..|++|.+ ...+++++|||.||..|+...+..... .||.|+..+...+
T Consensus       455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~  503 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK  503 (674)
T ss_pred             cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence            89999999 888899999999999999998875543 5999998775433

>KOG0933|consensus

Probab=96.95  E-value=0.51  Score=47.29  Aligned_cols=34  Identities=26%  Similarity=0.318  Sum_probs=28.3

Q ss_pred             chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy16189          7 SGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLR   40 (262)
Q Consensus         7 ~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~   40 (262)
                      .-+..+..+..++..++.|.+|..|...++-.++
T Consensus       692 el~~le~eL~~le~~~~kf~~l~~ql~l~~~~l~  725 (1174)
T KOG0933|consen  692 ELEALERELKSLEAQSQKFRDLKQQLELKLHELA  725 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3466778899999999999999999988876665

>KOG0971|consensus

Probab=96.94  E-value=0.49  Score=46.89  Aligned_cols=50  Identities=22%  Similarity=0.271  Sum_probs=39.4

Q ss_pred             chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhH
Q psy16189          7 SGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKS   56 (262)
Q Consensus         7 ~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka   56 (262)
                      .+.|-.+=+.|+|.+.=-++++++=-++++.+..+++-.+.+...+.-.|
T Consensus       246 kR~EDk~Kl~ElekmkiqleqlqEfkSkim~qqa~Lqrel~raR~e~kea  295 (1243)
T KOG0971|consen  246 KRAEDKAKLKELEKMKIQLEQLQEFKSKIMEQQADLQRELKRARKEAKEA  295 (1243)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35566677889999999999999999999999888887777766555444

>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5

Probab=96.92  E-value=0.44  Score=46.13  Aligned_cols=175  Identities=18%  Similarity=0.253  Sum_probs=86.5

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHH---------HHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSN---------QLHKLAREEKDILHEQVNALKLQ   80 (262)
Q Consensus        10 ~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~---------q~~~~~~~~k~~l~~e~~~l~~~   80 (262)
                      +.-.+-..|..|+.-...+.+.-...+..+.+++..+.+|..+.....         ..--.+..+...|..++..|..+
T Consensus        23 e~a~~qqr~~qmseev~~L~eEk~~~~~~V~eLE~sL~eLk~q~~~~~~~~~pa~pse~E~~Lq~E~~~L~kElE~L~~q  102 (617)
T PF15070_consen   23 ESAQWQQRMQQMSEEVRTLKEEKEHDISRVQELERSLSELKNQMAEPPPPEPPAGPSEVEQQLQAEAEHLRKELESLEEQ  102 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCccccccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444455555555556667777777777765544321         01112222223333333333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         81 IDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAM----------DLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQV  150 (262)
Q Consensus        81 ~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~----------~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~  150 (262)
                      +..+...-..|.........++..++..+..+....          ...+-.+......+.+|+.++..++..+..+...
T Consensus       103 lqaqv~~ne~Ls~L~~EqEerL~ELE~~le~~~e~~~D~~kLLe~lqsdk~t~SRAlsQN~eLK~QL~Elq~~Fv~ltne  182 (617)
T PF15070_consen  103 LQAQVENNEQLSRLNQEQEERLAELEEELERLQEQQEDRQKLLEQLQSDKATASRALSQNRELKEQLAELQDAFVKLTNE  182 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccchHHHHHHHhHHHHHHHHHHHHHHHHHHHHh
Confidence            332221111121111112223333343333332222          1222223333344667888888888877777777


Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        151 VTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKK  184 (262)
Q Consensus       151 ~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~~  184 (262)
                      ..++...+..+....+.+...+..+..++..++.
T Consensus       183 ~~elt~~lq~Eq~~~keL~~kl~~l~~~l~~~~e  216 (617)
T PF15070_consen  183 NMELTSALQSEQHVKKELQKKLGELQEKLHNLKE  216 (617)
T ss_pred             hhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777777777777776666655543

>PRK01156 chromosome segregation protein; Provisional

Probab=96.86  E-value=0.65  Score=47.12  Aligned_cols=10  Identities=40%  Similarity=1.245  Sum_probs=6.8

Q ss_pred             CccCCCcccC
Q psy16189        242 KCPKCNAAFG  251 (262)
Q Consensus       242 ~CP~Cr~~~~  251 (262)
                      .||+|+.+..
T Consensus       454 ~Cp~c~~~~~  463 (895)
T PRK01156        454 VCPVCGTTLG  463 (895)
T ss_pred             CCCCCCCcCC
Confidence            4777777666

>KOG4643|consensus

Probab=96.83  E-value=0.64  Score=46.57  Aligned_cols=44  Identities=30%  Similarity=0.224  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHH
Q psy16189         21 TGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAR   64 (262)
Q Consensus        21 ~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~   64 (262)
                      |+.-.+.|++-...+.+++.+.++.-..|+.|+.++........
T Consensus       413 Ls~k~e~Leeri~ql~qq~~eled~~K~L~~E~ekl~~e~~t~~  456 (1195)
T KOG4643|consen  413 LSKKHEILEERINQLLQQLAELEDLEKKLQFELEKLLEETSTVT  456 (1195)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55556666666666666666666666666666666544444433

>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=96.80  E-value=0.00073  Score=58.30  Aligned_cols=60  Identities=22%  Similarity=0.402  Sum_probs=48.0

Q ss_pred             hccccCccccccccc---ccceeccccccccHHHHHHHhccC--CCCccCCCcccCCCCcccccc
Q psy16189        201 EYKETLTCPSCKVKR---KDAVLTKCFHVFCWDCLRTRYETR--QRKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~---~~~v~l~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      .+...+.||+=.+.-   ..|+.+.|||+.-...+.....+|  .++||+|...-...++.+|||
T Consensus       332 hfHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~~~~~~~rvrf  396 (396)
T COG5109         332 HFHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMSKYENILRVRF  396 (396)
T ss_pred             cccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcchhhhhhhcccC
Confidence            345567899866543   557999999999999998877666  478999998888889999886

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=96.80  E-value=0.53  Score=45.30  Aligned_cols=106  Identities=18%  Similarity=0.182  Sum_probs=63.1

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHH----------HHHHHHHHHHHHHHHHHH
Q psy16189          8 GNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQL----------HKLAREEKDILHEQVNAL   77 (262)
Q Consensus         8 ~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~----------~~~~~~~k~~l~~e~~~l   77 (262)
                      ....+.||.-|+.-..|+........++...+......+..|..|....++.          +..+.++...+......+
T Consensus       288 ~~~Id~Lyd~lekE~~A~~~vek~~~~l~~~l~~~~e~~~~l~~Ei~~l~~sY~l~~~e~~~~~~lekeL~~Le~~~~~~  367 (569)
T PRK04778        288 QERIDQLYDILEREVKARKYVEKNSDTLPDFLEHAKEQNKELKEEIDRVKQSYTLNESELESVRQLEKQLESLEKQYDEI  367 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHccccCchhHHHHHHHHHHHHHHHHHHHHH
Confidence            4556777777777777777777777777778888888888888888777777          344454555555555544


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         78 KLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRN  113 (262)
Q Consensus        78 ~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~  113 (262)
                      ...+.......+.+.+....+...+..++++...+.
T Consensus       368 ~~~i~~~~~~ysel~e~leel~e~leeie~eq~ei~  403 (569)
T PRK04778        368 TERIAEQEIAYSELQEELEEILKQLEEIEKEQEKLS  403 (569)
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444443333333344443444444444444433333

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=96.77  E-value=0.36  Score=43.03  Aligned_cols=54  Identities=24%  Similarity=0.244  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        125 ESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRK  178 (262)
Q Consensus       125 e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~  178 (262)
                      .+..++.++..++...+..+.+++..+..+...++.....+..+..++..+.+.
T Consensus       213 ~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~  266 (325)
T PF08317_consen  213 ALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEKI  266 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444444444444444444444444444444444444444444433

>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues

Probab=96.77  E-value=0.34  Score=42.49  Aligned_cols=123  Identities=17%  Similarity=0.223  Sum_probs=81.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         60 HKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQ----TVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKL  135 (262)
Q Consensus        60 ~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~----~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~  135 (262)
                      ..++.+....|+.|+..|+.....+......+++++..+-    .++...-.++..+...+..-.........++..|..
T Consensus       162 le~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~EekEqqLv~dcv~QL~~An~qia~LseELa~k~Ee~~rQQEEIt~Lls  241 (306)
T PF04849_consen  162 LEALQEKLKSLEEENEQLRSEASQLKTETDTYEEKEQQLVLDCVKQLSEANQQIASLSEELARKTEENRRQQEEITSLLS  241 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3556666677888888888877777776667777776653    233334444444444444333344445556777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        136 HLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERM  182 (262)
Q Consensus       136 ~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~  182 (262)
                      ++-.++.++..+-.+..++...+...+.....+..++..++.++...
T Consensus       242 qivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY~E~  288 (306)
T PF04849_consen  242 QIVDLQQRCKQLAAENEELQQHLQASKESQRQLQAELQELQDKYAEC  288 (306)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888887777777777777777777777777887777776554

HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].

>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=96.76  E-value=0.79  Score=46.68  Aligned_cols=9  Identities=33%  Similarity=0.859  Sum_probs=5.2

Q ss_pred             cCccccccc
Q psy16189        205 TLTCPSCKV  213 (262)
Q Consensus       205 ~~~C~iC~~  213 (262)
                      .-.||+|+.
T Consensus       457 ~~~CPvCg~  465 (908)
T COG0419         457 GEKCPVCGQ  465 (908)
T ss_pred             CCCCCCCCC
Confidence            345666664

>KOG0977|consensus

Probab=96.75  E-value=0.53  Score=44.54  Aligned_cols=34  Identities=12%  Similarity=0.228  Sum_probs=14.6

Q ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         53 RIKSNQLHKLAREEKDILHEQVNALKLQIDAMHT   86 (262)
Q Consensus        53 ~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~   86 (262)
                      +..+........++...++.++..|+.+++....
T Consensus        94 l~~ar~~l~e~~~~ra~~e~ei~kl~~e~~elr~  127 (546)
T KOG0977|consen   94 LATARKLLDETARERAKLEIEITKLREELKELRK  127 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            3333333333333444444444444444444433

>KOG1100|consensus

Probab=96.67  E-value=0.0011  Score=55.07  Aligned_cols=42  Identities=26%  Similarity=0.647  Sum_probs=34.2

Q ss_pred             Ccccccccccccceeccccccc-cHHHHHHHhccCCCCccCCCcccCC
Q psy16189        206 LTCPSCKVKRKDAVLTKCFHVF-CWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~CgH~f-C~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      ..|-.|...-..++++||.|.. |..|-..     -+.||+|+.+...
T Consensus       159 ~~Cr~C~~~~~~VlllPCrHl~lC~~C~~~-----~~~CPiC~~~~~s  201 (207)
T KOG1100|consen  159 RSCRKCGEREATVLLLPCRHLCLCGICDES-----LRICPICRSPKTS  201 (207)
T ss_pred             ccceecCcCCceEEeecccceEeccccccc-----CccCCCCcChhhc
Confidence            3399999999998999999875 9999553     4569999987654

>KOG1493|consensus

Probab=96.63  E-value=0.00089  Score=45.55  Aligned_cols=31  Identities=26%  Similarity=0.686  Sum_probs=26.1

Q ss_pred             cccccccHHHHHHHhccCC--CCccCCCcccCC
Q psy16189        222 KCFHVFCWDCLRTRYETRQ--RKCPKCNAAFGA  252 (262)
Q Consensus       222 ~CgH~fC~~Ci~~~~~~~~--~~CP~Cr~~~~~  252 (262)
                      .|.|.|-..||..|+....  ..||.||..|..
T Consensus        50 ~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~   82 (84)
T KOG1493|consen   50 YCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF   82 (84)
T ss_pred             HHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence            8999999999999998653  459999998753

>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins

Probab=96.63  E-value=0.0019  Score=40.83  Aligned_cols=41  Identities=20%  Similarity=0.586  Sum_probs=32.1

Q ss_pred             ccccccc--ccccceecccc-----ccccHHHHHHHhccC-CCCccCCC
Q psy16189        207 TCPSCKV--KRKDAVLTKCF-----HVFCWDCLRTRYETR-QRKCPKCN  247 (262)
Q Consensus       207 ~C~iC~~--~~~~~v~l~Cg-----H~fC~~Ci~~~~~~~-~~~CP~Cr  247 (262)
                      .|.||..  ...++.+.||.     |.|-..|+..|+... ...||.|+
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            3889987  34566778994     788999999999755 45799995

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

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=96.63  E-value=0.71  Score=44.44  Aligned_cols=20  Identities=15%  Similarity=0.267  Sum_probs=7.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q psy16189         74 VNALKLQIDAMHTAIRKLEE   93 (262)
Q Consensus        74 ~~~l~~~~~~~~~~i~~l~e   93 (262)
                      +..++.++......+..+..
T Consensus       319 l~~~~e~~~~l~~Ei~~l~~  338 (569)
T PRK04778        319 LEHAKEQNKELKEEIDRVKQ  338 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33333333333344444433

>KOG2034|consensus

Probab=96.63  E-value=0.0034  Score=61.26  Aligned_cols=46  Identities=20%  Similarity=0.273  Sum_probs=35.0

Q ss_pred             hHHHHHHHHhccccCccccccccccc-c-eeccccccccHHHHHHHhc
Q psy16189        192 DEVMMEEIREYKETLTCPSCKVKRKD-A-VLTKCFHVFCWDCLRTRYE  237 (262)
Q Consensus       192 ~~~l~~e~~~~~~~~~C~iC~~~~~~-~-v~l~CgH~fC~~Ci~~~~~  237 (262)
                      .+.+......++..-.|.+|..++-. | ++.||||.|-.+|+.....
T Consensus       804 ~~~l~~ry~v~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~  851 (911)
T KOG2034|consen  804 ISKLRQRYRVLEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL  851 (911)
T ss_pred             HHHhhcceEEecCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence            44555556667778889999998632 3 6779999999999987664

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=96.60  E-value=0.29  Score=39.59  Aligned_cols=123  Identities=17%  Similarity=0.198  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHH-HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         16 NEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLM-TERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEK   94 (262)
Q Consensus        16 ~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~-~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~   94 (262)
                      .+|+.+.--+--++.+..++-.++..+++.---|+ .+-....--...+....+....++..|+.........+...+++
T Consensus         6 ~~i~~~Rl~~~~lk~~l~k~~~ql~~ke~lge~L~~iDFeqLkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keK   85 (177)
T PF13870_consen    6 NEISKLRLKNITLKHQLAKLEEQLRQKEELGEGLHLIDFEQLKIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEK   85 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444333331 23333333333334444444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         95 ERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLE  138 (262)
Q Consensus        95 e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~  138 (262)
                      ...+......+..++......+......+.........+...+.
T Consensus        86 l~~~~~~~~~l~~~l~~~~~~~~~~r~~l~~~k~~r~k~~~~~~  129 (177)
T PF13870_consen   86 LHFLSEELERLKQELKDREEELAKLREELYRVKKERDKLRKQNK  129 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444443333333333333333333333

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=96.59  E-value=0.71  Score=43.97  Aligned_cols=117  Identities=19%  Similarity=0.183  Sum_probs=49.2

Q ss_pred             HHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------
Q psy16189         37 QQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVL--------------  102 (262)
Q Consensus        37 ~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i--------------  102 (262)
                      ..|.+....+.+...|..........++.+.+....++..++.........|..|......++..+              
T Consensus       288 ~ELe~ak~~L~~~k~E~~~L~~~vesL~~ELe~~K~el~~lke~e~~a~~~v~~L~~eL~~~r~eLea~~~~e~~~k~~~  367 (522)
T PF05701_consen  288 KELEEAKKELEKAKEEASSLRASVESLRSELEKEKEELERLKEREKEASSEVSSLEAELNKTRSELEAAKAEEEKAKEAM  367 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHHHHHHHhhhcchhhhH
Confidence            333344444444444444444444444444444444444444444444444444444433333333              


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        103 TNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTE  153 (262)
Q Consensus       103 ~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~  153 (262)
                      ..+...+..+....+..+........++..++.+++..+..+......+..
T Consensus       368 ~~l~~~Lqql~~Eae~Ak~ea~~~~~E~~~~k~E~e~~ka~i~t~E~rL~a  418 (522)
T PF05701_consen  368 SELPKALQQLSSEAEEAKKEAEEAKEEVEKAKEEAEQTKAAIKTAEERLEA  418 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333334444444444444444443333333

Several sequences in this family are described as being myosin heavy chain-like.

>KOG1814|consensus

Probab=96.52  E-value=0.0012  Score=58.98  Aligned_cols=45  Identities=29%  Similarity=0.654  Sum_probs=34.1

Q ss_pred             ccCcccccccccccc---eeccccccccHHHHHHHhcc----CC---CCccCCCc
Q psy16189        204 ETLTCPSCKVKRKDA---VLTKCFHVFCWDCLRTRYET----RQ---RKCPKCNA  248 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~---v~l~CgH~fC~~Ci~~~~~~----~~---~~CP~Cr~  248 (262)
                      ..+.|.||.......   +.+||+|.||..|+..++..    +.   -+||-|+-
T Consensus       183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            347899999988764   56799999999999998863    22   34766544

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=96.49  E-value=0.54  Score=41.44  Aligned_cols=26  Identities=19%  Similarity=0.220  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        129 SAADLKLHLEKYHAQLKEAQQVVTEK  154 (262)
Q Consensus       129 ~~~~l~~~l~~l~~~~~~~~~~~~~~  154 (262)
                      .+..+..++..+......+...+.++
T Consensus       224 ~~~~l~~el~~l~~~~~~Le~~l~~l  249 (312)
T PF00038_consen  224 QIQSLQAELESLRAKNASLERQLREL  249 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHhhhhhhccccchhhhhhhHHHH
Confidence            33344444444444444444444333

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.46  E-value=1.6  Score=46.56  Aligned_cols=98  Identities=12%  Similarity=0.180  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         15 LNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAR------EEKDILHEQVNALKLQIDAMHTAI   88 (262)
Q Consensus        15 ~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~------~~k~~l~~e~~~l~~~~~~~~~~i   88 (262)
                      ..........++..+....++-..+.+.+..+.+|..+..++........      .+...+...+..+...++.....+
T Consensus       292 r~rk~eA~kkLe~tE~nL~rI~diL~ELe~rL~kLEkQaEkA~kyleL~ee~lr~q~ei~~l~~~LeELee~Lee~eeeL  371 (1486)
T PRK04863        292 RRELYTSRRQLAAEQYRLVEMARELAELNEAESDLEQDYQAASDHLNLVQTALRQQEKIERYQADLEELEERLEEQNEVV  371 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444555555555555666777777777777777755444332      122333333444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         89 RKLEEKERYLQTVLTNVEKELHLR  112 (262)
Q Consensus        89 ~~l~e~e~~l~~~i~~lekel~~~  112 (262)
                      ..+.+....+...+..++.++..+
T Consensus       372 eeleeeleeleeEleelEeeLeeL  395 (1486)
T PRK04863        372 EEADEQQEENEARAEAAEEEVDEL  395 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444443333444444444444433

>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=96.41  E-value=1.3  Score=45.06  Aligned_cols=14  Identities=29%  Similarity=0.786  Sum_probs=11.0

Q ss_pred             CCCccCCCcccCCC
Q psy16189        240 QRKCPKCNAAFGAN  253 (262)
Q Consensus       240 ~~~CP~Cr~~~~~~  253 (262)
                      ...||+||.+++..
T Consensus       457 ~~~CPvCg~~l~~~  470 (908)
T COG0419         457 GEKCPVCGQELPEE  470 (908)
T ss_pred             CCCCCCCCCCCCcH
Confidence            45799999888654

>KOG4673|consensus

Probab=96.41  E-value=0.98  Score=43.53  Aligned_cols=80  Identities=21%  Similarity=0.226  Sum_probs=41.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHH-HHHHH-HhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         13 ALLNEMEVTGQAFEDMQEQN-SRLLQ-QLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRK   90 (262)
Q Consensus        13 ~l~~Eie~~~~a~e~~q~q~-~~~~~-~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~   90 (262)
                      ++..|-+.+..-...+.... .+++. .|.|+++.+..||+|..|....+-+--.-...|.+..+.....+.+..+.|..
T Consensus       420 a~~kERDalr~e~kslk~ela~~l~~DeLaEkdE~I~~lm~EGEkLSK~ql~qs~iIkKLRAk~ke~etl~~K~ge~i~~  499 (961)
T KOG4673|consen  420 ALTKERDALRREQKSLKKELAAALLKDELAEKDEIINQLMAEGEKLSKKQLAQSAIIKKLRAKIKEAETLEEKKGELITK  499 (961)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhhhhHHHHHhhhHHHH
Confidence            33344444443333333332 33444 68899999999999998885444333323333444444333334444444444


Q ss_pred             HH
Q psy16189         91 LE   92 (262)
Q Consensus        91 l~   92 (262)
                      |.
T Consensus       500 L~  501 (961)
T KOG4673|consen  500 LQ  501 (961)
T ss_pred             HH
Confidence            43

>KOG1734|consensus

Probab=96.41  E-value=0.001  Score=56.23  Aligned_cols=47  Identities=23%  Similarity=0.494  Sum_probs=37.9

Q ss_pred             cCccccccccccc----------ceeccccccccHHHHHHHhccCC-CCccCCCcccC
Q psy16189        205 TLTCPSCKVKRKD----------AVLTKCFHVFCWDCLRTRYETRQ-RKCPKCNAAFG  251 (262)
Q Consensus       205 ~~~C~iC~~~~~~----------~v~l~CgH~fC~~Ci~~~~~~~~-~~CP~Cr~~~~  251 (262)
                      +..|.||...+..          ...+.|+|+|-..||..|.--+. .+||.|...+.
T Consensus       224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd  281 (328)
T KOG1734|consen  224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD  281 (328)
T ss_pred             cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence            3669999998743          35689999999999999987553 57999988764

>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

Probab=96.39  E-value=0.69  Score=41.55  Aligned_cols=48  Identities=15%  Similarity=0.351  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        137 LEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKK  184 (262)
Q Consensus       137 l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~~  184 (262)
                      +.....++.+....+......+..-..++++++.+...+......+.+
T Consensus       233 i~qrd~~i~q~~q~iaar~e~I~~re~~lq~lEt~q~~leqeva~le~  280 (499)
T COG4372         233 IQQRDAQISQKAQQIAARAEQIRERERQLQRLETAQARLEQEVAQLEA  280 (499)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444445555555544445555566665555555555543

>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=96.34  E-value=0.0023  Score=40.65  Aligned_cols=44  Identities=34%  Similarity=0.691  Sum_probs=23.2

Q ss_pred             Cccccccccccccee-ccccccccHHH---HHHHhccCCCCccCCCcc
Q psy16189        206 LTCPSCKVKRKDAVL-TKCFHVFCWDC---LRTRYETRQRKCPKCNAA  249 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~-l~CgH~fC~~C---i~~~~~~~~~~CP~Cr~~  249 (262)
                      +.||+....+..|+. ..|.|.-|++=   +......+...||.|+++
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            789999999999975 49999988654   333444556789999874

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.

>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A

Probab=96.30  E-value=0.00096  Score=45.58  Aligned_cols=47  Identities=30%  Similarity=0.602  Sum_probs=23.7

Q ss_pred             Ccccccccccc-c---cee--c--cccccccHHHHHHHhcc----CC------CCccCCCcccCC
Q psy16189        206 LTCPSCKVKRK-D---AVL--T--KCFHVFCWDCLRTRYET----RQ------RKCPKCNAAFGA  252 (262)
Q Consensus       206 ~~C~iC~~~~~-~---~v~--l--~CgH~fC~~Ci~~~~~~----~~------~~CP~Cr~~~~~  252 (262)
                      ..|+||...+- .   |+.  .  .|++.|-..|+..|+..    +.      ..||.|+.++..
T Consensus         3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            67999998754 2   222  2  89999999999999863    11      239999998864

>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site

Probab=96.29  E-value=1.1  Score=43.01  Aligned_cols=52  Identities=17%  Similarity=0.150  Sum_probs=26.1

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHH
Q psy16189          9 NEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLH   60 (262)
Q Consensus         9 ~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~   60 (262)
                      ...+.||.-|+.=..|+.........+...+....+.+..|..|....++.|
T Consensus       285 ~~Id~lYd~le~E~~Ak~~V~~~~~~l~~~l~~~~~~~~~l~~e~~~v~~sY  336 (560)
T PF06160_consen  285 ERIDQLYDILEKEVEAKKYVEKNLKELYEYLEHAKEQNKELKEELERVSQSY  336 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3444555555555555555555555555555555555555555544444433

EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane

>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=96.29  E-value=0.0089  Score=44.02  Aligned_cols=31  Identities=26%  Similarity=0.661  Sum_probs=25.1

Q ss_pred             cccCcccccccccccc--eeccccccccHHHHH
Q psy16189        203 KETLTCPSCKVKRKDA--VLTKCFHVFCWDCLR  233 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~--v~l~CgH~fC~~Ci~  233 (262)
                      .....|++|..++.++  ++.||||.|...|+.
T Consensus        76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            3357799999999776  445999999999975

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].

>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=96.28  E-value=0.0018  Score=63.37  Aligned_cols=51  Identities=18%  Similarity=0.472  Sum_probs=39.7

Q ss_pred             hccccCccccccccc-------ccceeccccccccHHHHHHHhccCC-CCccCCCcccC
Q psy16189        201 EYKETLTCPSCKVKR-------KDAVLTKCFHVFCWDCLRTRYETRQ-RKCPKCNAAFG  251 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~-------~~~v~l~CgH~fC~~Ci~~~~~~~~-~~CP~Cr~~~~  251 (262)
                      .+.....|+||-...       .+..+..|.|-|-..|+-.|+.+.. ..||.||..|+
T Consensus      1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            345566799998754       2335668999999999999998754 56999998765

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=96.27  E-value=0.15  Score=42.02  Aligned_cols=37  Identities=22%  Similarity=0.266  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHH
Q psy16189         17 EMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTER   53 (262)
Q Consensus        17 Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~   53 (262)
                      +-+....+|.++=....+|..++.-....+..|..+.
T Consensus        11 ~Rd~~e~~~~~li~ay~~L~d~~~~l~~~~~~l~~~~   47 (194)
T PF08614_consen   11 ERDRREKAFAELIDAYNRLADRTSLLKAENEQLQPEA   47 (194)
T ss_dssp             -------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccc
Confidence            3345557777777777888888877777777776653

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=96.24  E-value=0.0024  Score=55.74  Aligned_cols=55  Identities=18%  Similarity=0.408  Sum_probs=40.1

Q ss_pred             Cccccccccccc--ceec--cccccccHHHHHHHhccCCCCccCCCcccCCCCcccccc
Q psy16189        206 LTCPSCKVKRKD--AVLT--KCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       206 ~~C~iC~~~~~~--~v~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      ..||.|.+.+..  --+.  +||..+|.-|....-..-...||.||..+...+|+-+-+
T Consensus        15 d~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~~~~   73 (480)
T COG5175          15 DYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRYVTL   73 (480)
T ss_pred             ccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccceeEEec
Confidence            349999998743  2333  789888999987654443456999999998888776544

>KOG4809|consensus

Probab=96.24  E-value=1.1  Score=42.15  Aligned_cols=168  Identities=13%  Similarity=0.124  Sum_probs=100.1

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          9 NEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKS---NQLHKLAREEKDILHEQVNALKLQIDAMH   85 (262)
Q Consensus         9 ~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka---~q~~~~~~~~k~~l~~e~~~l~~~~~~~~   85 (262)
                      ++....-.|+--+.....++..-...-.+.|.++|+.+.+|...+..-   .............+..+..+.+...   .
T Consensus       236 ae~~~~~~e~~llr~t~~~~e~riEtqkqtl~ardesIkkLlEmLq~kgmg~~~~~~df~~~~~~a~~~~h~r~~~---e  312 (654)
T KOG4809|consen  236 AELLTTKEEQFLLRSTDPSGEQRIETQKQTLDARDESIKKLLEMLQRKGMGRSNQPRDFTKANLSAHEMAHMRMKV---E  312 (654)
T ss_pred             HHhhhHHHHHHHHHhcCchHHHHHHHHHhhhhhHHHHHHHHHHHHHHhhcccccchhhHHHHHHhHHHHHhhhchH---H
Confidence            344444455555555566666666677788889999999987665432   1111111112222333333333331   3


Q ss_pred             HHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q psy16189         86 TAIRKLEE----KERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAE  161 (262)
Q Consensus        86 ~~i~~l~e----~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~  161 (262)
                      ..|.+|++    .++.....|++.+++...++..+........+......+|+.....+.+.....+..+..++-.++.-
T Consensus       313 r~IerLkeqr~rderE~~EeIe~~~ke~kdLkEkv~~lq~~l~eke~sl~dlkehassLas~glk~ds~Lk~leIalEqk  392 (654)
T KOG4809|consen  313 RIIERLKEQRERDERERLEEIESFRKENKDLKEKVNALQAELTEKESSLIDLKEHASSLASAGLKRDSKLKSLEIALEQK  392 (654)
T ss_pred             HHHHHhcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHH
Confidence            67777765    36777888888888888888777766666655555566666666666666666666666666666655


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q psy16189        162 AYKTKRLQEEIAQLRRKT  179 (262)
Q Consensus       162 ~~~~~~~e~e~~~l~~~~  179 (262)
                      ..++-.++..+.+.....
T Consensus       393 kEec~kme~qLkkAh~~~  410 (654)
T KOG4809|consen  393 KEECSKMEAQLKKAHNIE  410 (654)
T ss_pred             HHHHHHHHHHHHHHHHhh
Confidence            555555555555444433

>KOG0977|consensus

Probab=96.15  E-value=1.2  Score=42.11  Aligned_cols=78  Identities=14%  Similarity=0.091  Sum_probs=49.3

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          8 GNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMH   85 (262)
Q Consensus         8 ~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~   85 (262)
                      ..+...|..|++.+..-|++.+.-...-..++.+....+..+.++..-++-.+..+..++.-|..++..|..++....
T Consensus       112 e~ei~kl~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r  189 (546)
T KOG0977|consen  112 EIEITKLREELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLREELARAR  189 (546)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            344555666666666666666655555555666666677777777766666666666666666666666666555433

>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes

Probab=96.15  E-value=1.5  Score=43.13  Aligned_cols=59  Identities=17%  Similarity=0.183  Sum_probs=32.5

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHhhhhhhHHHHHHHHHhhHHHHHHHHHHH
Q psy16189          8 GNEEEALLNEMEVTGQAFEDMQEQNSRL--------------LQQLREKDDANFKLMTERIKSNQLHKLAREE   66 (262)
Q Consensus         8 ~~~~~~l~~Eie~~~~a~e~~q~q~~~~--------------~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~   66 (262)
                      .++...|.+||....+.=.+++.+...+              -++..+++.++..|+..+-+=.+....+++.
T Consensus       424 E~dvkkLraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkr  496 (697)
T PF09726_consen  424 EADVKKLRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKR  496 (697)
T ss_pred             HHHHHHHHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3566777777777777777777773322              2333344455555544444444444444443

; GO: 0016021 integral to membrane

>KOG1941|consensus

Probab=96.15  E-value=0.0018  Score=57.54  Aligned_cols=44  Identities=32%  Similarity=0.705  Sum_probs=35.7

Q ss_pred             cCccccccccc--ccc--eeccccccccHHHHHHHhcc-CCCCccCCCc
Q psy16189        205 TLTCPSCKVKR--KDA--VLTKCFHVFCWDCLRTRYET-RQRKCPKCNA  248 (262)
Q Consensus       205 ~~~C~iC~~~~--~~~--v~l~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~  248 (262)
                      .+.|..|.+.+  ++.  --+||.|+|-..|+..++.+ +++.||.||.
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            48899999986  332  45799999999999988765 4678999994

>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=96.12  E-value=0.71  Score=39.05  Aligned_cols=28  Identities=21%  Similarity=0.466  Sum_probs=21.3

Q ss_pred             ccHHHHHHHhccCCCCccCCCcccCCCCc
Q psy16189        227 FCWDCLRTRYETRQRKCPKCNAAFGANDY  255 (262)
Q Consensus       227 fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~  255 (262)
                      .|.+|-+.... ..+.||.|.+.-...+.
T Consensus       196 ~C~sC~qqIHR-NAPiCPlCK~KsRSrnp  223 (230)
T PF10146_consen  196 TCQSCHQQIHR-NAPICPLCKAKSRSRNP  223 (230)
T ss_pred             hhHhHHHHHhc-CCCCCcccccccccCCC
Confidence            39999988766 45789999987765544

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 a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins

Probab=96.11  E-value=2.3  Score=44.77  Aligned_cols=73  Identities=23%  Similarity=0.301  Sum_probs=48.2

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQID   82 (262)
Q Consensus        10 ~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~   82 (262)
                      +.+.|..+++.+..+.......-..+-.++......+..+..+...+.+.+.........+..+...++....
T Consensus       601 ~ee~L~~~l~~~~~~l~~~~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  673 (1201)
T PF12128_consen  601 SEEELRERLEQAEDQLQSAEERQEELEKQLKQINKKIEELKREITQAEQELKQAEQDLQRLKNEREQLKQEIE  673 (1201)
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence            4557778888877777777766666666666666666666666666666666666666666665555555544

>KOG3161|consensus

Probab=96.11  E-value=0.0019  Score=60.68  Aligned_cols=38  Identities=29%  Similarity=0.629  Sum_probs=31.2

Q ss_pred             ccCccccccccc----ccceeccccccccHHHHHHHhccCCCCcc
Q psy16189        204 ETLTCPSCKVKR----KDAVLTKCFHVFCWDCLRTRYETRQRKCP  244 (262)
Q Consensus       204 ~~~~C~iC~~~~----~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP  244 (262)
                      ..+.|+||...|    ..||.+.|||+.|..|+...+.   ..||
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn---~scp   51 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN---ASCP   51 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh---ccCC
Confidence            347799997766    4589999999999999998765   4688

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.07  E-value=2.6  Score=45.08  Aligned_cols=50  Identities=18%  Similarity=0.166  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         62 LAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHL  111 (262)
Q Consensus        62 ~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~  111 (262)
                      .+....+.....+..++..+......+..+++....+...+..+..++..
T Consensus       359 ELee~Lee~eeeLeeleeeleeleeEleelEeeLeeLqeqLaelqqel~e  408 (1486)
T PRK04863        359 ELEERLEEQNEVVEEADEQQEENEARAEAAEEEVDELKSQLADYQQALDV  408 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333344444444444444444444433333333333333333333333

>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues

Probab=96.04  E-value=0.94  Score=39.75  Aligned_cols=26  Identities=23%  Similarity=0.208  Sum_probs=10.1

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHH
Q psy16189        151 VTEKTSSLEAEAYKTKRLQEEIAQLR  176 (262)
Q Consensus       151 ~~~~~~~le~~~~~~~~~e~e~~~l~  176 (262)
                      +.++.........-+..+++++..++
T Consensus       278 L~elqdkY~E~~~mL~EaQEElk~lR  303 (306)
T PF04849_consen  278 LQELQDKYAECMAMLHEAQEELKTLR  303 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            33333333333333344444444433

HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].

>KOG0980|consensus

Probab=96.01  E-value=1.8  Score=42.86  Aligned_cols=30  Identities=23%  Similarity=0.344  Sum_probs=16.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy16189         11 EEALLNEMEVTGQAFEDMQEQNSRLLQQLR   40 (262)
Q Consensus        11 ~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~   40 (262)
                      ...++.|++.++...+-+-....+...++.
T Consensus       335 ~~~~~~e~~~~~~~l~~~~~ear~~~~q~~  364 (980)
T KOG0980|consen  335 IEQLSREVAQLKAQLENLKEEARRRIEQYE  364 (980)
T ss_pred             HHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence            455666666666666655554444444443

>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs

Probab=95.98  E-value=1.9  Score=42.70  Aligned_cols=43  Identities=16%  Similarity=0.206  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         66 EKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKE  108 (262)
Q Consensus        66 ~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~leke  108 (262)
                      +...+..++..++...+++.+.++...+....+..++..+-..
T Consensus       580 ~L~~l~e~~~~l~~~ae~LaeR~e~a~d~Qe~L~~R~~~vl~~  622 (717)
T PF10168_consen  580 ELQELQEERKSLRESAEKLAERYEEAKDKQEKLMKRVDRVLQL  622 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555566666666666666555555555544333

It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=95.90  E-value=1.1  Score=39.43  Aligned_cols=85  Identities=20%  Similarity=0.255  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhCCchHHH
Q psy16189        117 DLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKI-EQAGTLDEVM  195 (262)
Q Consensus       117 ~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~~~-~~~~~~~~~l  195 (262)
                      ...+..+..+...+..++.....+..++.++...+......   ....+..++.++..++..+...... ..+-+.--.|
T Consensus       219 ~~~r~~~~~l~~el~~l~~~~~~Le~~l~~le~~~~~~~~~---~~~~i~~le~el~~l~~~~~~~~~ey~~Ll~~K~~L  295 (312)
T PF00038_consen  219 KELRRQIQSLQAELESLRAKNASLERQLRELEQRLDEEREE---YQAEIAELEEELAELREEMARQLREYQELLDVKLAL  295 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhHhhhhhhccccchhhhhhhHHHHHHHHHHHHHH---HHHhhhccchhHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            34445555566566666666666666666555443332222   2334555566666666555544333 2222222334


Q ss_pred             HHHHHhccc
Q psy16189        196 MEEIREYKE  204 (262)
Q Consensus       196 ~~e~~~~~~  204 (262)
                      ..++..|+.
T Consensus       296 d~EIatYR~  304 (312)
T PF00038_consen  296 DAEIATYRK  304 (312)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            455555443

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []

Probab=95.89  E-value=2  Score=42.26  Aligned_cols=134  Identities=19%  Similarity=0.205  Sum_probs=64.8

Q ss_pred             hhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         42 KDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKR  121 (262)
Q Consensus        42 ~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~  121 (262)
                      ....+...++|..+..+....++.+.+.++.+...|+..+       ..++.+|.-+..-.+.||.|.-.++..+..++.
T Consensus        46 ~~~~~~~~~~e~~rl~~~~~~~~~~~~~~e~~~~~lr~e~-------ke~K~rE~rll~dyselEeENislQKqvs~Lk~  118 (717)
T PF09730_consen   46 LRQELSNVQAENERLSQLNQELRKECEDLELERKRLREEI-------KEYKFREARLLQDYSELEEENISLQKQVSVLKQ  118 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444445555555555555555555555443       334444444444444454444444333333332


Q ss_pred             HHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        122 KAIE---SAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERM  182 (262)
Q Consensus       122 k~~e---~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~  182 (262)
                      --++   +..++..+..+++-+..+++++-....-...+++..-..++.-.+.-..|++++...
T Consensus       119 sQvefE~~Khei~rl~Ee~~~l~~qlee~~rLk~iae~qleEALesl~~EReqk~~LrkEL~~~  182 (717)
T PF09730_consen  119 SQVEFEGLKHEIKRLEEEIELLNSQLEEAARLKEIAEKQLEEALESLKSEREQKNALRKELDQH  182 (717)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            2222   223355555566666666666555444445555544444444444445555555553

Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus

>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT)

Probab=95.88  E-value=0.58  Score=35.99  Aligned_cols=78  Identities=17%  Similarity=0.174  Sum_probs=39.4

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIR   89 (262)
Q Consensus        10 ~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~   89 (262)
                      +...|.+|+..+....++...+...+..++..       ...--..|.+.|..-+..-......+..++.++......|.
T Consensus         4 e~~~l~~e~~~~~~~~~~~~~~~~~~~~dl~~-------q~~~a~~Aq~~YE~El~~Ha~~~~~L~~lr~e~~~~~~~~~   76 (132)
T PF07926_consen    4 ELSSLQSELQRLKEQEEDAEEQLQSLREDLES-------QAKIAQEAQQKYERELVKHAEDIKELQQLREELQELQQEIN   76 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555556665555555555554444444433       33333344555555444444445555555555555555554


Q ss_pred             HHHHH
Q psy16189         90 KLEEK   94 (262)
Q Consensus        90 ~l~e~   94 (262)
                      .++..
T Consensus        77 ~l~~~   81 (132)
T PF07926_consen   77 ELKAE   81 (132)
T ss_pred             HHHHH
Confidence            44443

These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore

>KOG3113|consensus

Probab=95.86  E-value=0.0079  Score=50.53  Aligned_cols=54  Identities=24%  Similarity=0.423  Sum_probs=43.5

Q ss_pred             cccCcccccccccccc----eeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        203 KETLTCPSCKVKRKDA----VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~----v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      ...+.|||-.-.+...    ++.+|||+|-..-+...-   ...||.|++++...|+..|.
T Consensus       109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik---as~C~~C~a~y~~~dvIvlN  166 (293)
T KOG3113|consen  109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK---ASVCHVCGAAYQEDDVIVLN  166 (293)
T ss_pred             cceeecccccceecceEEEEEEeccceeccHHHHHHhh---hccccccCCcccccCeEeeC
Confidence            4468899988877553    556999999999998854   45799999999999988764

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=95.81  E-value=0.9  Score=37.64  Aligned_cols=114  Identities=12%  Similarity=0.153  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhhHHH-HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---
Q psy16189         19 EVTGQAFEDMQEQNSRLLQQLREKDDANF-KLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEK---   94 (262)
Q Consensus        19 e~~~~a~e~~q~q~~~~~~~l~e~e~~~~-kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~---   94 (262)
                      +....||.+|.    ++..+|+...-..+ .|-.+............+....+..+++.|..-+.+....+..|...   
T Consensus         5 ~~He~af~~iK----~YYndIT~~NL~lIksLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~   80 (201)
T PF13851_consen    5 KNHEKAFQEIK----NYYNDITLNNLELIKSLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQLKN   80 (201)
T ss_pred             HHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            34455555553    55555553332222 23333333344444444444555555555554444444333333222   


Q ss_pred             -------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         95 -------ERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLH  136 (262)
Q Consensus        95 -------e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~  136 (262)
                             -..+..++..+++++..++...+.+..+...+.++..+|...
T Consensus        81 y~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~~k  129 (201)
T PF13851_consen   81 YEKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKLEQERDELYRK  129 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                   122344444555555555544444444444444444444433

>KOG4643|consensus

Probab=95.77  E-value=2.5  Score=42.56  Aligned_cols=60  Identities=12%  Similarity=0.161  Sum_probs=50.2

Q ss_pred             HHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         25 FEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAM   84 (262)
Q Consensus        25 ~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~   84 (262)
                      .-.|...++++-..+..+++.+..+...+++..-....++.+++.+..++.+.....+.+
T Consensus       403 ~leleke~KnLs~k~e~Leeri~ql~qq~~eled~~K~L~~E~ekl~~e~~t~~~s~~rq  462 (1195)
T KOG4643|consen  403 HLELEKEHKNLSKKHEILEERINQLLQQLAELEDLEKKLQFELEKLLEETSTVTRSLSRQ  462 (1195)
T ss_pred             HHHHHHHhHhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            345566677888888899999999999999998888999999999999999888766655

>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans

Probab=95.66  E-value=0.006  Score=54.61  Aligned_cols=35  Identities=29%  Similarity=0.704  Sum_probs=28.1

Q ss_pred             cccccHHHHHHHhccCC------------CCccCCCcccCCCCcccc
Q psy16189        224 FHVFCWDCLRTRYETRQ------------RKCPKCNAAFGANDYHRL  258 (262)
Q Consensus       224 gH~fC~~Ci~~~~~~~~------------~~CP~Cr~~~~~~d~~~i  258 (262)
                      ..+.|-+|+-+|+.+|+            -.||+||+.|...||..|
T Consensus       312 RPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV~~v  358 (358)
T PF10272_consen  312 RPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDVCYV  358 (358)
T ss_pred             cchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeeeecC
Confidence            34559999999998764            349999999999998653

They are purported to be transmembrane protein-precursors but their function is unknown.

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=95.65  E-value=0.93  Score=36.64  Aligned_cols=91  Identities=21%  Similarity=0.289  Sum_probs=63.6

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         24 AFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLT  103 (262)
Q Consensus        24 a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~  103 (262)
                      -|++++..|..+...|.|+...+.+|..-..+.-+.....++....+..+...++..+......+..+.+.-........
T Consensus        43 DFeqLkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keKl~~~~~~~~~l~~~l~~~~~~~~~~r~~l~~~k~~r~  122 (177)
T PF13870_consen   43 DFEQLKIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEKLHFLSEELERLKQELKDREEELAKLREELYRVKKERD  122 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            57888888888888888888888888877777777777777777777777777777777666666665555555555555


Q ss_pred             HHHHHHHHHHH
Q psy16189        104 NVEKELHLRNQ  114 (262)
Q Consensus       104 ~lekel~~~~~  114 (262)
                      .+.+.+..++.
T Consensus       123 k~~~~~~~l~~  133 (177)
T PF13870_consen  123 KLRKQNKKLRQ  133 (177)
T ss_pred             HHHHHHHHHHH
Confidence            55555544443

>KOG0980|consensus

Probab=95.62  E-value=2.7  Score=41.77  Aligned_cols=50  Identities=14%  Similarity=0.233  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         68 DILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMD  117 (262)
Q Consensus        68 ~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~  117 (262)
                      +.++......+.+.++.++.++.|...-..+..+.....+++....+.+.
T Consensus       413 ee~e~~~l~~e~ry~klkek~t~l~~~h~~lL~K~~di~kQle~~~~s~~  462 (980)
T KOG0980|consen  413 EEAENKALAAENRYEKLKEKYTELRQEHADLLRKYDDIQKQLESAEQSID  462 (980)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            44445555555555666666666655555555555555555554444443

>KOG2930|consensus

Probab=95.61  E-value=0.0069  Score=43.77  Aligned_cols=29  Identities=31%  Similarity=0.683  Sum_probs=25.4

Q ss_pred             cccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        222 KCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       222 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      .|.|.|-..||.+|+++|.+ ||.|+.+-.
T Consensus        80 ~CNHaFH~hCisrWlktr~v-CPLdn~eW~  108 (114)
T KOG2930|consen   80 VCNHAFHFHCISRWLKTRNV-CPLDNKEWV  108 (114)
T ss_pred             ecchHHHHHHHHHHHhhcCc-CCCcCccee
Confidence            89999999999999997654 999987653

>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []

Probab=95.61  E-value=2.6  Score=41.50  Aligned_cols=113  Identities=17%  Similarity=0.185  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         66 EKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLK  145 (262)
Q Consensus        66 ~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~  145 (262)
                      ....++.+++.++..++.......+|......+....+.++.+...++.++..+|-+-..+.+...+|..+.=.++++|.
T Consensus        35 ~i~~l~~elk~~~~~~~~~~~e~~rl~~~~~~~~~~~~~~e~~~~~lr~e~ke~K~rE~rll~dyselEeENislQKqvs  114 (717)
T PF09730_consen   35 RILELENELKQLRQELSNVQAENERLSQLNQELRKECEDLELERKRLREEIKEYKFREARLLQDYSELEEENISLQKQVS  114 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence            45666667777777777777777777766667777777777777777777777776666666666666666666677766


Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        146 EAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERM  182 (262)
Q Consensus       146 ~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~  182 (262)
                      .++    ....+.+..+..++++++++.-++..++.+
T Consensus       115 ~Lk----~sQvefE~~Khei~rl~Ee~~~l~~qlee~  147 (717)
T PF09730_consen  115 VLK----QSQVEFEGLKHEIKRLEEEIELLNSQLEEA  147 (717)
T ss_pred             HHH----HhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            553    334556667778888888888777777665

Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus

>KOG0999|consensus

Probab=95.58  E-value=2.1  Score=40.34  Aligned_cols=104  Identities=19%  Similarity=0.277  Sum_probs=55.2

Q ss_pred             chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
Q psy16189          7 SGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMH-   85 (262)
Q Consensus         7 ~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~-   85 (262)
                      +.++.+-|..||+.+..-+++.......-       -.+=+.+..|+....|.+..+.-+-|.+..|+..++..+.+.. 
T Consensus         6 aeq~ve~lr~eierLT~el~q~t~e~~qa-------AeyGL~lLeeK~~Lkqq~eEleaeyd~~R~Eldqtkeal~q~~s   78 (772)
T KOG0999|consen    6 AEQEVEKLRQEIERLTEELEQTTEEKIQA-------AEYGLELLEEKEDLKQQLEELEAEYDLARTELDQTKEALGQYRS   78 (772)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45667788888888887777655332211       1122333445555555555555555555555555554433221 


Q ss_pred             --------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         86 --------------TAIRKLEEKERYLQTVLTNVEKELHLRNQAMD  117 (262)
Q Consensus        86 --------------~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~  117 (262)
                                    ..+.....++..|..+|-.|+.++..+++.++
T Consensus        79 ~hkk~~~~g~e~EesLLqESaakE~~yl~kI~eleneLKq~r~el~  124 (772)
T KOG0999|consen   79 QHKKVARDGEEREESLLQESAAKEEYYLQKILELENELKQLRQELT  124 (772)
T ss_pred             HHHHhhccchhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence                          11222222455566667777777776665554

>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5

Probab=95.55  E-value=2.5  Score=41.02  Aligned_cols=51  Identities=20%  Similarity=0.215  Sum_probs=28.9

Q ss_pred             hhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         41 EKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKL   91 (262)
Q Consensus        41 e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l   91 (262)
                      |+|.+...+..+.....+++..+-.+...+..+.......+..+...|..|
T Consensus        12 Erd~ya~~lk~e~a~~qqr~~qmseev~~L~eEk~~~~~~V~eLE~sL~eL   62 (617)
T PF15070_consen   12 ERDQYAQQLKEESAQWQQRMQQMSEEVRTLKEEKEHDISRVQELERSLSEL   62 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566666666666666666666555555555555555555444444444444

>KOG3970|consensus

Probab=95.55  E-value=0.014  Score=48.22  Aligned_cols=54  Identities=24%  Similarity=0.661  Sum_probs=41.1

Q ss_pred             HHHHhccccCccccccccc--ccceeccccccccHHHHHHHhcc-------CCCCccCCCccc
Q psy16189        197 EEIREYKETLTCPSCKVKR--KDAVLTKCFHVFCWDCLRTRYET-------RQRKCPKCNAAF  250 (262)
Q Consensus       197 ~e~~~~~~~~~C~iC~~~~--~~~v~l~CgH~fC~~Ci~~~~~~-------~~~~CP~Cr~~~  250 (262)
                      +.+..-.-.-.|..|....  .+.+.+.|.|.|-+.|+..|-..       +...||.|..++
T Consensus        42 qWL~DsDY~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei  104 (299)
T KOG3970|consen   42 QWLQDSDYNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI  104 (299)
T ss_pred             HHHhhcCCCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence            3444444457799999987  45688899999999999998753       235699998765

>KOG0964|consensus

Probab=95.52  E-value=3.1  Score=41.86  Aligned_cols=62  Identities=19%  Similarity=0.196  Sum_probs=29.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Q psy16189         11 EEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHE   72 (262)
Q Consensus        11 ~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~   72 (262)
                      ..-..++|+.+...+...-+.+..+...+...++.+-.+-.++-........+..+++.+..
T Consensus       232 l~E~~~~l~~le~~r~~~~e~s~~~~~~~~~~~d~~~~~~~~i~ele~~l~~l~~ekeq~~a  293 (1200)
T KOG0964|consen  232 LNEINGELERLEEDRSSAPEESEQYIDALDKVEDESEDLKCEIKELENKLTNLREEKEQLKA  293 (1200)
T ss_pred             HHHHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            33445556665555555544544555545444444444444444444444444444443333

>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

Probab=95.48  E-value=2  Score=39.40  Aligned_cols=71  Identities=21%  Similarity=0.260  Sum_probs=46.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         11 EEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQI   81 (262)
Q Consensus        11 ~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~   81 (262)
                      .+...+||+...+...+.+.+-..|..+|.+.+..+..+..+++.+......+.+..+.++..+..|..+.
T Consensus        40 l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~  110 (420)
T COG4942          40 LKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQE  110 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHH
Confidence            44566777777777777777777777777777777777776666665555555555555555555555544

>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=95.44  E-value=0.009  Score=52.40  Aligned_cols=46  Identities=22%  Similarity=0.501  Sum_probs=36.1

Q ss_pred             cCcccccccccccceeccccccccHHHHHHHhc-cCCCCccCCCccc
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYE-TRQRKCPKCNAAF  250 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~  250 (262)
                      ...|.||-....-...+||||..|.-|.-+.-. .....||.|++.-
T Consensus        61 n~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          61 NMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             cceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            477999999988889999999999999765211 1245699999853

>KOG4362|consensus

Probab=95.36  E-value=0.0044  Score=59.38  Aligned_cols=51  Identities=29%  Similarity=0.679  Sum_probs=41.1

Q ss_pred             hccccCcccccccccccceeccccccccHHHHHHHhcc--CCCCccCCCcccC
Q psy16189        201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYET--RQRKCPKCNAAFG  251 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~  251 (262)
                      .+...+.|+||...+..|+.++|.|.||..|+...+..  +...||.|+....
T Consensus        17 ~~~k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e   69 (684)
T KOG4362|consen   17 AMQKILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE   69 (684)
T ss_pred             HHhhhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence            34556899999999999999999999999999875542  2456999986553

>KOG4185|consensus

Probab=95.27  E-value=0.1  Score=45.82  Aligned_cols=45  Identities=22%  Similarity=0.455  Sum_probs=35.5

Q ss_pred             cCcccccccccc------cceecc--------ccccccHHHHHHHhccCCCCccCCCcc
Q psy16189        205 TLTCPSCKVKRK------DAVLTK--------CFHVFCWDCLRTRYETRQRKCPKCNAA  249 (262)
Q Consensus       205 ~~~C~iC~~~~~------~~v~l~--------CgH~fC~~Ci~~~~~~~~~~CP~Cr~~  249 (262)
                      +..|.+|...+.      .|.++.        |||+.|..|+...+......||+|+..
T Consensus       207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~  265 (296)
T KOG4185|consen  207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS  265 (296)
T ss_pred             HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence            356888888775      244555        999999999999877666899999874

>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site

Probab=95.25  E-value=2.8  Score=40.29  Aligned_cols=118  Identities=14%  Similarity=0.228  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         64 REEKDILHEQVNALKLQIDAMHTAIRKLEE----------KERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADL  133 (262)
Q Consensus        64 ~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e----------~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l  133 (262)
                      .+....+..-+..++.++......+.++..          .-+.+..++..+++........+.....-...+.....++
T Consensus       305 ~~~~~~l~~~l~~~~~~~~~l~~e~~~v~~sY~L~~~e~~~~~~l~~~l~~l~~~~~~~~~~i~~~~~~yS~i~~~l~~~  384 (560)
T PF06160_consen  305 EKNLKELYEYLEHAKEQNKELKEELERVSQSYTLNHNELEIVRELEKQLKELEKRYEDLEERIEEQQVPYSEIQEELEEI  384 (560)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHH
Confidence            334455555556666666665555555543          2344555666666666555555543333333344444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        134 KLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTER  181 (262)
Q Consensus       134 ~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~  181 (262)
                      ..+++.+..+...+...+..+...-...+..+..+...+...++.+++
T Consensus       385 ~~~l~~ie~~q~~~~~~l~~L~~dE~~Ar~~l~~~~~~l~~ikR~lek  432 (560)
T PF06160_consen  385 EEQLEEIEEEQEEINESLQSLRKDEKEAREKLQKLKQKLREIKRRLEK  432 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555544444444444444444444455455544444444

EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane

>smart00787 Spc7 Spc7 kinetochore protein

Probab=95.23  E-value=2.1  Score=38.02  Aligned_cols=114  Identities=22%  Similarity=0.214  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHH
Q psy16189         67 KDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNK----RKAIESAQSAADLKLHLEKYHA  142 (262)
Q Consensus        67 k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k----~k~~e~~~~~~~l~~~l~~l~~  142 (262)
                      ++.|...+..|+.........+..+.+.--.+......|..++..+++......    .-+..+...+.....++....+
T Consensus       146 k~~L~~~~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~  225 (312)
T smart00787      146 KEGLDENLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVK  225 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555566666555555555555555555555556666666665543333211    1222223334444455555555


Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        143 QLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTE  180 (262)
Q Consensus       143 ~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~  180 (262)
                      .+.+++..+..+...++....+...+..++..+.+.++
T Consensus       226 ~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae~~~~  263 (312)
T smart00787      226 KLEELEEELQELESKIEDLTNKKSELNTEIAEAEKKLE  263 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555566666665555566666666655554433

This domain is found in cell division proteins which are required for kinetochore-spindle association.

>KOG4360|consensus

Probab=95.21  E-value=1.2  Score=41.45  Aligned_cols=110  Identities=21%  Similarity=0.225  Sum_probs=83.7

Q ss_pred             ccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          3 LGQVSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQID   82 (262)
Q Consensus         3 ~~~~~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~   82 (262)
                      |-+...+-...++.|+..+..+.-.+++..+.+..++.-.-+.+.+|+++.+.++.+...+.-+++.+..-+...+..-+
T Consensus       192 ~~~keq~~y~~~~KelrdtN~q~~s~~eel~~kt~el~~q~Ee~skLlsql~d~qkk~k~~~~Ekeel~~~Lq~~~da~~  271 (596)
T KOG4360|consen  192 YEEKEQQLYGDCVKELRDTNTQARSGQEELQSKTKELSRQQEENSKLLSQLVDLQKKIKYLRHEKEELDEHLQAYKDAQR  271 (596)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            44444555667788999999999999999999999999999999999999999999999998888888876666665555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         83 AMHTAIRKLEEKERYLQTVLTNVEKELHLR  112 (262)
Q Consensus        83 ~~~~~i~~l~e~e~~l~~~i~~lekel~~~  112 (262)
                      ........++++...+-.-+...+.+|..+
T Consensus       272 ql~aE~~EleDkyAE~m~~~~EaeeELk~l  301 (596)
T KOG4360|consen  272 QLTAELEELEDKYAECMQMLHEAEEELKCL  301 (596)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            555555566666666555555566665543

>PF10481 CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR018463 Mitosin or centromere-associated protein-F (Cenp-F) is found bound across the centromere as one of the proteins of the outer layer of the kinetochore []

Probab=95.18  E-value=1.8  Score=37.12  Aligned_cols=33  Identities=15%  Similarity=0.251  Sum_probs=21.0

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        153 EKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKI  185 (262)
Q Consensus       153 ~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~~~  185 (262)
                      -+..++......+.+++.++..++..+++.+..
T Consensus        99 ~lEgQl~s~Kkqie~Leqelkr~KsELErsQ~~  131 (307)
T PF10481_consen   99 FLEGQLNSCKKQIEKLEQELKRCKSELERSQQA  131 (307)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            334444455556667777777777777776654

Most of the kinetochore/centromere functions appear to depend upon binding of the C-terminal part of the molecule, whereas the N-terminal part, here, may be a cytoplasmic player in controlling the function of microtubules and dynein [].

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=95.14  E-value=1.2  Score=34.70  Aligned_cols=59  Identities=22%  Similarity=0.235  Sum_probs=30.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         55 KSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRN  113 (262)
Q Consensus        55 ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~  113 (262)
                      -.......+.++.+........+...++.++..|..|++.-..+...+..++-++..+.
T Consensus        21 sle~~v~~LEreLe~~q~~~e~~~~daEn~k~eie~L~~el~~lt~el~~L~~EL~~l~   79 (140)
T PF10473_consen   21 SLEDHVESLERELEMSQENKECLILDAENSKAEIETLEEELEELTSELNQLELELDTLR   79 (140)
T ss_pred             hHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455555555555555555555555555555555544444444444444444443

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=94.95  E-value=2.5  Score=37.64  Aligned_cols=116  Identities=19%  Similarity=0.235  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         67 KDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKE  146 (262)
Q Consensus        67 k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~  146 (262)
                      ++.|......|+.........+..+.+.--.+......|+.++..++.......   .--...+..++.++......++.
T Consensus       151 ~~~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~~~e~~---~~D~~eL~~lr~eL~~~~~~i~~  227 (325)
T PF08317_consen  151 KEGLEENLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENLKQLVEEIE---SCDQEELEALRQELAEQKEEIEA  227 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh---hcCHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555444444444444444445555555555554433222100   00111244555555555555555


Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        147 AQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKI  185 (262)
Q Consensus       147 ~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~~~  185 (262)
                      .+..+.++..++......+..+..+...+...+..+.+.
T Consensus       228 ~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~  266 (325)
T PF08317_consen  228 KKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEKI  266 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555555555555555555555554443

>PHA03096 p28-like protein; Provisional

Probab=94.86  E-value=0.014  Score=50.76  Aligned_cols=43  Identities=19%  Similarity=0.311  Sum_probs=31.3

Q ss_pred             Cccccccccccc--------ceeccccccccHHHHHHHhccCC--CCccCCCc
Q psy16189        206 LTCPSCKVKRKD--------AVLTKCFHVFCWDCLRTRYETRQ--RKCPKCNA  248 (262)
Q Consensus       206 ~~C~iC~~~~~~--------~v~l~CgH~fC~~Ci~~~~~~~~--~~CP~Cr~  248 (262)
                      ..|.||++....        .++..|-|.||..|+..|-..+.  ..||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            669999997532        24559999999999999877553  33555554

>PF15294 Leu_zip: Leucine zipper

Probab=94.82  E-value=2.4  Score=36.73  Aligned_cols=94  Identities=13%  Similarity=0.192  Sum_probs=47.5

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhH-HHHHHHHHhhHHHHHHH----------HHHHHHH-----HHHHHHHHHHHHHHH
Q psy16189         21 TGQAFEDMQEQNSRLLQQLREKDDA-NFKLMTERIKSNQLHKL----------AREEKDI-----LHEQVNALKLQIDAM   84 (262)
Q Consensus        21 ~~~a~e~~q~q~~~~~~~l~e~e~~-~~kl~~e~~ka~q~~~~----------~~~~k~~-----l~~e~~~l~~~~~~~   84 (262)
                      +.+.|.+-+.+.-++-.++++.++. +.+.+++.-++.-.-..          +.-.++.     +..++..|+..+++.
T Consensus        65 lrql~~qAek~~lkl~~diselEn~eLLe~i~~~E~~~~~~~~~~~~~~~~~KL~pl~e~g~~~ll~kEi~rLq~EN~kL  144 (278)
T PF15294_consen   65 LRQLFSQAEKWYLKLQTDISELENRELLEQIAEFEKQEFTSSFKPNQETSKPKLEPLNESGGSELLNKEIDRLQEENEKL  144 (278)
T ss_pred             HHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhhcccCCccccccccccccccccchHHHHHHHHHHHHHHHHHH
Confidence            4455666666655555666666554 33333333222111111          2222233     666666777666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         85 HTAIRKLEEKERYLQTVLTNVEKELHLRNQ  114 (262)
Q Consensus        85 ~~~i~~l~e~e~~l~~~i~~lekel~~~~~  114 (262)
                      +..+..++..-......-..++.+|..++.
T Consensus       145 k~rl~~le~~at~~l~Ek~kl~~~L~~lq~  174 (278)
T PF15294_consen  145 KERLKSLEKQATSALDEKSKLEAQLKELQD  174 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666655544444444555555555544

>KOG1029|consensus

Probab=94.81  E-value=4.5  Score=39.80  Aligned_cols=120  Identities=12%  Similarity=0.170  Sum_probs=68.2

Q ss_pred             hhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHH
Q psy16189         41 EKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTV--------------LTNVE  106 (262)
Q Consensus        41 e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~--------------i~~le  106 (262)
                      .++.++.-....+.++++....+....+...+++..|+..+..++..+.+|--.-..+..+              .+.|+
T Consensus       455 qls~kl~Dvr~~~tt~kt~ie~~~~q~e~~isei~qlqarikE~q~kl~~l~~Ekq~l~~qlkq~q~a~~~~~~~~s~L~  534 (1118)
T KOG1029|consen  455 QLSGKLQDVRVDITTQKTEIEEVTKQRELMISEIDQLQARIKELQEKLQKLAPEKQELNHQLKQKQSAHKETTQRKSELE  534 (1118)
T ss_pred             HHhhhhhhheeccchHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhhccCcchHHHHHH
Confidence            3333333344445555666667777777888888888888877776666553222222111              22222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q psy16189        107 KELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEA  160 (262)
Q Consensus       107 kel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~  160 (262)
                      .-.....-.....+.++.++..+...-..+++.+..++.+++..+....-..+.
T Consensus       535 aa~~~ke~irq~ikdqldelskE~esk~~eidi~n~qlkelk~~~~~q~lake~  588 (1118)
T KOG1029|consen  535 AARRKKELIRQAIKDQLDELSKETESKLNEIDIFNNQLKELKEDVNSQQLAKEE  588 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            222222222234555667777777777777777888888777766655544443

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=94.80  E-value=0.69  Score=38.46  Aligned_cols=77  Identities=17%  Similarity=0.145  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        109 LHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKI  185 (262)
Q Consensus       109 l~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~~~  185 (262)
                      +..++...+..+.|+.+...+..+|..+++.++..+++.+..++.+..+........+.+..++..|+.+|+.+...
T Consensus       130 ~~d~ke~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~~L~~r~~ELe~~  206 (290)
T COG4026         130 YMDLKEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRWDELEPG  206 (290)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHhccc
Confidence            33556666667778888888888888889999999998888888888888777788888888899999999887543

>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=94.74  E-value=0.017  Score=35.69  Aligned_cols=44  Identities=32%  Similarity=0.792  Sum_probs=24.7

Q ss_pred             Ccccccccccccceecccc-ccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        206 LTCPSCKVKRKDAVLTKCF-HVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~Cg-H~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      ..|-.|-.  .+.-.+.|. |-.|-.|+...+. +...||+|+.+++.
T Consensus         3 ~nCKsCWf--~~k~Li~C~dHYLCl~CLt~ml~-~s~~C~iC~~~LPt   47 (50)
T PF03854_consen    3 YNCKSCWF--ANKGLIKCSDHYLCLNCLTLMLS-RSDRCPICGKPLPT   47 (50)
T ss_dssp             ----SS-S----SSEEE-SS-EEEHHHHHHT-S-SSSEETTTTEE---
T ss_pred             ccChhhhh--cCCCeeeecchhHHHHHHHHHhc-cccCCCcccCcCcc
Confidence            34656653  444577896 7779999999777 56679999998864

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 RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.

>KOG2932|consensus

Probab=94.73  E-value=0.015  Score=50.37  Aligned_cols=42  Identities=29%  Similarity=0.735  Sum_probs=31.3

Q ss_pred             Ccccccccccccc-eeccccccccHHHHHHHhccCCCCccCCCccc
Q psy16189        206 LTCPSCKVKRKDA-VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF  250 (262)
Q Consensus       206 ~~C~iC~~~~~~~-v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  250 (262)
                      -.|.-|...+... .+++|-|+||.+|....-   ...||.|--++
T Consensus        91 HfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~~---dK~Cp~C~d~V  133 (389)
T KOG2932|consen   91 HFCDRCDFPIAIYGRMIPCKHVFCLECARSDS---DKICPLCDDRV  133 (389)
T ss_pred             EeecccCCcceeeecccccchhhhhhhhhcCc---cccCcCcccHH
Confidence            4578888877543 678999999999976522   35699996654

>KOG3579|consensus

Probab=94.73  E-value=0.012  Score=50.34  Aligned_cols=34  Identities=29%  Similarity=0.789  Sum_probs=30.4

Q ss_pred             cCcccccccccccceeccc----cccccHHHHHHHhcc
Q psy16189        205 TLTCPSCKVKRKDAVLTKC----FHVFCWDCLRTRYET  238 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~C----gH~fC~~Ci~~~~~~  238 (262)
                      .+.|.+|++++.+..+..|    .|-||+.|....++.
T Consensus       268 pLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~  305 (352)
T KOG3579|consen  268 PLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQ  305 (352)
T ss_pred             ceeehhhhhhhccCceeecCCCcccceecccCHHHHHh
Confidence            4789999999999999988    699999999887764

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=94.61  E-value=2.2  Score=35.18  Aligned_cols=101  Identities=18%  Similarity=0.179  Sum_probs=51.9

Q ss_pred             ccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          5 QVSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAM   84 (262)
Q Consensus         5 ~~~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~   84 (262)
                      |+-.--..-|.+++..+..-++++...|.-|-..-.-.+.++.+..       -....+-.-......+++.|+..+-++
T Consensus         8 Sar~~ki~~L~n~l~elq~~l~~l~~ENk~Lk~lq~Rq~kAL~k~e-------~~e~~Lpqll~~h~eEvr~Lr~~LR~~   80 (194)
T PF15619_consen    8 SARLHKIKELQNELAELQRKLQELRKENKTLKQLQKRQEKALQKYE-------DTEAELPQLLQRHNEEVRVLRERLRKS   80 (194)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------hhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333445556666666666666666666544333333333333332       222333334566666777777666665


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         85 HTAIRKLEEKERYLQTVLTNVEKELHLR  112 (262)
Q Consensus        85 ~~~i~~l~e~e~~l~~~i~~lekel~~~  112 (262)
                      ......++..-+.....+..+..++..+
T Consensus        81 q~~~r~~~~klk~~~~el~k~~~~l~~L  108 (194)
T PF15619_consen   81 QEQERELERKLKDKDEELLKTKDELKHL  108 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555544444444444444444444443

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=94.57  E-value=1.3  Score=36.48  Aligned_cols=27  Identities=22%  Similarity=0.204  Sum_probs=12.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        155 TSSLEAEAYKTKRLQEEIAQLRRKTER  181 (262)
Q Consensus       155 ~~~le~~~~~~~~~e~e~~~l~~~~~~  181 (262)
                      ..++.....+...++.|-..|-.+|-.
T Consensus       157 ~l~~~~~e~k~~~l~~En~~Lv~Rwm~  183 (194)
T PF08614_consen  157 QLQLNMLEEKLRKLEEENRELVERWMQ  183 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333344455555555555444433

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.

>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A

Probab=94.56  E-value=0.053  Score=40.94  Aligned_cols=44  Identities=20%  Similarity=0.395  Sum_probs=29.4

Q ss_pred             cCcccccccccc-----cceeccccccccHHHHHHHhccCCCCccCCCc
Q psy16189        205 TLTCPSCKVKRK-----DAVLTKCFHVFCWDCLRTRYETRQRKCPKCNA  248 (262)
Q Consensus       205 ~~~C~iC~~~~~-----~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~  248 (262)
                      ...|..|..+|.     ..+...|+|.+|..|-..........|.+|..
T Consensus        54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k  102 (118)
T PF02318_consen   54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQK  102 (118)
T ss_dssp             CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEETSSSCCEEEHHHHH
T ss_pred             CcchhhhCCcccccCCCCCcCCcCCccccCccCCcCCCCCCEEChhhHH
Confidence            478999998762     23667999999999976532334456888854

The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=94.53  E-value=1.7  Score=33.74  Aligned_cols=43  Identities=23%  Similarity=0.360  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         66 EKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKE  108 (262)
Q Consensus        66 ~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~leke  108 (262)
                      +.+.+..+...|...+.+.+..|+.|+-....+...|..++.+
T Consensus        74 EL~~l~sEk~~L~k~lq~~q~kv~eLE~~~~~~~~~l~~~E~e  116 (140)
T PF10473_consen   74 ELDTLRSEKENLDKELQKKQEKVSELESLNSSLENLLQEKEQE  116 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            3333333333333344444444444444444444444444444

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length

Probab=94.50  E-value=0.036  Score=35.52  Aligned_cols=46  Identities=24%  Similarity=0.551  Sum_probs=32.2

Q ss_pred             Ccccccccccccc--eecccc--ccccHHHHHHHhccCCCCccCCCcccCCCC
Q psy16189        206 LTCPSCKVKRKDA--VLTKCF--HVFCWDCLRTRYETRQRKCPKCNAAFGAND  254 (262)
Q Consensus       206 ~~C~iC~~~~~~~--v~l~Cg--H~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d  254 (262)
                      -.|..|...+...  --.-|.  .+||.+|....+.   ..||.|+..|..+.
T Consensus         6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~---~~CPNCgGelv~RP   55 (57)
T PF06906_consen    6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETMLN---GVCPNCGGELVRRP   55 (57)
T ss_pred             CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHhc---CcCcCCCCccccCC
Confidence            4577888765332  233343  5799999999764   47999999887653

This family contains a number of conserved cysteine residues and its function is unknown.

>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.48  E-value=0.041  Score=37.10  Aligned_cols=49  Identities=24%  Similarity=0.531  Sum_probs=33.8

Q ss_pred             Cccccccccccc----ceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccc
Q psy16189        206 LTCPSCKVKRKD----AVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHR  257 (262)
Q Consensus       206 ~~C~iC~~~~~~----~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~  257 (262)
                      -.|..|-..+..    ..|-.--|+||.+|...++.   -.||.|+..|....+++
T Consensus         6 PnCECCDrDLpp~s~dA~ICtfEcTFCadCae~~l~---g~CPnCGGelv~RP~RP   58 (84)
T COG3813           6 PNCECCDRDLPPDSTDARICTFECTFCADCAENRLH---GLCPNCGGELVARPIRP   58 (84)
T ss_pred             CCCcccCCCCCCCCCceeEEEEeeehhHhHHHHhhc---CcCCCCCchhhcCcCCh
Confidence            457667665422    22334458999999998776   36999999988766554

>KOG0994|consensus

Probab=94.20  E-value=7.8  Score=39.96  Aligned_cols=38  Identities=11%  Similarity=0.096  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHH
Q psy16189         28 MQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLARE   65 (262)
Q Consensus        28 ~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~   65 (262)
                      +-.+...-|..|..-|..+.+...++.+|.+....+.+
T Consensus      1516 L~~~I~e~v~sL~nVd~IL~~T~~di~ra~~L~s~A~~ 1553 (1758)
T KOG0994|consen 1516 LTGEIQERVASLPNVDAILSRTKGDIARAENLQSEAER 1553 (1758)
T ss_pred             HHHHHHHHHHhcccHHHHHHhhhhhHHHHHHHHHHHHH
Confidence            33333334444444455555555555555444444433

>KOG4739|consensus

Probab=94.06  E-value=0.019  Score=48.09  Aligned_cols=32  Identities=38%  Similarity=0.789  Sum_probs=24.6

Q ss_pred             ccCcccccccccc-cc-eeccccccccHHHHHHH
Q psy16189        204 ETLTCPSCKVKRK-DA-VLTKCFHVFCWDCLRTR  235 (262)
Q Consensus       204 ~~~~C~iC~~~~~-~~-v~l~CgH~fC~~Ci~~~  235 (262)
                      .++-|..|..... .| .++.|+|+||..|....
T Consensus         2 ~~VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~   35 (233)
T KOG4739|consen    2 DFVHCNKCFRFPSQDPFFLTACRHVFCEPCLKAS   35 (233)
T ss_pred             ceEEeccccccCCCCceeeeechhhhhhhhcccC
Confidence            4678998887654 22 56799999999998763

>KOG4360|consensus

Probab=94.02  E-value=5.3  Score=37.37  Aligned_cols=104  Identities=14%  Similarity=0.173  Sum_probs=66.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         57 NQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLH  136 (262)
Q Consensus        57 ~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~  136 (262)
                      +|.|..+.++.+-...++..++..+....+...++.|....|.++|..+.+.+..+.-..+.....+......-..+..+
T Consensus       197 q~~y~~~~KelrdtN~q~~s~~eel~~kt~el~~q~Ee~skLlsql~d~qkk~k~~~~Ekeel~~~Lq~~~da~~ql~aE  276 (596)
T KOG4360|consen  197 QQLYGDCVKELRDTNTQARSGQEELQSKTKELSRQQEENSKLLSQLVDLQKKIKYLRHEKEELDEHLQAYKDAQRQLTAE  276 (596)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            67888888888888888888887777766667777777777777777777777666544444333344444444455555


Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHH
Q psy16189        137 LEKYHAQLKEAQQVVTEKTSSLEA  160 (262)
Q Consensus       137 l~~l~~~~~~~~~~~~~~~~~le~  160 (262)
                      +..++++.++.-....+...++..
T Consensus       277 ~~EleDkyAE~m~~~~EaeeELk~  300 (596)
T KOG4360|consen  277 LEELEDKYAECMQMLHEAEEELKC  300 (596)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHh
Confidence            556666665555555555555444

>KOG0946|consensus

Probab=93.97  E-value=7.1  Score=38.65  Aligned_cols=11  Identities=18%  Similarity=0.428  Sum_probs=4.1

Q ss_pred             HHHHHHHHHHH
Q psy16189         16 NEMEVTGQAFE   26 (262)
Q Consensus        16 ~Eie~~~~a~e   26 (262)
                      .+.+.+.+-|+
T Consensus       653 e~l~~~~~kyK  663 (970)
T KOG0946|consen  653 EELDDIQQKYK  663 (970)
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

>KOG3899|consensus

Probab=93.94  E-value=0.021  Score=48.99  Aligned_cols=38  Identities=32%  Similarity=0.774  Sum_probs=30.3

Q ss_pred             ccccccHHHHHHHhccCC------------CCccCCCcccCCCCcccccc
Q psy16189        223 CFHVFCWDCLRTRYETRQ------------RKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       223 CgH~fC~~Ci~~~~~~~~------------~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      |....|.+|+..|+..|.            -.||.||+.|...|++-|-+
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~~v~~  374 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVHCVDF  374 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeeeEEEe
Confidence            456669999999987653            35999999999999886643

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=93.91  E-value=3  Score=37.05  Aligned_cols=23  Identities=13%  Similarity=0.276  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        163 YKTKRLQEEIAQLRRKTERMKKI  185 (262)
Q Consensus       163 ~~~~~~e~e~~~l~~~~~~~~~~  185 (262)
                      .....+...+......++++++.
T Consensus       113 ~e~~sl~~q~~~~~~~L~~L~kt  135 (314)
T PF04111_consen  113 EERDSLKNQYEYASNQLDRLRKT  135 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHCHHT-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhc
Confidence            34444444555555556656554

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>PF14992 TMCO5: TMCO5 family

Probab=93.91  E-value=3.9  Score=35.45  Aligned_cols=156  Identities=21%  Similarity=0.311  Sum_probs=79.0

Q ss_pred             HHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         25 FEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTN  104 (262)
Q Consensus        25 ~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~  104 (262)
                      ...+.+.|+.+++.+.+.++.+..|-.|.++.+-....-.++.......-..+ ..++   ....+|+.....+...+..
T Consensus        13 ~Q~ldE~Nq~lL~ki~~~E~~iq~Le~Eit~~~~~~~~~e~e~~~~~~~e~~l-~~le---~e~~~LE~~ne~l~~~~~e   88 (280)
T PF14992_consen   13 EQRLDEANQSLLQKIQEKEGAIQSLEREITKMDHIADRSEEEDIISEERETDL-QELE---LETAKLEKENEHLSKSVQE   88 (280)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccCchhHHhhhhhchHHHH-HHHH---hhhHHHhhhhHhhhhhhhh
Confidence            34577889999999999999999999999998654444432222221111122 1111   2224444444444444455


Q ss_pred             HHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH--
Q psy16189        105 VEKELHL-----------RNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEE--  171 (262)
Q Consensus       105 lekel~~-----------~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e--  171 (262)
                      +.+++..           ..+.+...+.++..+.........++.++.+...+....-.+.-..+.+....+++++++  
T Consensus        89 lq~k~~e~~~~~~~e~~~~~~~lq~sk~~lqql~~~~~~qE~ei~kve~d~~~v~~l~eDq~~~i~klkE~L~rmE~ekE  168 (280)
T PF14992_consen   89 LQRKQDEQETNVQCEDPQLSQSLQFSKNKLQQLLESCASQEKEIAKVEDDYQQVHQLCEDQANEIKKLKEKLRRMEEEKE  168 (280)
T ss_pred             hhhhhccccCCCCCCccchhcccHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5554432           122222333344444444555555555555444443332233333333344444444443  


Q ss_pred             HHHHHHHHHHHHH
Q psy16189        172 IAQLRRKTERMKK  184 (262)
Q Consensus       172 ~~~l~~~~~~~~~  184 (262)
                      +.-|.+++...+.
T Consensus       169 ~~lLe~el~k~q~  181 (280)
T PF14992_consen  169 MLLLEKELSKYQM  181 (280)
T ss_pred             HHHHHHHHHHHhc
Confidence            3345555555444

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins

Probab=93.80  E-value=10  Score=39.97  Aligned_cols=40  Identities=13%  Similarity=0.111  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHH
Q psy16189         20 VTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQL   59 (262)
Q Consensus        20 ~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~   59 (262)
                      ......++++.+....=..+......+..+..+...++..
T Consensus       618 ~~~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  657 (1201)
T PF12128_consen  618 SAEERQEELEKQLKQINKKIEELKREITQAEQELKQAEQD  657 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            3333333333333333333333333333333333333333

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=93.78  E-value=5  Score=36.30  Aligned_cols=112  Identities=19%  Similarity=0.322  Sum_probs=75.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         67 KDILHEQVNALKLQIDAMHT----AIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHA  142 (262)
Q Consensus        67 k~~l~~e~~~l~~~~~~~~~----~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~  142 (262)
                      ...+.......+.++++...    .+.++.-+|+.+..+++.+-.+.......+...+.+..+.+..+.++..++..+..
T Consensus       229 ~~~I~~~~~~~~~~L~kl~~~i~~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~Ise  308 (359)
T PF10498_consen  229 KKSIESALPETKSQLDKLQQDISKTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEISE  308 (359)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            34444444444444444433    33445567788888888888888888878877777888888888888888888888


Q ss_pred             HHHHHHHHHHHHhHHH------HHHHHHHHHHHHHHHHHHHH
Q psy16189        143 QLKEAQQVVTEKTSSL------EAEAYKTKRLQEEIAQLRRK  178 (262)
Q Consensus       143 ~~~~~~~~~~~~~~~l------e~~~~~~~~~e~e~~~l~~~  178 (262)
                      ++++.+..+.+.....      -..+..+.++..|+..+.-+
T Consensus       309 eLe~vK~emeerg~~mtD~sPlv~IKqAl~kLk~EI~qMdvr  350 (359)
T PF10498_consen  309 ELEQVKQEMEERGSSMTDGSPLVKIKQALTKLKQEIKQMDVR  350 (359)
T ss_pred             HHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHhhhh
Confidence            8888888888775543      34556666666666554433

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

>KOG0995|consensus

Probab=93.77  E-value=6.3  Score=37.40  Aligned_cols=109  Identities=23%  Similarity=0.269  Sum_probs=46.6

Q ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------
Q psy16189         52 ERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKA--------  123 (262)
Q Consensus        52 e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~--------  123 (262)
                      +.-+.+++...+++.+..|...+...++.+......-......-..+...+...|.|+..++.....+++.+        
T Consensus       253 e~ek~~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~Q~iS~~  332 (581)
T KOG0995|consen  253 EREKDPGKEESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIELQGISGE  332 (581)
T ss_pred             HHhcCcchHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHH
Confidence            444445555555555555555555444444433333222222223333333333333333333333333222        


Q ss_pred             --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q psy16189        124 --IESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEA  160 (262)
Q Consensus       124 --~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~  160 (262)
                        .....+...+.+.+..+..++..+...+-+...+++.
T Consensus       333 dve~mn~Er~~l~r~l~~i~~~~d~l~k~vw~~~l~~~~  371 (581)
T KOG0995|consen  333 DVERMNLERNKLKRELNKIQSELDRLSKEVWELKLEIED  371 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence              1223334445555555555555555555444444433

>PF05483 SCP-1: Synaptonemal complex protein 1 (SCP-1); InterPro: IPR008827 Synaptonemal complex protein 1 (SCP-1) is the major component of the transverse filaments of the synaptonemal complex

Probab=93.76  E-value=7.1  Score=37.92  Aligned_cols=59  Identities=12%  Similarity=0.098  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         24 AFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQID   82 (262)
Q Consensus        24 a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~   82 (262)
                      -+..++..+..+.++...+--.+.++..+..-+...-..++...+.|+.....|+..++
T Consensus       493 ~~nkLslEkk~laQE~~~~~~elKk~qedi~~~k~qee~~~kqie~Lee~~~~Lrnele  551 (786)
T PF05483_consen  493 NCNKLSLEKKQLAQETSDMALELKKQQEDINNSKKQEEKMLKQIENLEETNTQLRNELE  551 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555554444454444444433333344444445554444444444

Synaptonemal complexes are structures that are formed between homologous chromosomes during meiotic prophase [].; GO: 0007130 synaptonemal complex assembly, 0000795 synaptonemal complex

>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function

Probab=93.73  E-value=7.1  Score=37.82  Aligned_cols=36  Identities=25%  Similarity=0.338  Sum_probs=20.4

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        147 AQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERM  182 (262)
Q Consensus       147 ~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~  182 (262)
                      +-.-+..-..++.+.....+.++.++..+..++++.
T Consensus       496 Iv~NI~KQk~eI~KIl~DTr~lQkeiN~l~gkL~Rt  531 (594)
T PF05667_consen  496 IVKNIRKQKEEIEKILSDTRELQKEINSLTGKLDRT  531 (594)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            333344444455555556666666666666666655

>KOG0298|consensus

Probab=93.71  E-value=0.035  Score=56.48  Aligned_cols=51  Identities=18%  Similarity=0.426  Sum_probs=41.4

Q ss_pred             HHhccccCcccccccccc-cceeccccccccHHHHHHHhccCCCCccCCCccc
Q psy16189        199 IREYKETLTCPSCKVKRK-DAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF  250 (262)
Q Consensus       199 ~~~~~~~~~C~iC~~~~~-~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  250 (262)
                      +.++-....|++|.+... ...+..|||.+|..|...|.. ....||.|...+
T Consensus      1147 ~~~~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~-~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1147 LMNLSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLY-ASSRCPICKSIK 1198 (1394)
T ss_pred             HHHhhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHH-HhccCcchhhhh
Confidence            344555678999999887 567889999999999999988 567799998554

>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function

Probab=93.66  E-value=4.8  Score=35.63  Aligned_cols=68  Identities=26%  Similarity=0.272  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         14 LLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQI   81 (262)
Q Consensus        14 l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~   81 (262)
                      ...-++.-..--++++.+|++|+.++..-.+...|.-.+..+..-....+.+++..++.++..+....
T Consensus        90 i~es~~e~q~e~~qL~~qnqkL~nqL~~~~~vf~k~k~~~q~LE~li~~~~EEn~~lqlqL~~l~~e~  157 (401)
T PF06785_consen   90 IRESVEERQQESEQLQSQNQKLKNQLFHVREVFMKTKGDIQHLEGLIRHLREENQCLQLQLDALQQEC  157 (401)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            34456666777788889999999998887777777666666666666666666666655555555444

>KOG3799|consensus

Probab=93.64  E-value=0.34  Score=36.92  Aligned_cols=23  Identities=35%  Similarity=0.644  Sum_probs=15.6

Q ss_pred             cCcccccccc-cccceeccccccccHHHH
Q psy16189        205 TLTCPSCKVK-RKDAVLTKCFHVFCWDCL  232 (262)
Q Consensus       205 ~~~C~iC~~~-~~~~v~l~CgH~fC~~Ci  232 (262)
                      .-+|.||... |.+    .||| .|+.|-
T Consensus        65 datC~IC~KTKFAD----G~GH-~C~YCq   88 (169)
T KOG3799|consen   65 DATCGICHKTKFAD----GCGH-NCSYCQ   88 (169)
T ss_pred             Ccchhhhhhccccc----ccCc-ccchhh
Confidence            4789999974 333    6788 466663

>KOG0964|consensus

Probab=93.59  E-value=9.2  Score=38.70  Aligned_cols=46  Identities=17%  Similarity=0.086  Sum_probs=24.9

Q ss_pred             HHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         34 RLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKL   79 (262)
Q Consensus        34 ~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~   79 (262)
                      +.+..+.+..+.+..-..|..+-.-+|..+..+-+.+...+..|+.
T Consensus       325 ~~l~~l~~~~~ki~e~~~EL~~I~Pky~~l~~ee~~~~~rl~~l~~  370 (1200)
T KOG0964|consen  325 LALHVLQKVKDKIEEKKDELSKIEPKYNSLVDEEKRLKKRLAKLEQ  370 (1200)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhHHHHHHHHHHHHHH
Confidence            3444555555555555556666666666666554444444444443

>KOG1853|consensus

Probab=93.57  E-value=4.1  Score=34.62  Aligned_cols=127  Identities=17%  Similarity=0.135  Sum_probs=52.8

Q ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         49 LMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAM----HTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAI  124 (262)
Q Consensus        49 l~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~----~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~  124 (262)
                      |-+++..+.+....+......|..|+..++...+.+    -..++.|++-...+...-+.+.+-++.+.+.+..+.+-.-
T Consensus        50 lesqL~q~etrnrdl~t~nqrl~~E~e~~Kek~e~q~~q~y~q~s~Leddlsqt~aikeql~kyiReLEQaNDdLErakR  129 (333)
T KOG1853|consen   50 LESQLDQLETRNRDLETRNQRLTTEQERNKEKQEDQRVQFYQQESQLEDDLSQTHAIKEQLRKYIRELEQANDDLERAKR  129 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHhhh
Confidence            444444455554555555555555555554433322    2334444444333333334444444444333332221111


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        125 ESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKT  179 (262)
Q Consensus       125 e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~  179 (262)
                      -..-...++...++..-.+++=+..++.++...++    ...++.++...|+..+
T Consensus       130 ati~sleDfeqrLnqAIErnAfLESELdEke~lle----svqRLkdEardlrqel  180 (333)
T KOG1853|consen  130 ATIYSLEDFEQRLNQAIERNAFLESELDEKEVLLE----SVQRLKDEARDLRQEL  180 (333)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH----HHHHHHHHHHHHHHHH
Confidence            11111344444444444444444444444444333    2344444444444444

>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length

Probab=93.45  E-value=0.04  Score=42.15  Aligned_cols=32  Identities=25%  Similarity=0.476  Sum_probs=26.4

Q ss_pred             cCccccccccccc---ceecccc------ccccHHHHHHHh
Q psy16189        205 TLTCPSCKVKRKD---AVLTKCF------HVFCWDCLRTRY  236 (262)
Q Consensus       205 ~~~C~iC~~~~~~---~v~l~Cg------H~fC~~Ci~~~~  236 (262)
                      ...|.||...+.+   .|.++||      |+||.+|+.+|-
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~   66 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR   66 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence            5789999998865   4667887      779999999983

The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.

>KOG0243|consensus

Probab=93.44  E-value=10  Score=38.75  Aligned_cols=26  Identities=19%  Similarity=0.285  Sum_probs=17.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         11 EEALLNEMEVTGQAFEDMQEQNSRLL   36 (262)
Q Consensus        11 ~~~l~~Eie~~~~a~e~~q~q~~~~~   36 (262)
                      ..-|+.||+.|..-.-.+++-|.-++
T Consensus       406 lKd~~~EIerLK~dl~AaReKnGvyi  431 (1041)
T KOG0243|consen  406 LKDLYEEIERLKRDLAAAREKNGVYI  431 (1041)
T ss_pred             HHHHHHHHHHHHHHHHHhHhhCceEe
Confidence            45677888888777777776665554

>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair

Probab=93.40  E-value=0.082  Score=33.55  Aligned_cols=39  Identities=31%  Similarity=0.738  Sum_probs=21.7

Q ss_pred             ccccccccccc----------eeccccccccHHHHHHHhccCCCCccCCC
Q psy16189        208 CPSCKVKRKDA----------VLTKCFHVFCWDCLRTRYETRQRKCPKCN  247 (262)
Q Consensus       208 C~iC~~~~~~~----------v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr  247 (262)
                      |.-|...|..+          ....|++.||.+| +-.+...-..||.|.
T Consensus         2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dC-D~fiHE~LH~CPGC~   50 (51)
T PF07975_consen    2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDC-DVFIHETLHNCPGCE   50 (51)
T ss_dssp             ETTTTEE-TTS-------EEE--TTTT--B-HHH-HHTTTTTS-SSSTT-
T ss_pred             CccCCCCCCCcccccccCCeEECCCCCCccccCc-ChhhhccccCCcCCC
Confidence            56677766553          2238999999999 444444556799994

It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.

>KOG3039|consensus

Probab=93.21  E-value=0.057  Score=45.36  Aligned_cols=36  Identities=17%  Similarity=0.084  Sum_probs=31.0

Q ss_pred             hccccCcccccccccccceeccccccccHHHHHHHh
Q psy16189        201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRY  236 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~  236 (262)
                      .++..--|+.|..++.+||+.|=||.||..||-.++
T Consensus        39 siK~FdcCsLtLqPc~dPvit~~GylfdrEaILe~i   74 (303)
T KOG3039|consen   39 SIKPFDCCSLTLQPCRDPVITPDGYLFDREAILEYI   74 (303)
T ss_pred             ccCCcceeeeecccccCCccCCCCeeeeHHHHHHHH
Confidence            345556699999999999999999999999997655

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=93.19  E-value=3.9  Score=33.23  Aligned_cols=31  Identities=26%  Similarity=0.336  Sum_probs=12.0

Q ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         52 ERIKSNQLHKLAREEKDILHEQVNALKLQID   82 (262)
Q Consensus        52 e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~   82 (262)
                      +...+++....+..+.+.+...+..+...+.
T Consensus        82 e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~  112 (191)
T PF04156_consen   82 ELSELQQQLQQLQEELDQLQERIQELESELE  112 (191)
T ss_pred             hHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333444433333333333

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=93.13  E-value=7.2  Score=36.10  Aligned_cols=162  Identities=20%  Similarity=0.245  Sum_probs=95.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHH
Q psy16189         18 MEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHT---AIRKLEEK   94 (262)
Q Consensus        18 ie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~---~i~~l~e~   94 (262)
                      +..+.+.|+.+|-....     -++.+.+.+|....-|-....-.+.-.+--|+..++.|+..+.++.-   .|.+|++.
T Consensus       296 ~~d~eqs~Eslqpleed-----maLNEvL~kLk~tn~kQq~~IqdLq~sN~yLe~kvkeLQ~k~~kQqvfvDiinkLk~n  370 (527)
T PF15066_consen  296 TPDTEQSFESLQPLEED-----MALNEVLQKLKHTNRKQQNRIQDLQCSNLYLEKKVKELQMKITKQQVFVDIINKLKEN  370 (527)
T ss_pred             CCCHHhhhhccCCcHHH-----HHHHHHHHHHHhhhHHHHHHHHHhhhccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Confidence            44455666666543211     24556677777666666666667777788888899999988887764   44555543


Q ss_pred             HHHHH-----HHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q psy16189         95 ERYLQ-----TVL--TNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKR  167 (262)
Q Consensus        95 e~~l~-----~~i--~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~  167 (262)
                      ...|-     -.+  ..+++-+..+...+...++.+.+...+...|+.++.+++.-...++.....-..+-.+.....-.
T Consensus       371 iEeLIedKY~viLEKnd~~k~lqnLqe~la~tqk~LqEsr~eKetLqlelkK~k~nyv~LQEry~~eiQqKnksvsqclE  450 (527)
T PF15066_consen  371 IEELIEDKYRVILEKNDIEKTLQNLQEALANTQKHLQESRNEKETLQLELKKIKANYVHLQERYMTEIQQKNKSVSQCLE  450 (527)
T ss_pred             HHHHHHhHhHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            22221     111  12444455566666666667777776677777777777777776666655544444444444444


Q ss_pred             HHHHHHHHHHHHHHHHH
Q psy16189        168 LQEEIAQLRRKTERMKK  184 (262)
Q Consensus       168 ~e~e~~~l~~~~~~~~~  184 (262)
                      ++.-+..-...+++++.
T Consensus       451 mdk~LskKeeeverLQ~  467 (527)
T PF15066_consen  451 MDKTLSKKEEEVERLQQ  467 (527)
T ss_pred             HHHHhhhhHHHHHHHHH
Confidence            44444444445555544

>PF10481 CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR018463 Mitosin or centromere-associated protein-F (Cenp-F) is found bound across the centromere as one of the proteins of the outer layer of the kinetochore []

Probab=93.08  E-value=5.3  Score=34.39  Aligned_cols=27  Identities=26%  Similarity=0.330  Sum_probs=17.9

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHH
Q psy16189        150 VVTEKTSSLEAEAYKTKRLQEEIAQLR  176 (262)
Q Consensus       150 ~~~~~~~~le~~~~~~~~~e~e~~~l~  176 (262)
                      .+.++...+..+....++++.++..+.
T Consensus       163 k~e~L~ekynkeveerkrle~e~k~lq  189 (307)
T PF10481_consen  163 KYEELQEKYNKEVEERKRLEAEVKALQ  189 (307)
T ss_pred             hHHHHHHHHHHHHHHHhhHHHHHHHHh
Confidence            345555556666667788888777765

Most of the kinetochore/centromere functions appear to depend upon binding of the C-terminal part of the molecule, whereas the N-terminal part, here, may be a cytoplasmic player in controlling the function of microtubules and dynein [].

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules

Probab=93.06  E-value=4.5  Score=33.62  Aligned_cols=67  Identities=15%  Similarity=0.264  Sum_probs=43.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHH----HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         16 NEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSN----QLHKLAREEKDILHEQVNALKLQID   82 (262)
Q Consensus        16 ~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~----q~~~~~~~~k~~l~~e~~~l~~~~~   82 (262)
                      .|+..+..-|+++...|..+..=+.+.+..+..++.+.-+..    ..+..+..+++.+...+.++.....
T Consensus        23 ~e~~~l~~k~~e~~~~~~~m~~i~~e~Ek~i~~~i~e~~~~~~~~~~~i~~~~~erdq~~~dL~s~E~sfs   93 (207)
T PF05010_consen   23 EEEQELKKKYEELHKENQEMRKIMEEYEKTIAQMIEEKQKQKELSEAEIQKLLKERDQAYADLNSLEKSFS   93 (207)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHhhHHHHHHHHHHHHhhHH
Confidence            456777788888888888888888888888888888765442    2233344455555555555544443

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures

Probab=93.06  E-value=1.7  Score=29.88  Aligned_cols=25  Identities=36%  Similarity=0.368  Sum_probs=17.0

Q ss_pred             HHHHhhhhhhHHHHHHHHHhhHHHH
Q psy16189         35 LLQQLREKDDANFKLMTERIKSNQL   59 (262)
Q Consensus        35 ~~~~l~e~e~~~~kl~~e~~ka~q~   59 (262)
                      +...|.++|+.+..|+.|.-+....
T Consensus         3 l~~~l~EKDe~Ia~L~eEGekLSk~   27 (74)
T PF12329_consen    3 LEKKLAEKDEQIAQLMEEGEKLSKK   27 (74)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            4566778888888877777655433

The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.

>KOG4445|consensus

Probab=93.05  E-value=0.11  Score=44.83  Aligned_cols=48  Identities=21%  Similarity=0.462  Sum_probs=36.1

Q ss_pred             cCcccccccccccc---eeccccccccHHHHHHHhcc----------------------CCCCccCCCcccCC
Q psy16189        205 TLTCPSCKVKRKDA---VLTKCFHVFCWDCLRTRYET----------------------RQRKCPKCNAAFGA  252 (262)
Q Consensus       205 ~~~C~iC~~~~~~~---v~l~CgH~fC~~Ci~~~~~~----------------------~~~~CP~Cr~~~~~  252 (262)
                      .-.|.||..-|.+.   +.++|.|.|-+.|+.+++..                      -...||+||.+++.
T Consensus       115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~  187 (368)
T KOG4445|consen  115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI  187 (368)
T ss_pred             CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence            35699999988553   45699999999999877642                      01239999998864

>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length

Probab=92.97  E-value=0.011  Score=39.94  Aligned_cols=40  Identities=25%  Similarity=0.586  Sum_probs=21.7

Q ss_pred             CcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        206 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      +.||.|...+...-    ||.+|..|-..+.  ....||.|+.++.
T Consensus         2 ~~CP~C~~~L~~~~----~~~~C~~C~~~~~--~~a~CPdC~~~Le   41 (70)
T PF07191_consen    2 NTCPKCQQELEWQG----GHYHCEACQKDYK--KEAFCPDCGQPLE   41 (70)
T ss_dssp             -B-SSS-SBEEEET----TEEEETTT--EEE--EEEE-TTT-SB-E
T ss_pred             CcCCCCCCccEEeC----CEEECccccccce--ecccCCCcccHHH
Confidence            57999998753221    7888999977532  2356999988874

Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.

>PF05483 SCP-1: Synaptonemal complex protein 1 (SCP-1); InterPro: IPR008827 Synaptonemal complex protein 1 (SCP-1) is the major component of the transverse filaments of the synaptonemal complex

Probab=92.92  E-value=9.7  Score=37.03  Aligned_cols=105  Identities=20%  Similarity=0.288  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------------HHHHHHHHHHHHHHHHHHH
Q psy16189         78 KLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNK------------------RKAIESAQSAADLKLHLEK  139 (262)
Q Consensus        78 ~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k------------------~k~~e~~~~~~~l~~~l~~  139 (262)
                      +.+.++....|..|++.+..++..+..+..++......+..--                  ..+.-+...+..++.+++.
T Consensus       526 k~qee~~~kqie~Lee~~~~Lrneles~~eel~~k~~Ev~~kl~ksEen~r~~e~e~~~k~kq~k~lenk~~~LrKqvEn  605 (786)
T PF05483_consen  526 KKQEEKMLKQIENLEETNTQLRNELESVKEELKQKGEEVKCKLDKSEENARSIECEILKKEKQMKILENKCNNLRKQVEN  605 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHhhHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Confidence            3333444445555666666666655555555544333322100                  0011111223445555555


Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        140 YHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERM  182 (262)
Q Consensus       140 l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~  182 (262)
                      ....+.+++.....+......+..+...++..+..+...++.+
T Consensus       606 k~K~ieeLqqeNk~LKKk~~aE~kq~~~~eikVn~L~~E~e~~  648 (786)
T PF05483_consen  606 KNKNIEELQQENKALKKKITAESKQSNVYEIKVNKLQEELENL  648 (786)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555544444444444444444444333

Synaptonemal complexes are structures that are formed between homologous chromosomes during meiotic prophase [].; GO: 0007130 synaptonemal complex assembly, 0000795 synaptonemal complex

>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function

Probab=92.92  E-value=9.5  Score=36.96  Aligned_cols=60  Identities=23%  Similarity=0.219  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Q psy16189         17 EMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNA   76 (262)
Q Consensus        17 Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~   76 (262)
                      +.+.-.+-.++++.+...+..++.++++.+..+.++.................++.++..
T Consensus       322 ~~~~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l  381 (594)
T PF05667_consen  322 EQEEQEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKL  381 (594)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444455555555555555555555555555555444444444444444444444443

>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []

Probab=92.84  E-value=5.5  Score=34.04  Aligned_cols=46  Identities=15%  Similarity=0.224  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         63 AREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKE  108 (262)
Q Consensus        63 ~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~leke  108 (262)
                      ++.....+..+++..+..+..+...+..|.++-+.....-..|+..
T Consensus        10 le~rL~q~eee~~~a~~~L~e~e~~a~~Leek~k~aeeea~~Le~k   55 (246)
T PF00769_consen   10 LEERLRQMEEEMRRAQEALEESEETAEELEEKLKQAEEEAEELEQK   55 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444444555555544444443333334443

Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.

>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT)

Probab=92.84  E-value=3.4  Score=31.66  Aligned_cols=8  Identities=0%  Similarity=0.302  Sum_probs=2.9

Q ss_pred             HHHHHHHH
Q psy16189        140 YHAQLKEA  147 (262)
Q Consensus       140 l~~~~~~~  147 (262)
                      ++.++.++
T Consensus       110 ~~~r~~dL  117 (132)
T PF07926_consen  110 LEQRIEDL  117 (132)
T ss_pred             HHHHHHHH
Confidence            33333333

These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore

>PF01576 Myosin_tail_1: Myosin tail; InterPro: IPR002928 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril

Probab=92.80  E-value=0.031  Score=56.20  Aligned_cols=19  Identities=32%  Similarity=0.550  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q psy16189         64 REEKDILHEQVNALKLQID   82 (262)
Q Consensus        64 ~~~k~~l~~e~~~l~~~~~   82 (262)
                      .+++..+..++..|..+++
T Consensus       151 EK~k~~l~~e~~dL~~~l~  169 (859)
T PF01576_consen  151 EKEKSQLEAELDDLQAQLD  169 (859)
T ss_dssp             -------------------
T ss_pred             HHHHHHHHhHHHHHHHHHH
Confidence            3334444444444444443

Myosin is a major component of thick filaments and exists as a hexamer of 2 heavy chains [], 2 alkali light chains, and 2 regulatory light chains. The heavy chain can be subdivided into the N-terminal globular head and the C-terminal coiled-coil rod-like tail, although some forms have a globular region in their C-terminal. There are many cell-specific isoforms of myosin heavy chains, coded for by a multi-gene family []. Myosin interacts with actin to convert chemical energy, in the form of ATP, to mechanical energy []. The 3-D structure of the head portion of myosin has been determined [] and a model for actin-myosin complex has been constructed []. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament []. The coiled-coil region provides the structural backbone of the thick filament [].; GO: 0003774 motor activity, 0016459 myosin complex; PDB: 2LNK_C 3ZWH_Q.

>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]

Probab=92.79  E-value=8.2  Score=35.86  Aligned_cols=73  Identities=18%  Similarity=0.216  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q psy16189         83 AMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLE  159 (262)
Q Consensus        83 ~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le  159 (262)
                      +.+..|..-++..+.|++++..|.++++...-..+    ......++..+|-++++.+..+...+...+...+..++
T Consensus       334 kl~~eie~kEeei~~L~~~~d~L~~q~~kq~Is~e----~fe~mn~Ere~L~reL~~i~~~~~~L~k~V~~~~leaq  406 (622)
T COG5185         334 KLKSEIELKEEEIKALQSNIDELHKQLRKQGISTE----QFELMNQEREKLTRELDKINIQSDKLTKSVKSRKLEAQ  406 (622)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCCCHH----HHHHHHHHHHHHHHHHHHhcchHHHHHHHHHhHHHHHH
Confidence            33444444455555666666666666653211111    22233444566666777766666666666655544443

>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A

Probab=92.74  E-value=0.13  Score=35.37  Aligned_cols=47  Identities=19%  Similarity=0.543  Sum_probs=22.0

Q ss_pred             cCccccccccccc----ceec---cccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        205 TLTCPSCKVKRKD----AVLT---KCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       205 ~~~C~iC~~~~~~----~v~l---~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      ...|.||.+..--    -++.   -|+-..|..|..--.+.+...||.|++++.
T Consensus         9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk   62 (80)
T PF14569_consen    9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK   62 (80)
T ss_dssp             S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred             CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence            3579999997622    2333   678888999998877778888999999884

>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

Probab=92.67  E-value=7.6  Score=35.17  Aligned_cols=49  Identities=18%  Similarity=0.263  Sum_probs=25.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRK  178 (262)
Q Consensus       130 ~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~  178 (262)
                      +...-..++....++..-...+.+....+.........++.++..+..-
T Consensus       233 i~qrd~~i~q~~q~iaar~e~I~~re~~lq~lEt~q~~leqeva~le~y  281 (499)
T COG4372         233 IQQRDAQISQKAQQIAARAEQIRERERQLQRLETAQARLEQEVAQLEAY  281 (499)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444455555555555555555555555555555555555555554443

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

Probab=92.55  E-value=0.044  Score=45.87  Aligned_cols=55  Identities=25%  Similarity=0.544  Sum_probs=31.6

Q ss_pred             cccCcccccccccccceecc-cccc------ccHHH--HHHHhccCCCCccCCCcccCCCCcccc
Q psy16189        203 KETLTCPSCKVKRKDAVLTK-CFHV------FCWDC--LRTRYETRQRKCPKCNAAFGANDYHRL  258 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~v~l~-CgH~------fC~~C--i~~~~~~~~~~CP~Cr~~~~~~d~~~i  258 (262)
                      .....||+|...|+...+.. =+..      ||..-  +.+.+- ....||.||-.+...|+..+
T Consensus         3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y-~V~vCP~CgyA~~~~~F~~l   66 (214)
T PF09986_consen    3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFY-EVWVCPHCGYAAFEEDFEKL   66 (214)
T ss_pred             CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeee-eEEECCCCCCcccccccccC
Confidence            34589999999996653221 1111      12111  222222 23459999999988877643

>KOG1812|consensus

Probab=92.53  E-value=0.065  Score=48.88  Aligned_cols=48  Identities=31%  Similarity=0.752  Sum_probs=32.2

Q ss_pred             cCcccccccccccc----eeccccccccHHHHHHHhccC-----CCCccC--CCcccCC
Q psy16189        205 TLTCPSCKVKRKDA----VLTKCFHVFCWDCLRTRYETR-----QRKCPK--CNAAFGA  252 (262)
Q Consensus       205 ~~~C~iC~~~~~~~----v~l~CgH~fC~~Ci~~~~~~~-----~~~CP~--Cr~~~~~  252 (262)
                      ...|.||......+    ....|||.||.+|+..++..+     ...||.  |...+..
T Consensus       146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~  204 (384)
T KOG1812|consen  146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTL  204 (384)
T ss_pred             cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCH
Confidence            47899999443322    356899999999999888743     345754  4444443

>KOG0993|consensus

Probab=92.40  E-value=8.5  Score=35.09  Aligned_cols=34  Identities=21%  Similarity=0.647  Sum_probs=22.9

Q ss_pred             ccccccccccc----ceec--cccccccHHHHHHHhccCC
Q psy16189        207 TCPSCKVKRKD----AVLT--KCFHVFCWDCLRTRYETRQ  240 (262)
Q Consensus       207 ~C~iC~~~~~~----~v~l--~CgH~fC~~Ci~~~~~~~~  240 (262)
                      .|..|-..|..    |-.+  .|+.+||..|....+...+
T Consensus       470 ~c~~~~aS~~slk~e~erl~qq~eqi~~~~~~Katvp~l~  509 (542)
T KOG0993|consen  470 QCSNCDASFASLKVEPERLHQQCEQIFCMNCLKATVPSLP  509 (542)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHhHHHhhccccc
Confidence            46666655532    3333  3999999999998887654

>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function

Probab=92.29  E-value=0.15  Score=40.09  Aligned_cols=19  Identities=42%  Similarity=0.880  Sum_probs=16.5

Q ss_pred             cCcccccccccccceeccc
Q psy16189        205 TLTCPSCKVKRKDAVLTKC  223 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~C  223 (262)
                      ..+||||++.+-+.|+|-|
T Consensus         2 d~~CpICme~PHNAVLLlC   20 (162)
T PF07800_consen    2 DVTCPICMEHPHNAVLLLC   20 (162)
T ss_pred             CccCceeccCCCceEEEEe
Confidence            4789999999999998855

The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.

>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]

Probab=92.29  E-value=10  Score=35.80  Aligned_cols=115  Identities=10%  Similarity=0.165  Sum_probs=86.2

Q ss_pred             ccccchhhhHHHHHHHHHHHHHHHHHHH---HHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          3 LGQVSGNEEEALLNEMEVTGQAFEDMQE---QNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKL   79 (262)
Q Consensus         3 ~~~~~~~~~~~l~~Eie~~~~a~e~~q~---q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~   79 (262)
                      |+.+.|....+|-.||+.+.+.|-=-..   -...+-..|.+.++.............+.|..+....+.+...+.....
T Consensus       317 ~l~k~ke~n~~L~~Eie~V~~sY~l~e~e~~~vr~~e~eL~el~~~~~~i~~~~~~~~~~yS~lq~~l~~~~~~l~~i~~  396 (570)
T COG4477         317 YLEKAKENNEHLKEEIERVKESYRLAETELGSVRKFEKELKELESVLDEILENIEAQEVAYSELQDNLEEIEKALTDIED  396 (570)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccChhHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHHHhh
Confidence            6778899999999999999998832221   1234445666677666666666666688899999888999999888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         80 QIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMD  117 (262)
Q Consensus        80 ~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~  117 (262)
                      ...+..+.+..|.+-+...+..+..+.+.+...+.-++
T Consensus       397 ~q~~~~e~L~~LrkdEl~Are~l~~~~~~l~eikR~me  434 (570)
T COG4477         397 EQEKVQEHLTSLRKDELEARENLERLKSKLHEIKRYME  434 (570)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888777777777777777766554443

>KOG3842|consensus

Probab=92.21  E-value=0.1  Score=45.43  Aligned_cols=46  Identities=24%  Similarity=0.592  Sum_probs=30.2

Q ss_pred             cCccccccccc-------------------ccceeccccccccHHHHHHHhccC---------CCCccCCCcccC
Q psy16189        205 TLTCPSCKVKR-------------------KDAVLTKCFHVFCWDCLRTRYETR---------QRKCPKCNAAFG  251 (262)
Q Consensus       205 ~~~C~iC~~~~-------------------~~~v~l~CgH~fC~~Ci~~~~~~~---------~~~CP~Cr~~~~  251 (262)
                      ...||+|...-                   ....+.||||+ |+.=.-.+|..-         +..||+|...+.
T Consensus       341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv-~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~  414 (429)
T KOG3842|consen  341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHV-CSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA  414 (429)
T ss_pred             cCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccc-cchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence            47799998731                   11245699995 666555556531         234999999884

>KOG0963|consensus

Probab=92.17  E-value=11  Score=36.08  Aligned_cols=58  Identities=24%  Similarity=0.198  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH----hhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Q psy16189         18 MEVTGQAFEDMQEQNSRLLQQ----LREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVN   75 (262)
Q Consensus        18 ie~~~~a~e~~q~q~~~~~~~----l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~   75 (262)
                      |..++.+.++.+.+-.-+-..    +.-+-+.+.=+|.+...|++....+.++.+.|..+..
T Consensus       205 i~~lq~a~~~t~~el~~~~s~~dee~~~k~aev~lim~eLe~aq~ri~~lE~e~e~L~~ql~  266 (629)
T KOG0963|consen  205 ISSLQSAIEDTQNELFDLKSKYDEEVAAKAAEVSLIMTELEDAQQRIVFLEREVEQLREQLA  266 (629)
T ss_pred             HHHHHHHHHhhhhHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444333333222    3334444444555555555555555544444444433

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=92.09  E-value=6.9  Score=37.50  Aligned_cols=29  Identities=14%  Similarity=0.286  Sum_probs=13.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        155 TSSLEAEAYKTKRLQEEIAQLRRKTERMK  183 (262)
Q Consensus       155 ~~~le~~~~~~~~~e~e~~~l~~~~~~~~  183 (262)
                      +..+.....++......++.|++++..+.
T Consensus       480 ~~~I~~L~~~L~e~~~~ve~L~~~l~~l~  508 (652)
T COG2433         480 DRRIERLEKELEEKKKRVEELERKLAELR  508 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334444444444555555555554

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=91.98  E-value=7.2  Score=33.33  Aligned_cols=71  Identities=14%  Similarity=0.202  Sum_probs=27.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q psy16189         87 AIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSS  157 (262)
Q Consensus        87 ~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~  157 (262)
                      .+..+.+....+...+..+.+|+..+...+....+.+....+++.++..+++.+.....++...+......
T Consensus        43 ~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~  113 (251)
T PF11932_consen   43 RIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQELVPLMEQMIDE  113 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333444444444444333333333333333333334444444444433333333333333333

However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.

>PF15254 CCDC14: Coiled-coil domain-containing protein 14

Probab=91.97  E-value=14  Score=36.55  Aligned_cols=98  Identities=17%  Similarity=0.216  Sum_probs=41.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         74 VNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMD----LNKRKAIESAQSAADLKLHLEKYHAQLKEAQQ  149 (262)
Q Consensus        74 ~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~----~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~  149 (262)
                      ...|+..++.+.+.|+.+++..+.+...+..-+.++...++.-+    ..+-.+.+.......++-.++..+.+..-+..
T Consensus       450 ~e~lq~kneellk~~e~q~~Enk~~~~~~~ekd~~l~~~kq~~d~e~~rik~ev~eal~~~k~~q~kLe~sekEN~iL~i  529 (861)
T PF15254_consen  450 QELLQSKNEELLKVIENQKEENKRLRKMFQEKDQELLENKQQFDIETTRIKIEVEEALVNVKSLQFKLEASEKENQILGI  529 (861)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhhhHhhh
Confidence            33444444455555555555555555555444444443332222    22222223333333344444444444444444


Q ss_pred             HHHHHhHHHHHHHHHHHHHHHH
Q psy16189        150 VVTEKTSSLEAEAYKTKRLQEE  171 (262)
Q Consensus       150 ~~~~~~~~le~~~~~~~~~e~e  171 (262)
                      .+...++++...+.-.+.++..
T Consensus       530 tlrQrDaEi~RL~eLtR~LQ~S  551 (861)
T PF15254_consen  530 TLRQRDAEIERLRELTRTLQNS  551 (861)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444334444333

>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants

Probab=91.87  E-value=15  Score=36.73  Aligned_cols=21  Identities=24%  Similarity=0.292  Sum_probs=8.3

Q ss_pred             HHHHHHHHHHHHHHHhHHHHH
Q psy16189        140 YHAQLKEAQQVVTEKTSSLEA  160 (262)
Q Consensus       140 l~~~~~~~~~~~~~~~~~le~  160 (262)
                      ++..+..+...+..+..+++.
T Consensus       671 ~e~E~~~l~~Ki~~Le~Ele~  691 (769)
T PF05911_consen  671 LEAEAEELQSKISSLEEELEK  691 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333333343334444444333

The function of this family is unknown.

>KOG0249|consensus

Probab=91.86  E-value=14  Score=36.28  Aligned_cols=40  Identities=20%  Similarity=0.364  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HhhCCchHHHHHHHHhcc
Q psy16189        164 KTKRLQEEIAQLRRKTERMKKI-EQAGTLDEVMMEEIREYK  203 (262)
Q Consensus       164 ~~~~~e~e~~~l~~~~~~~~~~-~~~~~~~~~l~~e~~~~~  203 (262)
                      ++.++..++..+++.++.+... +......+.|..+++.++
T Consensus       217 ~kn~L~~e~~s~kk~l~~~~~~k~rl~~d~E~Lr~e~~qL~  257 (916)
T KOG0249|consen  217 DKNRLEQELESVKKQLEEMRHDKDKLRTDIEDLRGELDQLR  257 (916)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            4455555666666666555554 444455555555555443

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=91.86  E-value=9.8  Score=34.65  Aligned_cols=34  Identities=15%  Similarity=0.264  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         74 VNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEK  107 (262)
Q Consensus        74 ~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lek  107 (262)
                      +..+..++......+..++.....+...+..+++
T Consensus       146 ~~~l~~~i~~~~~~i~~~~~~l~~~~~~l~~~~~  179 (423)
T TIGR01843       146 LELILAQIKQLEAELAGLQAQLQALRQQLEVISE  179 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.

>PF15254 CCDC14: Coiled-coil domain-containing protein 14

Probab=91.84  E-value=14  Score=36.44  Aligned_cols=47  Identities=19%  Similarity=0.097  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         67 KDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRN  113 (262)
Q Consensus        67 k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~  113 (262)
                      .-+|..-+-.|+.++..+......|.-+...+..-++.+..|...+.
T Consensus       429 l~sLqSlN~~Lq~ql~es~k~~e~lq~kneellk~~e~q~~Enk~~~  475 (861)
T PF15254_consen  429 LFSLQSLNMSLQNQLQESLKSQELLQSKNEELLKVIENQKEENKRLR  475 (861)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            33444444555555555555555555555555555555555555443

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=91.82  E-value=21  Score=38.29  Aligned_cols=95  Identities=15%  Similarity=0.219  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         17 EMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKS--------NQLHKLAREEKDILHEQVNALKLQIDAMHTAI   88 (262)
Q Consensus        17 Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka--------~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i   88 (262)
                      +|+.+..+|+.|...... +..+.+....+.++...-...        -..|.......+.+..++..+...++.....+
T Consensus       221 ~i~~l~e~~~~~~~~~~~-le~l~~~~~~l~~i~~~y~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  299 (1353)
T TIGR02680       221 ELTDVADALEQLDEYRDE-LERLEALERALRNFLQRYRRYARTMLRRRATRLRSAQTQYDQLSRDLGRARDELETAREEE  299 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466666666666644332 223333333333222211111        22333333344555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         89 RKLEEKERYLQTVLTNVEKELHLR  112 (262)
Q Consensus        89 ~~l~e~e~~l~~~i~~lekel~~~  112 (262)
                      ..+++....+...++.++.++..+
T Consensus       300 ~~~~~~~~~le~~~~~l~~~~~~l  323 (1353)
T TIGR02680       300 RELDARTEALEREADALRTRLEAL  323 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHh
Confidence            555444444444445555544443

Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length.

>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;

Probab=91.79  E-value=0.049  Score=35.22  Aligned_cols=32  Identities=22%  Similarity=0.470  Sum_probs=24.5

Q ss_pred             Cccccccccccc----ceeccccccccHHHHHHHhc
Q psy16189        206 LTCPSCKVKRKD----AVLTKCFHVFCWDCLRTRYE  237 (262)
Q Consensus       206 ~~C~iC~~~~~~----~v~l~CgH~fC~~Ci~~~~~  237 (262)
                      ..|++|...|.-    .....||++||..|......
T Consensus         3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~   38 (57)
T cd00065           3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP   38 (57)
T ss_pred             CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence            468999887743    34559999999999877554

>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []

Probab=91.74  E-value=0.038  Score=48.48  Aligned_cols=43  Identities=26%  Similarity=0.379  Sum_probs=21.7

Q ss_pred             Ccccccccccccceeccc-----cccccHHHHHHHhccCCCCccCCCcc
Q psy16189        206 LTCPSCKVKRKDAVLTKC-----FHVFCWDCLRTRYETRQRKCPKCNAA  249 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~C-----gH~fC~~Ci~~~~~~~~~~CP~Cr~~  249 (262)
                      -.||||+..+.-.++..=     .|.+|+-|-..|-. ....||+|+..
T Consensus       173 g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~-~R~~Cp~Cg~~  220 (290)
T PF04216_consen  173 GYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRF-VRIKCPYCGNT  220 (290)
T ss_dssp             SS-TTT---EEEEEEE------EEEEEETTT--EEE---TTS-TTT---
T ss_pred             CcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeee-cCCCCcCCCCC
Confidence            689999998765555433     36669999888765 45579999774

The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.

>KOG0804|consensus

Probab=91.64  E-value=11  Score=34.79  Aligned_cols=15  Identities=27%  Similarity=0.465  Sum_probs=5.5

Q ss_pred             HHHHHHHHHHHHHHH
Q psy16189         63 AREEKDILHEQVNAL   77 (262)
Q Consensus        63 ~~~~k~~l~~e~~~l   77 (262)
                      +..++..++.....+
T Consensus       373 ~e~~kk~~e~k~~q~  387 (493)
T KOG0804|consen  373 LEAEKKIVERKLQQL  387 (493)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333333333333333

>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold)

Probab=91.63  E-value=4.2  Score=29.90  Aligned_cols=32  Identities=22%  Similarity=0.269  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q psy16189        130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAE  161 (262)
Q Consensus       130 ~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~  161 (262)
                      ...|..+.......+.+++..+.+....++.+
T Consensus        46 l~~L~~q~~s~~qr~~eLqaki~ea~~~le~e   77 (107)
T PF09304_consen   46 LQSLQAQNASRNQRIAELQAKIDEARRNLEDE   77 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444445555555544444443

The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.

>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO)

Probab=91.59  E-value=0.24  Score=30.23  Aligned_cols=39  Identities=28%  Similarity=0.707  Sum_probs=20.7

Q ss_pred             ccccccccccceec---cccccccHHHHHHHhccCCC-CccCC
Q psy16189        208 CPSCKVKRKDAVLT---KCFHVFCWDCLRTRYETRQR-KCPKC  246 (262)
Q Consensus       208 C~iC~~~~~~~v~l---~CgH~fC~~Ci~~~~~~~~~-~CP~C  246 (262)
                      |.+|.+.....+.=   .|+-.+-..|+..+|..+.. .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            56677655443322   47767778999999987654 49998

; PDB: 3NW0_A 2CT0_A.

>PRK04023 DNA polymerase II large subunit; Validated

Probab=91.59  E-value=0.12  Score=51.75  Aligned_cols=49  Identities=20%  Similarity=0.337  Sum_probs=35.4

Q ss_pred             cCcccccccccccceeccccc-----cccHHHHHHHhccCCCCccCCCcccCCCCcc
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFH-----VFCWDCLRTRYETRQRKCPKCNAAFGANDYH  256 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH-----~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~  256 (262)
                      ...|+-|........+..||.     .||..|-..   .....||.|+.......-.
T Consensus       626 ~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~CG~~---~~~y~CPKCG~El~~~s~~  679 (1121)
T PRK04023        626 RRKCPSCGKETFYRRCPFCGTHTEPVYRCPRCGIE---VEEDECEKCGREPTPYSKR  679 (1121)
T ss_pred             CccCCCCCCcCCcccCCCCCCCCCcceeCccccCc---CCCCcCCCCCCCCCccceE
Confidence            567999999865556668985     489999443   2335699999988765433

>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain

Probab=91.59  E-value=9.1  Score=33.71  Aligned_cols=14  Identities=29%  Similarity=0.294  Sum_probs=5.9

Q ss_pred             HHHHHHHHHHHHHH
Q psy16189         98 LQTVLTNVEKELHL  111 (262)
Q Consensus        98 l~~~i~~lekel~~  111 (262)
                      |..+|..+.++...
T Consensus        82 LlKkl~~l~keKe~   95 (310)
T PF09755_consen   82 LLKKLQQLKKEKET   95 (310)
T ss_pred             HHHHHHHHHHHHHH
Confidence            33344444444333

>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch

Probab=91.55  E-value=5.5  Score=31.15  Aligned_cols=57  Identities=14%  Similarity=0.288  Sum_probs=28.6

Q ss_pred             hHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         44 DANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLT  103 (262)
Q Consensus        44 ~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~  103 (262)
                      ..+...+.+.+...+.   -+...+.+...+..+...++.+...+.+|++....+...+.
T Consensus        34 ~~vin~i~~Ll~~~~r---~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~   90 (151)
T PF11559_consen   34 VRVINCIYDLLQQRDR---DMEQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELA   90 (151)
T ss_pred             HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444433222   23345666666666666666666666555554333333333

pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.

>KOG1940|consensus

Probab=91.55  E-value=0.068  Score=46.12  Aligned_cols=42  Identities=31%  Similarity=0.631  Sum_probs=35.1

Q ss_pred             Cccccccccc----ccceeccccccccHHHHHHHhccCCCCccCCCc
Q psy16189        206 LTCPSCKVKR----KDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNA  248 (262)
Q Consensus       206 ~~C~iC~~~~----~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~  248 (262)
                      ..||+|...+    ..|..++|||..-..|+......+ ..||.|..
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~  204 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK  204 (276)
T ss_pred             CCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc
Confidence            4499999854    456778999999999999988877 88999988

>PF01576 Myosin_tail_1: Myosin tail; InterPro: IPR002928 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril

Probab=91.51  E-value=0.055  Score=54.48  Aligned_cols=65  Identities=20%  Similarity=0.208  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q psy16189         92 EEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTS  156 (262)
Q Consensus        92 ~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~  156 (262)
                      ++.-+.+...+..++.++.........+.+....+..++.++...++........+......++.
T Consensus       320 EeaKKkL~~~L~el~e~le~~~~~~~~LeK~k~rL~~EleDl~~eLe~~~~~~~~LeKKqr~fDk  384 (859)
T PF01576_consen  320 EEAKKKLERKLQELQEQLEEANAKVSSLEKTKKRLQGELEDLTSELEKAQAAAAELEKKQRKFDK  384 (859)
T ss_dssp             -----------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence            33344455555555555555544444444444445555555555555544444444333333333

Myosin is a major component of thick filaments and exists as a hexamer of 2 heavy chains [], 2 alkali light chains, and 2 regulatory light chains. The heavy chain can be subdivided into the N-terminal globular head and the C-terminal coiled-coil rod-like tail, although some forms have a globular region in their C-terminal. There are many cell-specific isoforms of myosin heavy chains, coded for by a multi-gene family []. Myosin interacts with actin to convert chemical energy, in the form of ATP, to mechanical energy []. The 3-D structure of the head portion of myosin has been determined [] and a model for actin-myosin complex has been constructed []. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament []. The coiled-coil region provides the structural backbone of the thick filament [].; GO: 0003774 motor activity, 0016459 myosin complex; PDB: 2LNK_C 3ZWH_Q.

>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE

Probab=91.40  E-value=0.05  Score=47.88  Aligned_cols=44  Identities=18%  Similarity=0.412  Sum_probs=30.8

Q ss_pred             cCcccccccccccceec----ccc--ccccHHHHHHHhccCCCCccCCCcc
Q psy16189        205 TLTCPSCKVKRKDAVLT----KCF--HVFCWDCLRTRYETRQRKCPKCNAA  249 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l----~Cg--H~fC~~Ci~~~~~~~~~~CP~Cr~~  249 (262)
                      .-.||||+....-.++.    .=|  |.+|+-|-..|-. ...+||+|+..
T Consensus       184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~-~R~~C~~Cg~~  233 (305)
T TIGR01562       184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHY-VRVKCSHCEES  233 (305)
T ss_pred             CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccc-cCccCCCCCCC
Confidence            35899999977544332    234  5569999888665 45679999874

The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=91.39  E-value=11  Score=34.20  Aligned_cols=52  Identities=15%  Similarity=0.258  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        130 AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTER  181 (262)
Q Consensus       130 ~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~  181 (262)
                      ...+..+......++.+.+.........+......+.++-++++..+.+++.
T Consensus       268 le~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~IseeLe~vK~emee  319 (359)
T PF10498_consen  268 LEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEISEELEQVKQEMEE  319 (359)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444444444555566666666665554

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

>KOG0994|consensus

Probab=91.36  E-value=20  Score=37.21  Aligned_cols=9  Identities=33%  Similarity=0.652  Sum_probs=3.4

Q ss_pred             HHHHHHHHH
Q psy16189        171 EIAQLRRKT  179 (262)
Q Consensus       171 e~~~l~~~~  179 (262)
                      ++..|..++
T Consensus      1732 eL~~Le~r~ 1740 (1758)
T KOG0994|consen 1732 ELAGLEKRV 1740 (1758)
T ss_pred             HhhhHHHHH
Confidence            333333333

>KOG0827|consensus

Probab=91.31  E-value=0.47  Score=42.62  Aligned_cols=47  Identities=23%  Similarity=0.347  Sum_probs=38.4

Q ss_pred             Ccccccccccccc----eeccccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        206 LTCPSCKVKRKDA----VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       206 ~~C~iC~~~~~~~----v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      -.|+||...++.-    --+.|||.+-..|+..|+.+ .++||.|+..+...
T Consensus       197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~-~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT-KRKLPSCRRELPKN  247 (465)
T ss_pred             hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH-HHHhHHHHhhhhhh
Confidence            3588988877543    45699999999999999997 67899999887654

>PF13248 zf-ribbon_3: zinc-ribbon domain

Probab=91.15  E-value=0.047  Score=29.51  Aligned_cols=23  Identities=30%  Similarity=0.853  Sum_probs=13.4

Q ss_pred             ccHHHHHHHhccCCCCccCCCccc
Q psy16189        227 FCWDCLRTRYETRQRKCPKCNAAF  250 (262)
Q Consensus       227 fC~~Ci~~~~~~~~~~CP~Cr~~~  250 (262)
                      +|..|-.. +..+.+.||.|+.++
T Consensus         4 ~Cp~Cg~~-~~~~~~fC~~CG~~L   26 (26)
T PF13248_consen    4 FCPNCGAE-IDPDAKFCPNCGAKL   26 (26)
T ss_pred             CCcccCCc-CCcccccChhhCCCC
Confidence            45555442 334566788888764

>KOG1815|consensus

Probab=91.12  E-value=0.17  Score=47.08  Aligned_cols=53  Identities=26%  Similarity=0.490  Sum_probs=38.5

Q ss_pred             cccCccccccccccc-ceeccccccccHHHHHHHhccCC-------CCc--cCCCcccCCCCc
Q psy16189        203 KETLTCPSCKVKRKD-AVLTKCFHVFCWDCLRTRYETRQ-------RKC--PKCNAAFGANDY  255 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~-~v~l~CgH~fC~~Ci~~~~~~~~-------~~C--P~Cr~~~~~~d~  255 (262)
                      .....|.||...+.. .+.+.|||.||..|...++....       .+|  +.|.+.++..++
T Consensus        68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i  130 (444)
T KOG1815|consen   68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTV  130 (444)
T ss_pred             CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCcee
Confidence            445889999998885 67779999999999999886531       235  456665554443

>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin

Probab=91.07  E-value=9.5  Score=32.99  Aligned_cols=59  Identities=20%  Similarity=0.256  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         93 EKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVV  151 (262)
Q Consensus        93 e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~  151 (262)
                      +.|+.++..+..+..++...+..+.........+...+..-+.+++..++++..++..-
T Consensus       162 ~iE~~l~~ai~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vR  220 (267)
T PF10234_consen  162 EIEKALKEAIKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVR  220 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            44555566666666666665555554444444445555556666666666666655433

Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].

>PF13240 zinc_ribbon_2: zinc-ribbon domain

Probab=91.05  E-value=0.047  Score=28.65  Aligned_cols=22  Identities=27%  Similarity=0.756  Sum_probs=11.9

Q ss_pred             cHHHHHHHhccCCCCccCCCccc
Q psy16189        228 CWDCLRTRYETRQRKCPKCNAAF  250 (262)
Q Consensus       228 C~~Ci~~~~~~~~~~CP~Cr~~~  250 (262)
                      |..|-... ..+...||.|+++|
T Consensus         2 Cp~CG~~~-~~~~~fC~~CG~~l   23 (23)
T PF13240_consen    2 CPNCGAEI-EDDAKFCPNCGTPL   23 (23)
T ss_pred             CcccCCCC-CCcCcchhhhCCcC
Confidence            44443332 23455688887764

>PF09728 Taxilin: Myosin-like coiled-coil protein; InterPro: IPR019132 Taxilin contains an extraordinarily long coiled-coil domain in its C-terminal half and is ubiquitously expressed

Probab=91.01  E-value=11  Score=33.47  Aligned_cols=61  Identities=18%  Similarity=0.228  Sum_probs=33.6

Q ss_pred             HHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         35 LLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKE   95 (262)
Q Consensus        35 ~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e   95 (262)
                      +.+.+++....+.++..+....+..+..+..+++.+..+........+++......|....
T Consensus        27 L~kk~~ell~e~k~~~k~~~~~~Kk~~~l~kek~~l~~E~~k~~~~k~KLE~LCRELQk~N   87 (309)
T PF09728_consen   27 LCKKYAELLEEMKRLQKQLKKLQKKQEQLQKEKDQLQSELSKAILAKSKLESLCRELQKQN   87 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555555555555556666666666666666666655555555554444444333

It is a novel binding partner of several syntaxin family members and is possibly involved in Ca(2+)-dependent exocytosis in neuroendocrine cells []. Gamma-taxilin, described as leucine zipper protein Factor Inhibiting ATF4-mediated Transcription (FIAT), localises to the nucleus in osteoblasts and dimerises with ATF4 to form inactive dimers, thus inhibiting ATF4-mediated transcription [].

>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ]

Probab=90.92  E-value=0.068  Score=48.02  Aligned_cols=56  Identities=23%  Similarity=0.498  Sum_probs=0.0

Q ss_pred             cCccccccccc-------------------ccceeccccccccHHHHHHHhcc----C----CCCccCCCcccCC-CCcc
Q psy16189        205 TLTCPSCKVKR-------------------KDAVLTKCFHVFCWDCLRTRYET----R----QRKCPKCNAAFGA-NDYH  256 (262)
Q Consensus       205 ~~~C~iC~~~~-------------------~~~v~l~CgH~fC~~Ci~~~~~~----~----~~~CP~Cr~~~~~-~d~~  256 (262)
                      ...||+|...-                   ...++-||||+.-.....-|...    +    +..||+|..++.. ..+.
T Consensus       328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g~~g~v  407 (416)
T PF04710_consen  328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDGEQGYV  407 (416)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccCCCCce
Confidence            58899999742                   11256699996544444333321    1    2459999999953 4455


Q ss_pred             cccc
Q psy16189        257 RLYL  260 (262)
Q Consensus       257 ~iy~  260 (262)
                      +++|
T Consensus       408 rLiF  411 (416)
T PF04710_consen  408 RLIF  411 (416)
T ss_dssp             ----
T ss_pred             EEEE
Confidence            5554

; PDB: 3EGB_B 3EGA_A.

>KOG1899|consensus

Probab=90.77  E-value=16  Score=35.19  Aligned_cols=83  Identities=22%  Similarity=0.196  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         59 LHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLE  138 (262)
Q Consensus        59 ~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~  138 (262)
                      ....+..+|+.|.-++.-|-.+++.+.+.|.-|+--....+.++..-|..+..---....++.+..++..++.+|+-.+.
T Consensus       112 rLaRLe~dkesL~LQvsvLteqVeaQgEKIrDLE~cie~kr~kLnatEEmLQqellsrtsLETqKlDLmaevSeLKLklt  191 (861)
T KOG1899|consen  112 RLARLEMDKESLQLQVSVLTEQVEAQGEKIRDLETCIEEKRNKLNATEEMLQQELLSRTSLETQKLDLMAEVSELKLKLT  191 (861)
T ss_pred             HHHHHhcchhhheehHHHHHHHHHHhhhhHHHHHHHHHHHHhhhchHHHHHHHHHHhhhhHHHHHhHHHHHHHHhHHHHH
Confidence            34455668999999999999999999999987765444444444444443332111112233344444444444444444


Q ss_pred             HHH
Q psy16189        139 KYH  141 (262)
Q Consensus       139 ~l~  141 (262)
                      .++
T Consensus       192 alE  194 (861)
T KOG1899|consen  192 ALE  194 (861)
T ss_pred             HHH
Confidence            443

>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=90.65  E-value=0.13  Score=38.91  Aligned_cols=22  Identities=23%  Similarity=0.311  Sum_probs=16.9

Q ss_pred             cccccccccceeccccccccHH
Q psy16189        209 PSCKVKRKDAVLTKCFHVFCWD  230 (262)
Q Consensus       209 ~iC~~~~~~~v~l~CgH~fC~~  230 (262)
                      .||...-+.++.-.|||.||..
T Consensus        61 fi~qs~~~rv~rcecghsf~d~   82 (165)
T COG4647          61 FICQSAQKRVIRCECGHSFGDY   82 (165)
T ss_pred             EEEecccccEEEEeccccccCh
Confidence            3677777766666999999975

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=90.51  E-value=20  Score=35.76  Aligned_cols=28  Identities=18%  Similarity=0.140  Sum_probs=12.9

Q ss_pred             HHhhhhhhHHHHHHHHHhhHHHHHHHHH
Q psy16189         37 QQLREKDDANFKLMTERIKSNQLHKLAR   64 (262)
Q Consensus        37 ~~l~e~e~~~~kl~~e~~ka~q~~~~~~   64 (262)
                      +++.+.+..+..+.++.+.+...+..+.
T Consensus       237 ~~L~~l~~ql~~a~~~~~~a~a~~~~l~  264 (754)
T TIGR01005       237 QQLAELNTELSRARANRAAAEGTADSVK  264 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444433

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

Probab=90.27  E-value=15  Score=33.87  Aligned_cols=69  Identities=12%  Similarity=0.022  Sum_probs=52.3

Q ss_pred             cchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q psy16189          6 VSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQV   74 (262)
Q Consensus         6 ~~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~   74 (262)
                      ....+...+..+|....+.+..++.+..++-.++...+..+.....+..+.++....+...+..+..+-
T Consensus        42 q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~  110 (420)
T COG4942          42 QIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQE  110 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHH
Confidence            356677788888888888888888888888888888888888877777777777777776666666555

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=90.25  E-value=0.32  Score=48.19  Aligned_cols=20  Identities=15%  Similarity=0.300  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q psy16189         63 AREEKDILHEQVNALKLQID   82 (262)
Q Consensus        63 ~~~~k~~l~~e~~~l~~~~~   82 (262)
                      +.+.+.-+..|+..|+.+++
T Consensus       404 Lerq~~L~~kE~d~LR~~L~  423 (722)
T PF05557_consen  404 LERQKALATKERDYLRAQLK  423 (722)
T ss_dssp             --------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444

The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.

>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines

Probab=90.16  E-value=0.14  Score=27.70  Aligned_cols=12  Identities=33%  Similarity=0.957  Sum_probs=6.6

Q ss_pred             CCCccCCCcccC
Q psy16189        240 QRKCPKCNAAFG  251 (262)
Q Consensus       240 ~~~CP~Cr~~~~  251 (262)
                      ...||.||..|.
T Consensus        14 ~~~Cp~CG~~F~   25 (26)
T PF10571_consen   14 AKFCPHCGYDFE   25 (26)
T ss_pred             cCcCCCCCCCCc
Confidence            345666665553

Several members are annotated as putative helicases.

>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking

Probab=90.14  E-value=12  Score=32.48  Aligned_cols=11  Identities=9%  Similarity=0.135  Sum_probs=5.5

Q ss_pred             Ccccccccccc
Q psy16189        206 LTCPSCKVKRK  216 (262)
Q Consensus       206 ~~C~iC~~~~~  216 (262)
                      ...+||+-++.
T Consensus       174 ~~~~I~~~~lp  184 (302)
T PF10186_consen  174 SEYTICGLPLP  184 (302)
T ss_pred             CCeeecCcccC
Confidence            34456655443

In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy

>KOG2462|consensus

Probab=90.08  E-value=0.1  Score=44.66  Aligned_cols=51  Identities=20%  Similarity=0.407  Sum_probs=33.9

Q ss_pred             cccCcccccccccccc---------eeccccccccHHHHHH-HhccC---------CCCccCCCcccCCC
Q psy16189        203 KETLTCPSCKVKRKDA---------VLTKCFHVFCWDCLRT-RYETR---------QRKCPKCNAAFGAN  253 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~---------v~l~CgH~fC~~Ci~~-~~~~~---------~~~CP~Cr~~~~~~  253 (262)
                      ...+.|++|...|...         -.++|--.||..-+.+ |+-++         ++.||.|++.|..+
T Consensus       159 ~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADR  228 (279)
T KOG2462|consen  159 KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADR  228 (279)
T ss_pred             cccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcch
Confidence            3457899999988542         2346666677766653 54433         45699999999643

>KOG0612|consensus

Probab=90.03  E-value=27  Score=36.42  Aligned_cols=45  Identities=11%  Similarity=0.099  Sum_probs=20.0

Q ss_pred             HhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         38 QLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQID   82 (262)
Q Consensus        38 ~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~   82 (262)
                      .+.+.+..+.....++-++......+.++.+.+...+.++...++
T Consensus       495 ~~ke~~ek~~~~~~~~~~l~~~~~~~~eele~~q~~~~~~~~~~~  539 (1317)
T KOG0612|consen  495 EQKEVEEKLSEEEAKKRKLEALVRQLEEELEDAQKKNDNAADSLE  539 (1317)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344444444444444444444444444444444444444433333

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=89.98  E-value=17  Score=34.19  Aligned_cols=19  Identities=37%  Similarity=0.221  Sum_probs=7.1

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q psy16189         60 HKLAREEKDILHEQVNALK   78 (262)
Q Consensus        60 ~~~~~~~k~~l~~e~~~l~   78 (262)
                      +..+..+...+......++
T Consensus       213 l~~~~~~l~~~~a~~~~l~  231 (498)
T TIGR03007       213 LEAARLELNEAIAQRDALK  231 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333

Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.

>KOG0288|consensus

Probab=89.96  E-value=15  Score=33.54  Aligned_cols=68  Identities=21%  Similarity=0.254  Sum_probs=53.3

Q ss_pred             HHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         34 RLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTV  101 (262)
Q Consensus        34 ~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~  101 (262)
                      .+..+..+.+..+.+|..+++...+++..+..++..+.++-+++++.+....-.+.+|++....+...
T Consensus         3 ~~~s~~s~~dqr~~~~~~~laq~~k~~s~~~aq~~~~~a~~~ai~a~~~~~E~~l~~Lq~e~~~l~e~   70 (459)
T KOG0288|consen    3 PLYSQKSENDQRLIDLNTELAQCEKAQSRLSAQLVILRAESRAIKAKLQEKELELNRLQEENTQLNEE   70 (459)
T ss_pred             hhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35566778888899999999999999999999999999999988887777666666666655554433

>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures

Probab=89.90  E-value=4.8  Score=27.64  Aligned_cols=28  Identities=18%  Similarity=0.336  Sum_probs=11.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        126 SAQSAADLKLHLEKYHAQLKEAQQVVTE  153 (262)
Q Consensus       126 ~~~~~~~l~~~l~~l~~~~~~~~~~~~~  153 (262)
                      +...+..|+..+..+...+..+...+..
T Consensus        31 ~~~~IKKLr~~~~e~e~~~~~l~~~~~~   58 (74)
T PF12329_consen   31 LNNTIKKLRAKIKELEKQIKELKKKLEE   58 (74)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444444433333

The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.

>PF13863 DUF4200: Domain of unknown function (DUF4200)

Probab=89.85  E-value=6.9  Score=29.43  Aligned_cols=84  Identities=18%  Similarity=0.228  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         18 MEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERY   97 (262)
Q Consensus        18 ie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~   97 (262)
                      ++.+..-|+.+......+-..+..-+..+..--..+.+|.+....-...+.....++..|..+++.....+.++.+.-..
T Consensus        27 ~~~~~~~e~~L~~~e~~l~~~~~~f~~flken~~k~~rA~k~a~~e~k~~~~k~~ei~~l~~~l~~l~~~~~k~e~~l~~  106 (126)
T PF13863_consen   27 EEQLKQREEELEKKEQELEEDVIKFDKFLKENEAKRERAEKRAEEEKKKKEEKEAEIKKLKAELEELKSEISKLEEKLEE  106 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555666666666666666666667766666666677777777777777777766666666665554


Q ss_pred             HHHH
Q psy16189         98 LQTV  101 (262)
Q Consensus        98 l~~~  101 (262)
                      +...
T Consensus       107 ~~~Y  110 (126)
T PF13863_consen  107 YKKY  110 (126)
T ss_pred             HHHH
Confidence            4433

>PF09728 Taxilin: Myosin-like coiled-coil protein; InterPro: IPR019132 Taxilin contains an extraordinarily long coiled-coil domain in its C-terminal half and is ubiquitously expressed

Probab=89.75  E-value=14  Score=32.77  Aligned_cols=20  Identities=25%  Similarity=0.360  Sum_probs=8.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q psy16189         87 AIRKLEEKERYLQTVLTNVE  106 (262)
Q Consensus        87 ~i~~l~e~e~~l~~~i~~le  106 (262)
                      .+..+.+.+..++.++....
T Consensus       203 ~~~~~~~~E~~Lr~QL~~Y~  222 (309)
T PF09728_consen  203 QVQTLKETEKELREQLNLYS  222 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444333

It is a novel binding partner of several syntaxin family members and is possibly involved in Ca(2+)-dependent exocytosis in neuroendocrine cells []. Gamma-taxilin, described as leucine zipper protein Factor Inhibiting ATF4-mediated Transcription (FIAT), localises to the nucleus in osteoblasts and dimerises with ATF4 to form inactive dimers, thus inhibiting ATF4-mediated transcription [].

>KOG1962|consensus

Probab=89.71  E-value=10  Score=31.67  Aligned_cols=15  Identities=27%  Similarity=0.461  Sum_probs=5.6

Q ss_pred             HHHHHHHHHHHHHHH
Q psy16189        168 LQEEIAQLRRKTERM  182 (262)
Q Consensus       168 ~e~e~~~l~~~~~~~  182 (262)
                      +..|.+++-.+..++
T Consensus       191 ~~~EydrLlee~~~L  205 (216)
T KOG1962|consen  191 LQDEYDRLLEEYSKL  205 (216)
T ss_pred             cccHHHHHHHHHHHH
Confidence            333333333333333

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=89.69  E-value=13  Score=32.45  Aligned_cols=13  Identities=15%  Similarity=0.468  Sum_probs=6.0

Q ss_pred             HHHHHHHHHHHHH
Q psy16189         66 EKDILHEQVNALK   78 (262)
Q Consensus        66 ~k~~l~~e~~~l~   78 (262)
                      .++.|+.++.+.+
T Consensus        85 ~kerLEtEiES~r   97 (305)
T PF14915_consen   85 NKERLETEIESYR   97 (305)
T ss_pred             HHHHHHHHHHHHH
Confidence            3444444444443

>KOG4673|consensus

Probab=89.21  E-value=23  Score=34.61  Aligned_cols=36  Identities=8%  Similarity=0.135  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         77 LKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLR  112 (262)
Q Consensus        77 l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~  112 (262)
                      ++..+.+....+.+.++-....+..+..|+.++...
T Consensus       521 ~~E~I~k~~ae~~rq~~~~~~sr~~~~~le~~~~a~  556 (961)
T KOG4673|consen  521 LQETIEKHQAELTRQKDYYSNSRALAAALEAQALAE  556 (961)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence            344444555555555544444555555555554443

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=89.18  E-value=20  Score=33.77  Aligned_cols=10  Identities=20%  Similarity=0.149  Sum_probs=3.6

Q ss_pred             HHHHHHHHhh
Q psy16189         31 QNSRLLQQLR   40 (262)
Q Consensus        31 q~~~~~~~l~   40 (262)
                      +...+-.++.
T Consensus       169 ql~~~~~~L~  178 (498)
T TIGR03007       169 QIKTYEKKLE  178 (498)
T ss_pred             HHHHHHHHHH
Confidence            3333333333

Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.

>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=89.16  E-value=0.025  Score=38.27  Aligned_cols=33  Identities=24%  Similarity=0.382  Sum_probs=17.8

Q ss_pred             cCcccccccccccc----eeccccccccHHHHHHHhc
Q psy16189        205 TLTCPSCKVKRKDA----VLTKCFHVFCWDCLRTRYE  237 (262)
Q Consensus       205 ~~~C~iC~~~~~~~----v~l~CgH~fC~~Ci~~~~~  237 (262)
                      ...|.+|...|.-.    ..-.||++||..|......
T Consensus         9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~~   45 (69)
T PF01363_consen    9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRIP   45 (69)
T ss_dssp             -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEEE
T ss_pred             CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEEc
Confidence            47799999998321    3349999999999876553

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 FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=89.07  E-value=31  Score=35.92  Aligned_cols=15  Identities=20%  Similarity=0.589  Sum_probs=9.6

Q ss_pred             HhccccCcccccccc
Q psy16189        200 REYKETLTCPSCKVK  214 (262)
Q Consensus       200 ~~~~~~~~C~iC~~~  214 (262)
                      ..+...-.||||+..
T Consensus       498 ~~L~~GePCPVCGS~  512 (1047)
T PRK10246        498 AQLQAGQPCPLCGST  512 (1047)
T ss_pred             HhCCCCCCcCCCCcc
Confidence            345566667777764

>KOG0018|consensus

Probab=88.91  E-value=30  Score=35.53  Aligned_cols=70  Identities=19%  Similarity=0.261  Sum_probs=40.9

Q ss_pred             hhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         41 EKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHL  111 (262)
Q Consensus        41 e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~  111 (262)
                      +++..+.+ ..+.+++.+.+..+......+...+...+.....+...|.+++.....+...-..+++++..
T Consensus       280 ~ke~~l~e-rp~li~~ke~~~~~k~rl~~~~k~i~~~kk~~~~~~~~ie~~ek~l~av~~~~~~fekei~~  349 (1141)
T KOG0018|consen  280 EKEEKLAE-RPELIKVKENASHLKKRLEEIEKDIETAKKDYRALKETIERLEKELKAVEGAKEEFEKEIEE  349 (1141)
T ss_pred             HHHHHHhh-hhHHhhcchhhccchhHHHHhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444 44556666666666666666666666666666666666666666555555554555554443

>KOG3564|consensus

Probab=88.89  E-value=6.5  Score=36.60  Aligned_cols=82  Identities=21%  Similarity=0.185  Sum_probs=70.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         15 LNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEK   94 (262)
Q Consensus        15 ~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~   94 (262)
                      ..|+..+...|++..+--.++-.++.+.++.+.|...+..-.+-+.+.++...++...+++.+....++....|..+++.
T Consensus        27 e~ef~rl~k~fed~~ek~~r~~ae~~~~~~~L~Ka~tk~~~ldvklkha~~~vda~ik~rr~ae~d~~~~E~~i~~i~d~  106 (604)
T KOG3564|consen   27 EDEFIRLRKDFEDFEEKWKRTDAELGKYKDLLAKAETKRSALDVKLKHARNQVDAEIKRRRRAEADCEKLETQIQLIKDM  106 (604)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            56888888999999999999999999999999999988888899999999888888888888888888877777777764


Q ss_pred             HH
Q psy16189         95 ER   96 (262)
Q Consensus        95 e~   96 (262)
                      -+
T Consensus       107 l~  108 (604)
T KOG3564|consen  107 LK  108 (604)
T ss_pred             Hh
Confidence            33

>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication

Probab=88.86  E-value=4.9  Score=29.72  Aligned_cols=51  Identities=22%  Similarity=0.239  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         97 YLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEA  147 (262)
Q Consensus        97 ~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~  147 (262)
                      .+-..+..++.++..+-..+..++..+.++..+...|+.+.+.++..+.+.
T Consensus         5 ~l~~~l~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~   55 (107)
T PF06156_consen    5 ELFDRLDQLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRERLEEL   55 (107)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566666666666666666666666666666666666655555555444

SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.

>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins

Probab=88.83  E-value=0.041  Score=40.20  Aligned_cols=47  Identities=26%  Similarity=0.445  Sum_probs=16.2

Q ss_pred             Cccccccccc--ccceeccc--cccc--cHHHHHHHhccCCCCccCCCcccCC
Q psy16189        206 LTCPSCKVKR--KDAVLTKC--FHVF--CWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       206 ~~C~iC~~~~--~~~v~l~C--gH~f--C~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      -.|++|...+  .++....|  ||+|  |.-=.-.......+.||.|+..+..
T Consensus        15 E~C~~C~~~i~~~~~~~~~C~~GH~w~RC~lT~l~i~~~~~r~C~~C~~~~l~   67 (99)
T PF12660_consen   15 EKCPICGAPIPFDDLDEAQCENGHVWPRCALTFLPIQTPGVRVCPVCGRRALD   67 (99)
T ss_dssp             --------------SSEEE-TTS-EEEB-SSS-SBS-SS-EEE-TTT--EEE-
T ss_pred             ccccccccccccCCcCEeECCCCCEEeeeeeeeeeeccCCeeEcCCCCCEEec
Confidence            5699999854  55555656  8888  5544444444455779999987744

This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.

>PF14353 CpXC: CpXC protein

Probab=88.80  E-value=0.44  Score=36.30  Aligned_cols=47  Identities=21%  Similarity=0.306  Sum_probs=27.0

Q ss_pred             CcccccccccccceeccccccccHHHHHHHhccC--CCCccCCCcccCC
Q psy16189        206 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETR--QRKCPKCNAAFGA  252 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~~  252 (262)
                      ++||.|+..|.-.+-+.-.-..=..=....+...  ...||.||..|..
T Consensus         2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~   50 (128)
T PF14353_consen    2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRL   50 (128)
T ss_pred             cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceec
Confidence            6899999887654433222222223334433322  2459999998865

>smart00787 Spc7 Spc7 kinetochore protein

Probab=88.78  E-value=17  Score=32.34  Aligned_cols=12  Identities=17%  Similarity=0.448  Sum_probs=4.6

Q ss_pred             HHHHHHHHHHHH
Q psy16189        172 IAQLRRKTERMK  183 (262)
Q Consensus       172 ~~~l~~~~~~~~  183 (262)
                      +..|+.++..++
T Consensus       273 i~~Lk~~~~~Le  284 (312)
T smart00787      273 IEKLKEQLKLLQ  284 (312)
T ss_pred             HHHHHHHHHHHH
Confidence            333444433333

This domain is found in cell division proteins which are required for kinetochore-spindle association.

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=88.76  E-value=0.44  Score=37.57  Aligned_cols=48  Identities=23%  Similarity=0.457  Sum_probs=34.4

Q ss_pred             ccCcccccccccccceecccccc-----ccHHHHHHHhccC-CCCccCCCcccCC
Q psy16189        204 ETLTCPSCKVKRKDAVLTKCFHV-----FCWDCLRTRYETR-QRKCPKCNAAFGA  252 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~v~l~CgH~-----fC~~Ci~~~~~~~-~~~CP~Cr~~~~~  252 (262)
                      ....|-||..... +..-||.-.     .-.+|+..|+..+ ...||.|+.+|..
T Consensus         7 ~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i   60 (162)
T PHA02825          7 MDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI   60 (162)
T ss_pred             CCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence            3467999998754 334566421     2589999999864 4569999999854

>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain

Probab=88.68  E-value=0.19  Score=37.46  Aligned_cols=10  Identities=50%  Similarity=1.414  Sum_probs=5.0

Q ss_pred             CCCCccCCCc
Q psy16189        239 RQRKCPKCNA  248 (262)
Q Consensus       239 ~~~~CP~Cr~  248 (262)
                      +++.||.|+.
T Consensus        59 k~R~CP~C~~   68 (111)
T PF14319_consen   59 KNRHCPSCQA   68 (111)
T ss_pred             cCcCCCCCCC
Confidence            3345555554

>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional

Probab=88.45  E-value=0.16  Score=44.81  Aligned_cols=43  Identities=21%  Similarity=0.388  Sum_probs=30.5

Q ss_pred             cCccccccccccccee-c--ccc--ccccHHHHHHHhccCCCCccCCCc
Q psy16189        205 TLTCPSCKVKRKDAVL-T--KCF--HVFCWDCLRTRYETRQRKCPKCNA  248 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~-l--~Cg--H~fC~~Ci~~~~~~~~~~CP~Cr~  248 (262)
                      .-.||||+..+.-.++ +  .=|  |.+|+-|-..|-- ....||.|+.
T Consensus       187 ~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~-~R~~C~~Cg~  234 (309)
T PRK03564        187 RQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHV-VRVKCSNCEQ  234 (309)
T ss_pred             CCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccc-cCccCCCCCC
Confidence            4789999998754433 2  234  4459999888665 4567999986

>KOG0982|consensus

Probab=88.07  E-value=21  Score=32.78  Aligned_cols=173  Identities=21%  Similarity=0.179  Sum_probs=84.1

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----hhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH--H
Q psy16189         10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLRE----KDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQID--A   83 (262)
Q Consensus        10 ~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e----~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~--~   83 (262)
                      .++.|..=|+.-.--|+.--.-..+.|+++.+    -.|.-.+++.|.......|-.+.+...  +.+..+-.+-.+  .
T Consensus       205 tedl~~e~mee~r~di~~kv~flerkv~eledd~~~~gd~~SrlkqEnlqLvhR~h~LEEq~r--eqElraeE~l~Ee~r  282 (502)
T KOG0982|consen  205 TEDLLVEGMEEERIDIERKVRFLERKVQELEDDQNIAGDRSSRLKQENLQLVHRYHMLEEQRR--EQELRAEESLSEEER  282 (502)
T ss_pred             hhhhhhhhhhchhhhHHHHHHHHHHHHHHhhcchhccccchhHHHHHHHHHHHHHHHHHHHHH--hhhhhHHHHHHHHHH
Confidence            34444444555544555555555566666654    455667777777766666655543221  111111111111  1


Q ss_pred             HHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q psy16189         84 MHTAIRKLEEKERY-----LQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSL  158 (262)
Q Consensus        84 ~~~~i~~l~e~e~~-----l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~l  158 (262)
                      -...|--..++++.     ++.++..|+.+...++..+..++--..++.......-..++.+..++...+.........|
T Consensus       283 rhrEil~k~eReasle~Enlqmr~qqleeentelRs~~arlksl~dklaee~qr~sd~LE~lrlql~~eq~l~~rm~d~L  362 (502)
T KOG0982|consen  283 RHREILIKKEREASLEKENLQMRDQQLEEENTELRSLIARLKSLADKLAEEDQRSSDLLEALRLQLICEQKLRVRMNDIL  362 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            11222222232222     3445556666666655555544444444443333344445555555555554444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        159 EAEAYKTKRLQEEIAQLRRKTERMKK  184 (262)
Q Consensus       159 e~~~~~~~~~e~e~~~l~~~~~~~~~  184 (262)
                      -.........++-+..+++.+++++-
T Consensus       363 rrfq~ekeatqELieelrkelehlr~  388 (502)
T KOG0982|consen  363 RRFQEEKEATQELIEELRKELEHLRR  388 (502)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence            44444555555566777777776654

>KOG2979|consensus

Probab=88.04  E-value=16  Score=31.27  Aligned_cols=45  Identities=22%  Similarity=0.305  Sum_probs=36.1

Q ss_pred             cCccccccccccccee-ccccccccHHHHHHHhcc-CCCCccCCCcc
Q psy16189        205 TLTCPSCKVKRKDAVL-TKCFHVFCWDCLRTRYET-RQRKCPKCNAA  249 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~-l~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~  249 (262)
                      .++||+-..++.+|++ ..|||+|=.+-+...+.. ....||+=+.+
T Consensus       176 s~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~  222 (262)
T KOG2979|consen  176 SNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE  222 (262)
T ss_pred             cccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence            5789999999999965 599999999999987753 24569986665

>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]

Probab=88.03  E-value=23  Score=33.07  Aligned_cols=31  Identities=13%  Similarity=0.263  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         81 IDAMHTAIRKLEEKERYLQTVLTNVEKELHL  111 (262)
Q Consensus        81 ~~~~~~~i~~l~e~e~~l~~~i~~lekel~~  111 (262)
                      ..+....+..++.+...+...+..|..++..
T Consensus       311 ~nk~~~~~~~mk~K~~~~~g~l~kl~~eie~  341 (622)
T COG5185         311 SNKYENYVNAMKQKSQEWPGKLEKLKSEIEL  341 (622)
T ss_pred             HHHHHHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            3333333333333333344444444443333

>KOG1428|consensus

Probab=87.86  E-value=0.34  Score=50.37  Aligned_cols=47  Identities=28%  Similarity=0.610  Sum_probs=32.5

Q ss_pred             cCccccccccc---ccceeccccccccHHHHHHHhccC---C------CCccCCCcccC
Q psy16189        205 TLTCPSCKVKR---KDAVLTKCFHVFCWDCLRTRYETR---Q------RKCPKCNAAFG  251 (262)
Q Consensus       205 ~~~C~iC~~~~---~~~v~l~CgH~fC~~Ci~~~~~~~---~------~~CP~Cr~~~~  251 (262)
                      +.-|-||...-   ...+.+.|||+|-..|....+..|   +      ..||.|..++.
T Consensus      3486 DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3486 DDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             CceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            34466676543   234678999999999987766543   2      23999988774

>PF07058 Myosin_HC-like: Myosin II heavy chain-like; InterPro: IPR009768 This family represents a conserved region within a number of myosin II heavy chain-like proteins that seem to be specific to Arabidopsis thaliana

Probab=87.77  E-value=18  Score=31.69  Aligned_cols=46  Identities=24%  Similarity=0.307  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HhhCCchHHHHHHHHhccccCccc
Q psy16189        164 KTKRLQEEIAQLRRKTERMKKI-EQAGTLDEVMMEEIREYKETLTCP  209 (262)
Q Consensus       164 ~~~~~e~e~~~l~~~~~~~~~~-~~~~~~~~~l~~e~~~~~~~~~C~  209 (262)
                      ..+-++-|++.|+.++.-.... .......+.+.--+..++..+..+
T Consensus       116 ERR~lQgEmQ~LrDKLAiaERtAkaEaQLkeK~klRLK~LEe~Lk~~  162 (351)
T PF07058_consen  116 ERRFLQGEMQQLRDKLAIAERTAKAEAQLKEKLKLRLKVLEEGLKGS  162 (351)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCC
Confidence            3456677777777776555443 112222344444555555555544

>KOG3268|consensus

Probab=87.70  E-value=0.34  Score=38.74  Aligned_cols=32  Identities=28%  Similarity=0.579  Sum_probs=25.3

Q ss_pred             ccccccccHHHHHHHhcc----CC------CCccCCCcccCC
Q psy16189        221 TKCFHVFCWDCLRTRYET----RQ------RKCPKCNAAFGA  252 (262)
Q Consensus       221 l~CgH~fC~~Ci~~~~~~----~~------~~CP~Cr~~~~~  252 (262)
                      ..||..|-.-|+..|++.    |+      ..||+|..|+..
T Consensus       188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            489999999999999873    22      239999888754

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=87.53  E-value=6.9  Score=26.49  Aligned_cols=14  Identities=21%  Similarity=0.555  Sum_probs=7.2

Q ss_pred             HHHHHHHHHHHHHH
Q psy16189         70 LHEQVNALKLQIDA   83 (262)
Q Consensus        70 l~~e~~~l~~~~~~   83 (262)
                      |+.++.+|+..++.
T Consensus         3 Lea~~~~Lr~rLd~   16 (69)
T PF14197_consen    3 LEAEIATLRNRLDS   16 (69)
T ss_pred             HHHHHHHHHHHHHH
Confidence            44555555554444

>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production

Probab=87.42  E-value=0.31  Score=34.77  Aligned_cols=36  Identities=22%  Similarity=0.520  Sum_probs=27.7

Q ss_pred             CcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        206 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      -.|.+|......+     ||.||..|...     .-.|+.|+..+.
T Consensus        45 ~~C~~CK~~v~q~-----g~~YCq~CAYk-----kGiCamCGKki~   80 (90)
T PF10235_consen   45 SKCKICKTKVHQP-----GAKYCQTCAYK-----KGICAMCGKKIL   80 (90)
T ss_pred             ccccccccccccC-----CCccChhhhcc-----cCcccccCCeec
Confidence            4688888755544     89999999664     346999999884

This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].

>KOG1952|consensus

Probab=87.27  E-value=0.33  Score=47.73  Aligned_cols=46  Identities=24%  Similarity=0.696  Sum_probs=36.2

Q ss_pred             cCcccccccccccc----eeccccccccHHHHHHHhcc------CCCCccCCCccc
Q psy16189        205 TLTCPSCKVKRKDA----VLTKCFHVFCWDCLRTRYET------RQRKCPKCNAAF  250 (262)
Q Consensus       205 ~~~C~iC~~~~~~~----v~l~CgH~fC~~Ci~~~~~~------~~~~CP~Cr~~~  250 (262)
                      .+.|.||.+.++..    ....|+|+|-..||..|-.+      +.+.||.|....
T Consensus       191 ~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~  246 (950)
T KOG1952|consen  191 KYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS  246 (950)
T ss_pred             ceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence            47899999988653    23489999999999999875      346799998533

>PHA02862 5L protein; Provisional

Probab=87.07  E-value=0.58  Score=36.25  Aligned_cols=46  Identities=15%  Similarity=0.366  Sum_probs=33.2

Q ss_pred             Ccccccccccccceeccccc-----cccHHHHHHHhccC-CCCccCCCcccCC
Q psy16189        206 LTCPSCKVKRKDAVLTKCFH-----VFCWDCLRTRYETR-QRKCPKCNAAFGA  252 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~CgH-----~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~  252 (262)
                      ..|-||...-.+. .-||+-     ..-.+|+..|+... ...||.|+.++..
T Consensus         3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            4688999876444 456642     23689999999754 4569999999853

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=86.85  E-value=0.26  Score=48.72  Aligned_cols=18  Identities=22%  Similarity=0.593  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q psy16189        165 TKRLQEEIAQLRRKTERM  182 (262)
Q Consensus       165 ~~~~e~e~~~l~~~~~~~  182 (262)
                      ..+++.+++.++++++.+
T Consensus       310 ~~klE~~ve~YKkKLed~  327 (713)
T PF05622_consen  310 ADKLENEVEKYKKKLEDL  327 (713)
T ss_dssp             ------------------
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            344444444444444433

The different members of the Homo sapiens gene family are HOOK1, HOOK2 and HOOK3. Different domains have been identified in the three Homo sapiens HOOK proteins, and it was demonstrated that the highly conserved NH2-domain mediates attachment to microtubules, whereas the central coiled-coil motif mediates homodimerisation and the more divergent C-terminal domains are involved in binding to specific organelles (organelle-binding domains). It has been demonstrated that endogenous HOOK3 binds to Golgi membranes [], whereas both HOOK1 and HOOK2 are localised to discrete but unidentified cellular structures. In mice the Hook1 gene is predominantly expressed in the testis. Hook1 function is necessary for the correct positioning of microtubular structures within the haploid germ cell. Disruption of Hook1 function in mice causes abnormal sperm head shape and fragile attachment of the flagellum to the sperm head [].; GO: 0008017 microtubule binding, 0000226 microtubule cytoskeleton organization, 0005737 cytoplasm; PDB: 1WIX_A.

>PRK13169 DNA replication intiation control protein YabA; Reviewed

Probab=86.84  E-value=7.6  Score=28.87  Aligned_cols=51  Identities=20%  Similarity=0.278  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         97 YLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEA  147 (262)
Q Consensus        97 ~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~  147 (262)
                      .+-..+..++.++..+-..+..++..+.++..+...|+.+.+.++..+.++
T Consensus         5 elfd~l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~   55 (110)
T PRK13169          5 EIFDALDDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEEL   55 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            345566666666666666666666666666666666666666555555543

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=86.57  E-value=12  Score=28.47  Aligned_cols=13  Identities=23%  Similarity=0.450  Sum_probs=5.2

Q ss_pred             HHHHHHHHHHHHH
Q psy16189         98 LQTVLTNVEKELH  110 (262)
Q Consensus        98 l~~~i~~lekel~  110 (262)
                      +..+|+.+...+.
T Consensus        66 LsqRId~vd~klD   78 (126)
T PF07889_consen   66 LSQRIDRVDDKLD   78 (126)
T ss_pred             HHHHHHHHHhhHH
Confidence            3344444444333

The region featured in this family is approximately 100 amino acids long.

>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center

Probab=86.49  E-value=0.49  Score=27.03  Aligned_cols=11  Identities=36%  Similarity=0.845  Sum_probs=8.4

Q ss_pred             CCCCccCCCcc
Q psy16189        239 RQRKCPKCNAA  249 (262)
Q Consensus       239 ~~~~CP~Cr~~  249 (262)
                      ....||.|+.+
T Consensus        16 ~~~~CP~Cg~~   26 (33)
T cd00350          16 APWVCPVCGAP   26 (33)
T ss_pred             CCCcCcCCCCc
Confidence            45679999874

The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.

>KOG0979|consensus

Probab=86.46  E-value=41  Score=34.38  Aligned_cols=27  Identities=15%  Similarity=0.244  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         57 NQLHKLAREEKDILHEQVNALKLQIDA   83 (262)
Q Consensus        57 ~q~~~~~~~~k~~l~~e~~~l~~~~~~   83 (262)
                      +..|.+.+..++.+..+++.+......
T Consensus       247 ~~ey~~~k~~~~r~k~~~r~l~k~~~p  273 (1072)
T KOG0979|consen  247 DREYNAYKQAKDRAKKELRKLEKEIKP  273 (1072)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            444444444444444444444443333

>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []

Probab=86.42  E-value=8.9  Score=26.69  Aligned_cols=68  Identities=13%  Similarity=0.212  Sum_probs=36.2

Q ss_pred             cchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          6 VSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDA   83 (262)
Q Consensus         6 ~~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~   83 (262)
                      .-++|.+++..|.-.....-++++....+-++.+......+..|...-.+.+          ..-+.|+..|+.+++.
T Consensus         8 ~ir~Ef~~~~~e~~~~k~~~~e~e~ki~~Qi~Em~~ir~~v~eLE~~h~kmK----------~~YEeEI~rLr~eLe~   75 (79)
T PF08581_consen    8 AIRQEFENLSQEANSYKHQKDEYEHKINSQIQEMQQIRQKVYELEQAHRKMK----------QQYEEEIARLRRELEQ   75 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHCH
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHh
Confidence            3344444444444444447777776655555555555555555544444433          3345666666666543

; PDB: 3VP9_B 3VP8_B.

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=86.41  E-value=51  Score=35.42  Aligned_cols=50  Identities=10%  Similarity=0.106  Sum_probs=25.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         54 IKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLT  103 (262)
Q Consensus        54 ~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~  103 (262)
                      ..+...+..+..+...+..++...+.........+..++.....+...+.
T Consensus       272 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~l~~~~~  321 (1353)
T TIGR02680       272 RSAQTQYDQLSRDLGRARDELETAREEERELDARTEALEREADALRTRLE  321 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555555555555555555555555444444444433

Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length.

>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []

Probab=86.38  E-value=12  Score=28.23  Aligned_cols=32  Identities=19%  Similarity=0.077  Sum_probs=12.8

Q ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         50 MTERIKSNQLHKLAREEKDILHEQVNALKLQI   81 (262)
Q Consensus        50 ~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~   81 (262)
                      -.|+.-...-+..+...++.+..|+-.|-..+
T Consensus        29 E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~   60 (120)
T PF12325_consen   29 EGELASLQEELARLEAERDELREEIVKLMEEN   60 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333334444444444444444333

The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].

>KOG1812|consensus

Probab=86.37  E-value=0.74  Score=42.06  Aligned_cols=41  Identities=27%  Similarity=0.566  Sum_probs=29.0

Q ss_pred             cccCccccccccccc-----ceeccccccccHHHHHHHhccCCCCcc
Q psy16189        203 KETLTCPSCKVKRKD-----AVLTKCFHVFCWDCLRTRYETRQRKCP  244 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~-----~v~l~CgH~fC~~Ci~~~~~~~~~~CP  244 (262)
                      ..|..||.|...+.-     .++=.|||-||+.|...|.. +...|+
T Consensus       304 ~~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~-~~~~~~  349 (384)
T KOG1812|consen  304 KRWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKT-HNGECY  349 (384)
T ss_pred             HhcCcCcccceeeeecCCcceEEeeccccchhhcCcchhh-CCcccc
Confidence            678999999987521     23335999999999988665 334453

>PRK14714 DNA polymerase II large subunit; Provisional

Probab=86.21  E-value=0.33  Score=49.88  Aligned_cols=50  Identities=22%  Similarity=0.531  Sum_probs=34.4

Q ss_pred             cCcccccccccccceecccccc-----ccHHHHHHHhcc--CCCCccCCCcccCCCC
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHV-----FCWDCLRTRYET--RQRKCPKCNAAFGAND  254 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~-----fC~~Ci~~~~~~--~~~~CP~Cr~~~~~~d  254 (262)
                      .+.||-|........+..||+.     +|..|-......  ....||.|+.++....
T Consensus       667 ~rkCPkCG~~t~~~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv~~~  723 (1337)
T PRK14714        667 RRRCPSCGTETYENRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELTPYQ  723 (1337)
T ss_pred             EEECCCCCCccccccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCcccccc
Confidence            3789999986555566789855     399997653221  1346999999886543

>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp

Probab=86.10  E-value=22  Score=30.84  Aligned_cols=74  Identities=8%  Similarity=0.216  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q psy16189         83 AMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEA  160 (262)
Q Consensus        83 ~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~  160 (262)
                      ++++...+|.+++.    .|..|..||..++++--..+=.-+|.+=.+.+.+.++.+++.-++..+..+.++++-+.+
T Consensus        76 kLkes~~~l~dRet----EI~eLksQL~RMrEDWIEEECHRVEAQLALKEARkEIkQLkQvieTmrssL~ekDkGiQK  149 (305)
T PF15290_consen   76 KLKESENRLHDRET----EIDELKSQLARMREDWIEEECHRVEAQLALKEARKEIKQLKQVIETMRSSLAEKDKGIQK  149 (305)
T ss_pred             HHHHHHHHHHhhHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhhHHH
Confidence            33344444444332    355666666666554332222223333335555555555555555555555555554443

>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch

Probab=86.01  E-value=15  Score=28.74  Aligned_cols=16  Identities=19%  Similarity=0.478  Sum_probs=8.9

Q ss_pred             HHHHHHHHHHHHHHHH
Q psy16189        164 KTKRLQEEIAQLRRKT  179 (262)
Q Consensus       164 ~~~~~e~e~~~l~~~~  179 (262)
                      .+++.+.++++|+.++
T Consensus       134 e~rkke~E~~kLk~rL  149 (151)
T PF11559_consen  134 ELRKKEREIEKLKERL  149 (151)
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            4455555666665543

pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.

>KOG1850|consensus

Probab=85.92  E-value=24  Score=31.19  Aligned_cols=47  Identities=26%  Similarity=0.199  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHH
Q psy16189         19 EVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLARE   65 (262)
Q Consensus        19 e~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~   65 (262)
                      ++=+-|.+.+|.....--..+.+.+..+.+|..+.++..+++..+-.
T Consensus       105 erRkea~~~fqvtL~diqktla~~~~~n~klre~NieL~eKlkeL~e  151 (391)
T KOG1850|consen  105 ERRKEAVEQFQVTLKDIQKTLAEGRSKNDKLREDNIELSEKLKELGE  151 (391)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHHH
Confidence            34444555555444444455555555555555555555444444433

>KOG0612|consensus

Probab=85.91  E-value=48  Score=34.65  Aligned_cols=9  Identities=22%  Similarity=0.545  Sum_probs=3.7

Q ss_pred             HHHHHHHHH
Q psy16189        102 LTNVEKELH  110 (262)
Q Consensus       102 i~~lekel~  110 (262)
                      +..+.+++.
T Consensus       541 v~~~rk~le  549 (1317)
T KOG0612|consen  541 VNSLRKQLE  549 (1317)
T ss_pred             HHHHHHHHH
Confidence            333444444

>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function

Probab=85.16  E-value=8.8  Score=25.87  Aligned_cols=41  Identities=12%  Similarity=0.215  Sum_probs=14.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        102 LTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHA  142 (262)
Q Consensus       102 i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~  142 (262)
                      |..||..+.-....++.+..-+.+..+.+..+..++..+..
T Consensus         6 i~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~   46 (69)
T PF04102_consen    6 IEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRE   46 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344443333333333333333333333333333333333

It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.

>KOG0976|consensus

Probab=85.02  E-value=44  Score=33.43  Aligned_cols=7  Identities=43%  Similarity=0.724  Sum_probs=2.6

Q ss_pred             HHHHHHH
Q psy16189        102 LTNVEKE  108 (262)
Q Consensus       102 i~~leke  108 (262)
                      .+.|||+
T Consensus       353 ~~eLEKk  359 (1265)
T KOG0976|consen  353 LNELEKK  359 (1265)
T ss_pred             HHHHHHH
Confidence            3333333

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=84.62  E-value=25  Score=30.32  Aligned_cols=55  Identities=13%  Similarity=0.048  Sum_probs=30.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHH
Q psy16189         10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAR   64 (262)
Q Consensus        10 ~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~   64 (262)
                      ....+-.+...+..-.+.|+.+...+..++.+.+..+.++.++.-+.++....+.
T Consensus        39 ~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~   93 (265)
T COG3883          39 KLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELK   93 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555555555555555555555555666666666555555544444433

>KOG2113|consensus

Probab=84.43  E-value=0.66  Score=40.50  Aligned_cols=46  Identities=7%  Similarity=-0.029  Sum_probs=37.2

Q ss_pred             HhccccCcccccccccccceecccccc-ccHHHHHHHhccCCCCccCCCc
Q psy16189        200 REYKETLTCPSCKVKRKDAVLTKCFHV-FCWDCLRTRYETRQRKCPKCNA  248 (262)
Q Consensus       200 ~~~~~~~~C~iC~~~~~~~v~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~  248 (262)
                      +.+...+.|.+|....-..+..+|||. ||.+|...   +-...||+|..
T Consensus       338 ~~~~s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~~---s~~~~~~~c~~  384 (394)
T KOG2113|consen  338 NGLMSSLKGTSAGFGLLSTIWSGGNMNLSPGSLASA---SASPTSSTCDH  384 (394)
T ss_pred             ccchhhcccccccCceeeeEeecCCcccChhhhhhc---ccCCccccccc
Confidence            345667889999999988889999986 59999884   34578999976

>PF07111 HCR: Alpha helical coiled-coil rod protein (HCR); InterPro: IPR009800 This family consists of several mammalian alpha helical coiled-coil rod HCR proteins

Probab=84.43  E-value=43  Score=32.84  Aligned_cols=177  Identities=16%  Similarity=0.206  Sum_probs=90.8

Q ss_pred             ccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh---HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          5 QVSGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDD---ANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQI   81 (262)
Q Consensus         5 ~~~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~---~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~   81 (262)
                      +....+.+.|...+-.++.+++.--....++-.=|.+..-   ...-...|+-....+...+.+++++|...+..|+--+
T Consensus       193 a~~q~e~d~L~~qLsk~~~~le~q~tlv~~LR~YvGeq~p~~~~~~~we~Er~~L~~tVq~L~edR~~L~~T~ELLqVRv  272 (739)
T PF07111_consen  193 AEAQREADLLREQLSKTQEELEAQVTLVEQLRKYVGEQVPPEVHSQAWEPEREELLETVQHLQEDRDALQATAELLQVRV  272 (739)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhCCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445556666666666665555544444444444433321   2222345566666777777778887777777777666


Q ss_pred             HHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         82 DAMHTAIRKLEEK---------------ERYLQTVLTNVEKELHLRNQAMD----LNKRKAIESAQSAADLKLHLEKYHA  142 (262)
Q Consensus        82 ~~~~~~i~~l~e~---------------e~~l~~~i~~lekel~~~~~~~~----~~k~k~~e~~~~~~~l~~~l~~l~~  142 (262)
                      .....++.-.++.               .+.+...+..|...+-.+--.+.    .+...+..+...+..|..++..-..
T Consensus       273 qSLt~IL~LQEeEL~~Kvqp~d~Le~e~~~K~q~LL~~WREKVFaLmVQLkaQeleh~~~~~qL~~qVAsLQeev~sq~q  352 (739)
T PF07111_consen  273 QSLTDILTLQEEELCRKVQPSDPLEPEFSRKCQQLLSRWREKVFALMVQLKAQELEHRDSVKQLRGQVASLQEEVASQQQ  352 (739)
T ss_pred             HHHHHHHHHHHHHHhccCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            5544444322211               22233344444444332211111    2223333444445555555555455


Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        143 QLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTER  181 (262)
Q Consensus       143 ~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~  181 (262)
                      +-.-+...+.++..+++-++-..+.+..++.........
T Consensus       353 EqaiLq~SLqDK~AElevERv~sktLQ~ELsrAqea~~~  391 (739)
T PF07111_consen  353 EQAILQHSLQDKAAELEVERVGSKTLQAELSRAQEARRR  391 (739)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            555555566666666666666666666666655444333

The function of HCR is unknown but it has been implicated in psoriasis in humans and is thought to affect keratinocyte proliferation [].; GO: 0030154 cell differentiation, 0005634 nucleus, 0005737 cytoplasm

>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins

Probab=84.35  E-value=0.55  Score=30.03  Aligned_cols=41  Identities=20%  Similarity=0.511  Sum_probs=25.4

Q ss_pred             cCcccccccccccceeccccccccHHHHHHHhcc-CCCCccCCCcccCC
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYET-RQRKCPKCNAAFGA  252 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~  252 (262)
                      .+.||.|...+..       ..++.-|....... ....||+|...++.
T Consensus         2 ~f~CP~C~~~~~~-------~~L~~H~~~~H~~~~~~v~CPiC~~~~~~   43 (54)
T PF05605_consen    2 SFTCPYCGKGFSE-------SSLVEHCEDEHRSESKNVVCPICSSRVTD   43 (54)
T ss_pred             CcCCCCCCCccCH-------HHHHHHHHhHCcCCCCCccCCCchhhhhh
Confidence            4789999985442       22444555544432 34569999886653

Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.

>PF15616 TerY-C: TerY-C metal binding domain

Probab=84.14  E-value=0.57  Score=35.91  Aligned_cols=44  Identities=27%  Similarity=0.503  Sum_probs=32.4

Q ss_pred             ccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      +...-.||-|...+--.+. .||++||.+=      .....||-|+.....
T Consensus        74 L~g~PgCP~CGn~~~fa~C-~CGkl~Ci~g------~~~~~CPwCg~~g~~  117 (131)
T PF15616_consen   74 LIGAPGCPHCGNQYAFAVC-GCGKLFCIDG------EGEVTCPWCGNEGSF  117 (131)
T ss_pred             hcCCCCCCCCcChhcEEEe-cCCCEEEeCC------CCCEECCCCCCeeee
Confidence            4555789999987665555 8999999643      345689999987643

>PLN02939 transferase, transferring glycosyl groups

Probab=84.12  E-value=54  Score=33.72  Aligned_cols=79  Identities=23%  Similarity=0.201  Sum_probs=41.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHH---------------------HHHHHHHHHHHHHHH
Q psy16189         15 LNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQ---------------------LHKLAREEKDILHEQ   73 (262)
Q Consensus        15 ~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q---------------------~~~~~~~~k~~l~~e   73 (262)
                      +.+++.+-.-.+.+|....-|--.++|-+..+.=...+++.+.-                     ....+-.+.+.+..|
T Consensus       155 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  234 (977)
T PLN02939        155 LEDLEKILTEKEALQGKINILEMRLSETDARIKLAAQEKIHVEILEEQLEKLRNELLIRGATEGLCVHSLSKELDVLKEE  234 (977)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHhhhhhhhhhhhhhccccchhhHHHHHHHhhhhhccccccccccccHHHHHHHHHHH
Confidence            34566666666666666666666666644333222222222210                     111234456667777


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q psy16189         74 VNALKLQIDAMHTAIRKLEE   93 (262)
Q Consensus        74 ~~~l~~~~~~~~~~i~~l~e   93 (262)
                      +-.|+..+...+..+....+
T Consensus       235 ~~~~~~~~~~~~~~~~~~~~  254 (977)
T PLN02939        235 NMLLKDDIQFLKAELIEVAE  254 (977)
T ss_pred             hHHHHHHHHHHHHHHHHHHh
Confidence            77777666666655554444

>KOG0825|consensus

Probab=84.06  E-value=0.41  Score=46.66  Aligned_cols=47  Identities=17%  Similarity=0.363  Sum_probs=31.7

Q ss_pred             cCcccccccccccc----eec---cccccccHHHHHHHhccC-----CCCccCCCcccC
Q psy16189        205 TLTCPSCKVKRKDA----VLT---KCFHVFCWDCLRTRYETR-----QRKCPKCNAAFG  251 (262)
Q Consensus       205 ~~~C~iC~~~~~~~----v~l---~CgH~fC~~Ci~~~~~~~-----~~~CP~Cr~~~~  251 (262)
                      ..+|.+|...+.++    -+.   .|+|.||..||..|...-     +-.||+|..-|.
T Consensus        96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~  154 (1134)
T KOG0825|consen   96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG  154 (1134)
T ss_pred             ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence            46677777766552    233   599999999999987531     223788876553

>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=83.81  E-value=1.2  Score=25.96  Aligned_cols=26  Identities=23%  Similarity=0.822  Sum_probs=14.9

Q ss_pred             ccHHHHHHHhccCC-------CCccCCCcccCC
Q psy16189        227 FCWDCLRTRYETRQ-------RKCPKCNAAFGA  252 (262)
Q Consensus       227 fC~~Ci~~~~~~~~-------~~CP~Cr~~~~~  252 (262)
                      +|..|.........       ..||.||..+..
T Consensus         1 lC~~C~~Ey~~p~~RR~~~~~isC~~CGPr~~i   33 (35)
T PF07503_consen    1 LCDDCLKEYFDPSNRRFHYQFISCTNCGPRYSI   33 (35)
T ss_dssp             --HHHHHHHCSTTSTTTT-TT--BTTCC-SCCC
T ss_pred             CCHHHHHHHcCCCCCcccCcCccCCCCCCCEEE
Confidence            47888887654332       239999887753

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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.

>KOG0243|consensus

Probab=83.74  E-value=57  Score=33.65  Aligned_cols=24  Identities=25%  Similarity=0.272  Sum_probs=10.9

Q ss_pred             HHHHHHHHHHhhhhhhHHHHHHHH
Q psy16189         29 QEQNSRLLQQLREKDDANFKLMTE   52 (262)
Q Consensus        29 q~q~~~~~~~l~e~e~~~~kl~~e   52 (262)
                      -....+|-.+|...++.+-..+++
T Consensus       410 ~~EIerLK~dl~AaReKnGvyise  433 (1041)
T KOG0243|consen  410 YEEIERLKRDLAAAREKNGVYISE  433 (1041)
T ss_pred             HHHHHHHHHHHHHhHhhCceEech
Confidence            333344445555555544444433

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=83.69  E-value=11  Score=25.46  Aligned_cols=61  Identities=20%  Similarity=0.201  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         21 TGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQI   81 (262)
Q Consensus        21 ~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~   81 (262)
                      +.+....+++.+.++.-+++-.+..+..|..|+.-+-.....+..+...|..++..|+..+
T Consensus         3 Lea~~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~el   63 (69)
T PF14197_consen    3 LEAEIATLRNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKEL   63 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555666666666666666777777777766664444444545555555555555543

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=83.62  E-value=24  Score=29.20  Aligned_cols=155  Identities=16%  Similarity=0.254  Sum_probs=69.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         16 NEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKE   95 (262)
Q Consensus        16 ~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e   95 (262)
                      .||--+.+-..+.|.....+...|..+...+..+.+.....+.       ....+......-...++.....+.+....-
T Consensus        10 GEIsLLKqQLke~q~E~~~K~~Eiv~Lr~ql~e~~~~l~~~~~-------~~~~l~~~~~~K~~ELE~ce~ELqr~~~Ea   82 (202)
T PF06818_consen   10 GEISLLKQQLKESQAEVNQKDSEIVSLRAQLRELRAELRNKES-------QIQELQDSLRTKQLELEVCENELQRKKNEA   82 (202)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHH-------HHHHHHHHHHHhhHhHHHhHHHHHHHhCHH
Confidence            4666677777777765555555544443333333222222222       222222222222223333333333333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH---HHHH--------HHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q psy16189         96 RYLQTVLTNVEKELHLRNQAMDLN---KRKA--------IES-----AQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLE  159 (262)
Q Consensus        96 ~~l~~~i~~lekel~~~~~~~~~~---k~k~--------~e~-----~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le  159 (262)
                      ..+..++..++.++..++..+...   ....        ...     ......+..+++.+...+.............++
T Consensus        83 ~lLrekl~~le~El~~Lr~~l~~~~~~~~~~~~l~~~deak~~~~~~~~~~~~l~~e~erL~aeL~~er~~~e~q~~~Fe  162 (202)
T PF06818_consen   83 ELLREKLGQLEAELAELREELACAGRLKRQCQLLSESDEAKAQRQAGEDELGSLRREVERLRAELQRERQRREEQRSSFE  162 (202)
T ss_pred             HHhhhhhhhhHHHHHHHHHHHHhhccchhhhccccccchhHHhhccccccchhHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            445666777777777666555432   0000        000     012444556666666666655555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q psy16189        160 AEAYKTKRLQEEIAQLRR  177 (262)
Q Consensus       160 ~~~~~~~~~e~e~~~l~~  177 (262)
                      .++.....-.+.+-.+.+
T Consensus       163 ~ER~~W~eEKekVi~YQk  180 (202)
T PF06818_consen  163 QERRTWQEEKEKVIRYQK  180 (202)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            554444333333333333

Fez1 contains a leucine-zipper region with similarity to the DNA-binding domain of the cAMP-responsive activating-transcription factor 5 []. There is evidence that Fez1 inhibits cancer cell growth through regulation of mitosis, and that its alterations result in abnormal cell growth []. Note that some family members contain more than one copy of this region.; GO: 0005737 cytoplasm, 0016020 membrane

>KOG0963|consensus

Probab=83.27  E-value=45  Score=32.18  Aligned_cols=21  Identities=33%  Similarity=0.457  Sum_probs=8.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q psy16189        158 LEAEAYKTKRLQEEIAQLRRK  178 (262)
Q Consensus       158 le~~~~~~~~~e~e~~~l~~~  178 (262)
                      ++.....+..++.+++.++..
T Consensus       244 Le~aq~ri~~lE~e~e~L~~q  264 (629)
T KOG0963|consen  244 LEDAQQRIVFLEREVEQLREQ  264 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333333333444444433333

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=83.24  E-value=46  Score=32.18  Aligned_cols=28  Identities=21%  Similarity=0.412  Sum_probs=13.0

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q psy16189        149 QVVTEKTSSLEAEAYKTKRLQEEIAQLR  176 (262)
Q Consensus       149 ~~~~~~~~~le~~~~~~~~~e~e~~~l~  176 (262)
                      ..+..+...|.........|+..+..++
T Consensus       481 ~~I~~L~~~L~e~~~~ve~L~~~l~~l~  508 (652)
T COG2433         481 RRIERLEKELEEKKKRVEELERKLAELR  508 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444555555555544

>KOG0979|consensus

Probab=83.18  E-value=58  Score=33.36  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=8.8

Q ss_pred             HHHHHHHHHHHHhhhhhhHHHHH
Q psy16189         27 DMQEQNSRLLQQLREKDDANFKL   49 (262)
Q Consensus        27 ~~q~q~~~~~~~l~e~e~~~~kl   49 (262)
                      +++.-..++...+.....++.+|
T Consensus       185 ~lr~~e~~Le~~~~~~~~~l~~L  207 (1072)
T KOG0979|consen  185 DLREDEKSLEDKLTTKTEKLNRL  207 (1072)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHH
Confidence            33333333444333333333333

>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]

Probab=83.17  E-value=0.57  Score=45.42  Aligned_cols=23  Identities=26%  Similarity=0.602  Sum_probs=16.1

Q ss_pred             cHHHHHHHhccC-------CCCccCCCccc
Q psy16189        228 CWDCLRTRYETR-------QRKCPKCNAAF  250 (262)
Q Consensus       228 C~~Ci~~~~~~~-------~~~CP~Cr~~~  250 (262)
                      |..|-..+-..-       +.-||.|+..+
T Consensus       154 C~~C~~EY~dP~nRRfHAQp~aCp~CGP~~  183 (750)
T COG0068         154 CPFCDKEYKDPLNRRFHAQPIACPKCGPHL  183 (750)
T ss_pred             CHHHHHHhcCccccccccccccCcccCCCe
Confidence            999988755432       23399998755

>TIGR00622 ssl1 transcription factor ssl1

Probab=83.14  E-value=0.66  Score=34.51  Aligned_cols=41  Identities=29%  Similarity=0.571  Sum_probs=29.8

Q ss_pred             Ccccccccccccc--------------eeccccccccHHHHHHHhccCCCCccCCC
Q psy16189        206 LTCPSCKVKRKDA--------------VLTKCFHVFCWDCLRTRYETRQRKCPKCN  247 (262)
Q Consensus       206 ~~C~iC~~~~~~~--------------v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr  247 (262)
                      ..|.-|...|..+              ....|++.||.+|= ..+...-..||.|.
T Consensus        56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD-~fiHe~Lh~CPGC~  110 (112)
T TIGR00622        56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCD-VFVHESLHCCPGCI  110 (112)
T ss_pred             CcccCcCCCCCCcccccccccccccceeCCCCCCccccccc-hhhhhhccCCcCCC
Confidence            4699999988653              14589999999993 33333456799996

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

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=83.14  E-value=1.4  Score=43.73  Aligned_cols=69  Identities=17%  Similarity=0.277  Sum_probs=0.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         11 EEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKL   79 (262)
Q Consensus        11 ~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~   79 (262)
                      .+.+.+++-.+..+..+++.....+...+.+....+..+...+.+.......+.++.+.|...+.+.-.
T Consensus       359 ~g~~~~~~~~l~~~~~~Le~e~~~l~~~~~~l~~~~~~~~~~~~RLerq~~L~~kE~d~LR~~L~syd~  427 (722)
T PF05557_consen  359 LGSLQSELRELEEEIQELEQEKEQLLKEIEELEASLEALKKLIRRLERQKALATKERDYLRAQLKSYDK  427 (722)
T ss_dssp             ---------------------------------------------------------------------
T ss_pred             HhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            344444555555555555555555555555555555555555555555555566666666666665443

The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.

>PF12773 DZR: Double zinc ribbon

Probab=82.74  E-value=1  Score=28.07  Aligned_cols=28  Identities=25%  Similarity=0.566  Sum_probs=16.2

Q ss_pred             ccccHHHHHHHh--ccCCCCccCCCcccCC
Q psy16189        225 HVFCWDCLRTRY--ETRQRKCPKCNAAFGA  252 (262)
Q Consensus       225 H~fC~~Ci~~~~--~~~~~~CP~Cr~~~~~  252 (262)
                      -.||..|-....  ......||.|+..+..
T Consensus        12 ~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~   41 (50)
T PF12773_consen   12 AKFCPHCGTPLPPPDQSKKICPNCGAENPP   41 (50)
T ss_pred             ccCChhhcCChhhccCCCCCCcCCcCCCcC
Confidence            445666655544  3334568888886543

>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system []

Probab=82.52  E-value=16  Score=26.46  Aligned_cols=82  Identities=18%  Similarity=0.188  Sum_probs=57.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH
Q psy16189         11 EEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEK---DILHEQVNALKLQIDAMHTA   87 (262)
Q Consensus        11 ~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k---~~l~~e~~~l~~~~~~~~~~   87 (262)
                      ...+-+|++....-|.=+...|...-..+.++.+....+.......+++|..+..-.   +.++.++..|...+......
T Consensus         9 ~~~v~~el~~t~~d~~LLe~mN~~~~~kY~~~~~~~~~l~~~~~~l~~k~~~l~~~l~~Id~Ie~~V~~LE~~v~~LD~y   88 (99)
T PF10046_consen    9 SKYVESELEATNEDYNLLENMNKATSLKYKKMKDIAAGLEKNLEDLNQKYEELQPYLQQIDQIEEQVTELEQTVYELDEY   88 (99)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456778888888899999999999999999999988888888877777776665433   33333555555544444444


Q ss_pred             HHHHH
Q psy16189         88 IRKLE   92 (262)
Q Consensus        88 i~~l~   92 (262)
                      ..+|+
T Consensus        89 sk~LE   93 (99)
T PF10046_consen   89 SKELE   93 (99)
T ss_pred             HHHHH
Confidence            43333

>PF14205 Cys_rich_KTR: Cysteine-rich KTR

Probab=82.50  E-value=0.43  Score=30.45  Aligned_cols=12  Identities=42%  Similarity=0.836  Sum_probs=9.3

Q ss_pred             ccCccccccccc
Q psy16189        204 ETLTCPSCKVKR  215 (262)
Q Consensus       204 ~~~~C~iC~~~~  215 (262)
                      .|+.||+|+..-
T Consensus         3 ~Wi~CP~CgnKT   14 (55)
T PF14205_consen    3 EWILCPICGNKT   14 (55)
T ss_pred             eEEECCCCCCcc
Confidence            478999999643

>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1

Probab=82.44  E-value=0.75  Score=30.75  Aligned_cols=32  Identities=19%  Similarity=0.446  Sum_probs=24.9

Q ss_pred             Cccccccccccc----ceeccccccccHHHHHHHhc
Q psy16189        206 LTCPSCKVKRKD----AVLTKCFHVFCWDCLRTRYE  237 (262)
Q Consensus       206 ~~C~iC~~~~~~----~v~l~CgH~fC~~Ci~~~~~  237 (262)
                      ..|+.|...|.-    .....||++||..|......
T Consensus        11 ~~C~~C~~~F~~~~rk~hCr~CG~i~C~~C~~~~~~   46 (68)
T smart00064       11 SNCMGCGKEFNLTKRRHHCRNCGRIFCSKCSSKKAP   46 (68)
T ss_pred             CcCcccCccccCcccccccccCCCCcChHHcCCeee
Confidence            579999987742    24569999999999887554

The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the

>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454

Probab=82.26  E-value=0.83  Score=35.85  Aligned_cols=26  Identities=23%  Similarity=0.677  Sum_probs=21.0

Q ss_pred             cccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        224 FHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       224 gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      .+-||..|-...+.    .||.|+.++...
T Consensus        27 ~~~fC~kCG~~tI~----~Cp~C~~~IrG~   52 (158)
T PF10083_consen   27 REKFCSKCGAKTIT----SCPNCSTPIRGD   52 (158)
T ss_pred             HHHHHHHhhHHHHH----HCcCCCCCCCCc
Confidence            46799999888765    699999999654

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=82.20  E-value=31  Score=29.44  Aligned_cols=17  Identities=29%  Similarity=0.378  Sum_probs=6.5

Q ss_pred             HHHHHHHHHHHHHHHHH
Q psy16189         66 EKDILHEQVNALKLQID   82 (262)
Q Consensus        66 ~k~~l~~e~~~l~~~~~   82 (262)
                      ++..+..+++.+..+++
T Consensus        50 e~~~L~~e~~~l~~e~e   66 (251)
T PF11932_consen   50 EKQELLAEYRQLEREIE   66 (251)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33333333333333333

However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.

>PLN02189 cellulose synthase

Probab=82.16  E-value=0.95  Score=45.92  Aligned_cols=46  Identities=17%  Similarity=0.505  Sum_probs=35.1

Q ss_pred             Cccccccccccc----c---eeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        206 LTCPSCKVKRKD----A---VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       206 ~~C~iC~~~~~~----~---v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      ..|.||.+....    -   ++--||-..|..|..---+.+...||.|++.+.
T Consensus        35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~   87 (1040)
T PLN02189         35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK   87 (1040)
T ss_pred             ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence            479999997532    1   333678888999997656667788999999886

>KOG2129|consensus

Probab=82.10  E-value=41  Score=30.89  Aligned_cols=65  Identities=22%  Similarity=0.263  Sum_probs=39.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q psy16189         97 YLQTVLTNVEKELHLRNQAMD-----------------LNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLE  159 (262)
Q Consensus        97 ~l~~~i~~lekel~~~~~~~~-----------------~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le  159 (262)
                      .|.+++..|+.+.+-+...++                 .+-....-....+..|+.+++.++..+...+....+...++.
T Consensus       205 ~LwKrmdkLe~ekr~Lq~KlDqpvs~p~~prdia~~~~~~gD~a~~~~~hi~~l~~EveRlrt~l~~Aqk~~~ek~~qy~  284 (552)
T KOG2129|consen  205 SLWKRMDKLEQEKRYLQKKLDQPVSTPSLPRDIAKIPDVHGDEAAAEKLHIDKLQAEVERLRTYLSRAQKSYQEKLMQYR  284 (552)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCcccCCCchhhhhcCccccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            366777888877776655543                 011112223334677788888888888877777766666654


Q ss_pred             HH
Q psy16189        160 AE  161 (262)
Q Consensus       160 ~~  161 (262)
                      .+
T Consensus       285 ~E  286 (552)
T KOG2129|consen  285 AE  286 (552)
T ss_pred             HH
Confidence            43

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function

Probab=81.95  E-value=37  Score=30.21  Aligned_cols=85  Identities=13%  Similarity=0.108  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHhHHHHHHHHHHHHHHHHHH
Q psy16189        101 VLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQ-------VVTEKTSSLEAEAYKTKRLQEEIA  173 (262)
Q Consensus       101 ~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~-------~~~~~~~~le~~~~~~~~~e~e~~  173 (262)
                      +++.+..++..+..++...-....++..+.+.++-....+..++.-+-.       .+..+..+.--...++..+++|..
T Consensus       134 qLEk~~~q~~qLe~d~qs~lDEkeEl~~ERD~yk~K~~RLN~ELn~~L~g~~~rivDIDaLi~ENRyL~erl~q~qeE~~  213 (319)
T PF09789_consen  134 QLEKLREQIEQLERDLQSLLDEKEELVTERDAYKCKAHRLNHELNYILNGDENRIVDIDALIMENRYLKERLKQLQEEKE  213 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444333333333334444444444444444444432211       122222222334456666677766


Q ss_pred             HHHHHHHHHHHH
Q psy16189        174 QLRRKTERMKKI  185 (262)
Q Consensus       174 ~l~~~~~~~~~~  185 (262)
                      .++..+.+.+..
T Consensus       214 l~k~~i~KYK~~  225 (319)
T PF09789_consen  214 LLKQTINKYKSA  225 (319)
T ss_pred             HHHHHHHHHHHH
Confidence            666666665553

>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []

Probab=81.75  E-value=20  Score=27.06  Aligned_cols=24  Identities=21%  Similarity=0.371  Sum_probs=9.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhH
Q psy16189        133 LKLHLEKYHAQLKEAQQVVTEKTS  156 (262)
Q Consensus       133 l~~~l~~l~~~~~~~~~~~~~~~~  156 (262)
                      ++.++..++.+...+-..+.++..
T Consensus        73 L~~el~~l~~ry~t~LellGEK~E   96 (120)
T PF12325_consen   73 LEQELEELQQRYQTLLELLGEKSE   96 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHhcchHH
Confidence            333333333333333333333333

The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].

>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure

Probab=81.71  E-value=12  Score=24.60  Aligned_cols=28  Identities=18%  Similarity=0.340  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        119 NKRKAIESAQSAADLKLHLEKYHAQLKE  146 (262)
Q Consensus       119 ~k~k~~e~~~~~~~l~~~l~~l~~~~~~  146 (262)
                      ...++.+....+.+|..++..++.++.+
T Consensus        30 ~e~kLqeaE~rn~eL~~ei~~L~~e~ee   57 (61)
T PF08826_consen   30 FESKLQEAEKRNRELEQEIERLKKEMEE   57 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444433

It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.

>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication

Probab=81.71  E-value=19  Score=26.65  Aligned_cols=19  Identities=32%  Similarity=0.494  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q psy16189        164 KTKRLQEEIAQLRRKTERM  182 (262)
Q Consensus       164 ~~~~~e~e~~~l~~~~~~~  182 (262)
                      .-.++.-|...|+..+...
T Consensus        37 EN~~L~~EN~~Lr~~l~~~   55 (107)
T PF06156_consen   37 ENARLRIENEHLRERLEEL   55 (107)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4444455555555555544

SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.

>KOG4460|consensus

Probab=81.63  E-value=50  Score=31.54  Aligned_cols=96  Identities=14%  Similarity=0.096  Sum_probs=65.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------
Q psy16189         57 NQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS-------  129 (262)
Q Consensus        57 ~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~-------  129 (262)
                      .|+......-+.++...+..|+.+.+++.+.++.+.+..+.+.+..+.|++.+.......+.+.++...+.+.       
T Consensus       573 EqYi~~~dlV~~e~qrH~~~l~~~k~~QlQ~l~~~~eer~~i~e~a~~La~R~eea~e~qe~L~~~~~~L~~~~~~~lp~  652 (741)
T KOG4460|consen  573 EQYILKQDLVKEEIQRHVKLLCDQKKKQLQDLSYCREERKSLREMAERLADRYEEAKEKQEDLMNRMKKLLHSFHSELPV  652 (741)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcccccCCc
Confidence            5555556666788888889999999999999998888888888888888888877766666555555554442       


Q ss_pred             ----HHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        130 ----AADLKLHLEKYHAQLKEAQQVVT  152 (262)
Q Consensus       130 ----~~~l~~~l~~l~~~~~~~~~~~~  152 (262)
                          -.+++.++..+..++..+...+.
T Consensus       653 l~~AErdFk~Elq~~~~~~~~L~~~iE  679 (741)
T KOG4460|consen  653 LSDAERDFKKELQLIPDQLRHLGNAIE  679 (741)
T ss_pred             chhHHHHHHHHHHHhHHHHHHHHHHHH
Confidence                23444555444444444444333

>PLN02436 cellulose synthase A

Probab=81.60  E-value=1  Score=45.84  Aligned_cols=46  Identities=20%  Similarity=0.566  Sum_probs=35.3

Q ss_pred             Ccccccccccccc-------eeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        206 LTCPSCKVKRKDA-------VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       206 ~~C~iC~~~~~~~-------v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      ..|.||.+..-..       ++--||-..|..|..---+.+...||.|++.+.
T Consensus        37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~   89 (1094)
T PLN02436         37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK   89 (1094)
T ss_pred             ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence            4799999976221       334678889999997666667788999999886

>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]

Probab=81.47  E-value=0.49  Score=33.89  Aligned_cols=46  Identities=20%  Similarity=0.463  Sum_probs=26.6

Q ss_pred             cccccccccccceeccccc-------cccHHHHHHHhcc--C-CCCccCCCcccCC
Q psy16189        207 TCPSCKVKRKDAVLTKCFH-------VFCWDCLRTRYET--R-QRKCPKCNAAFGA  252 (262)
Q Consensus       207 ~C~iC~~~~~~~v~l~CgH-------~fC~~Ci~~~~~~--~-~~~CP~Cr~~~~~  252 (262)
                      -|.-|...+....+.|-|+       +.|.-|.......  + ...||.|+.||..
T Consensus        37 aCy~CHdel~~Hpf~p~~~~~~~~~~iiCGvC~~~LT~~EY~~~~~Cp~C~spFNp   92 (105)
T COG4357          37 ACYHCHDELEDHPFEPWGLQEFNPKAIICGVCRKLLTRAEYGMCGSCPYCQSPFNP   92 (105)
T ss_pred             hHHHHHhHHhcCCCccCChhhcCCccEEhhhhhhhhhHHHHhhcCCCCCcCCCCCc
Confidence            3555555554444444443       3577776653322  1 2459999999953

>KOG1937|consensus

Probab=81.41  E-value=46  Score=30.94  Aligned_cols=73  Identities=19%  Similarity=0.197  Sum_probs=47.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKS----NQLHKLAREEKDILHEQVNALKLQIDA   83 (262)
Q Consensus        10 ~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka----~q~~~~~~~~k~~l~~e~~~l~~~~~~   83 (262)
                      +..-+.+|+...+-+|+.++.-....-.+.++++ ...++....+.+    ..+...++.........+-.|..+.+.
T Consensus       242 eneel~ae~kqh~v~~~ales~~sq~~e~~selE-~llklkerl~e~l~dgeayLaKL~~~l~~~~~~~~~ltqqwed  318 (521)
T KOG1937|consen  242 ENEELQAEYKQHLVEYKALESKRSQFEEQNSELE-KLLKLKERLIEALDDGEAYLAKLMGKLAELNKQMEELTQQWED  318 (521)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH-HHHHhHHHHHHhcCChHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456777788888888888887777777777777 666666665555    345555555555555555555555543

>KOG4593|consensus

Probab=81.23  E-value=58  Score=31.97  Aligned_cols=22  Identities=36%  Similarity=0.510  Sum_probs=15.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q psy16189        164 KTKRLQEEIAQLRRKTERMKKI  185 (262)
Q Consensus       164 ~~~~~e~e~~~l~~~~~~~~~~  185 (262)
                      ...-+.+|+..|+.++.++.+.
T Consensus       276 tv~~LqeE~e~Lqskl~~~~~l  297 (716)
T KOG4593|consen  276 TVGLLQEELEGLQSKLGRLEKL  297 (716)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHH
Confidence            4556777788888888777665

>KOG2068|consensus

Probab=81.20  E-value=1.3  Score=39.00  Aligned_cols=47  Identities=23%  Similarity=0.590  Sum_probs=34.4

Q ss_pred             Cccccccccccc--cee--ccccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        206 LTCPSCKVKRKD--AVL--TKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       206 ~~C~iC~~~~~~--~v~--l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      -.||+|......  .-.  .||||..|..|...... +...||.||.+...+
T Consensus       250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~-~~~~~~~~rk~~~~~  300 (327)
T KOG2068|consen  250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISD-GDGRCPGCRKPYERN  300 (327)
T ss_pred             CCCCCCCCcccccccccccccccccchhhhhhcccc-cCCCCCccCCccccC
Confidence            569999986522  222  37899899999988665 566799999877543

>KOG1962|consensus

Probab=81.18  E-value=31  Score=28.84  Aligned_cols=44  Identities=16%  Similarity=0.294  Sum_probs=17.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         67 KDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELH  110 (262)
Q Consensus        67 k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~  110 (262)
                      ++.+.++...|+..+++-.......+..-..+.++.+.+..|..
T Consensus       153 ~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~Eyd  196 (216)
T KOG1962|consen  153 NDKLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYD  196 (216)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHH
Confidence            34444444444444433333333333333333344444333333

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=81.16  E-value=37  Score=29.74  Aligned_cols=47  Identities=17%  Similarity=0.031  Sum_probs=25.6

Q ss_pred             HHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         33 SRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKL   79 (262)
Q Consensus        33 ~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~   79 (262)
                      ..+-.+|..+-..+..|.+..-+-+|....+..+.++...-+.+.-.
T Consensus        59 ~qy~~QLn~L~aENt~L~SkLe~EKq~kerLEtEiES~rsRLaaAi~  105 (305)
T PF14915_consen   59 FQYNGQLNVLKAENTMLNSKLEKEKQNKERLETEIESYRSRLAAAIQ  105 (305)
T ss_pred             HHHhhhHHHHHHHHHHHhHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33344455555566666666666666666666665555544444433

>PF13166 AAA_13: AAA domain

Probab=81.07  E-value=60  Score=32.04  Aligned_cols=48  Identities=15%  Similarity=0.312  Sum_probs=21.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhCCchHHHHHHHHhc
Q psy16189        155 TSSLEAEAYKTKRLQEEIAQLRRKTERMKKI-EQAGTLDEVMMEEIREY  202 (262)
Q Consensus       155 ~~~le~~~~~~~~~e~e~~~l~~~~~~~~~~-~~~~~~~~~l~~e~~~~  202 (262)
                      ...+.........+...+..+..++..+... .......+.+...+..+
T Consensus       423 ~~~i~~~~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~iN~~L~~~  471 (712)
T PF13166_consen  423 EKEINSLEKKLKKAKEEIKKIEKEIKELEAQLKNTEPAADRINEELKRL  471 (712)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            3333344444444444455555444444433 11233344555566555

>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold)

Probab=81.01  E-value=20  Score=26.43  Aligned_cols=16  Identities=13%  Similarity=0.360  Sum_probs=6.1

Q ss_pred             HHHHHHHHHHHHHHHH
Q psy16189         70 LHEQVNALKLQIDAMH   85 (262)
Q Consensus        70 l~~e~~~l~~~~~~~~   85 (262)
                      +...+..|...++..+
T Consensus        14 l~n~La~Le~slE~~K   29 (107)
T PF09304_consen   14 LQNRLASLERSLEDEK   29 (107)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333333443333333

The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.

>PF15397 DUF4618: Domain of unknown function (DUF4618)

Probab=80.92  E-value=36  Score=29.35  Aligned_cols=31  Identities=10%  Similarity=0.255  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhHHHH
Q psy16189         18 MEVTGQAFEDMQEQNSRLLQQLREKDDANFK   48 (262)
Q Consensus        18 ie~~~~a~e~~q~q~~~~~~~l~e~e~~~~k   48 (262)
                      ++.+.+-...++..|..++..|.+.|+.-..
T Consensus         8 l~el~~h~~~L~~~N~~L~~~IqdtE~st~~   38 (258)
T PF15397_consen    8 LQELKKHEDFLTKLNKELIKEIQDTEDSTAL   38 (258)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHhHHhhHHH
Confidence            4455556666777777777776666654433

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function

Probab=80.92  E-value=40  Score=29.98  Aligned_cols=31  Identities=13%  Similarity=0.171  Sum_probs=16.3

Q ss_pred             ccccHHHHHHHhccCCCCccCCCcccCCCCc
Q psy16189        225 HVFCWDCLRTRYETRQRKCPKCNAAFGANDY  255 (262)
Q Consensus       225 H~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~  255 (262)
                      -++-..-+...+.++...|+.=..|-+..|+
T Consensus       247 ~v~s~kQv~~ll~~~~~~~~~~~~~~s~sdL  277 (319)
T PF09789_consen  247 GVMSAKQVKELLESESNGCSLPASPQSISDL  277 (319)
T ss_pred             ccccHHHHHHHHhcccccCCCCCCcchHHHH
Confidence            3345666777776666666443333333333

>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300

Probab=80.88  E-value=1.2  Score=33.71  Aligned_cols=11  Identities=27%  Similarity=0.446  Sum_probs=6.9

Q ss_pred             cCccccccccc
Q psy16189        205 TLTCPSCKVKR  215 (262)
Q Consensus       205 ~~~C~iC~~~~  215 (262)
                      ...||.|...|
T Consensus         9 Kr~Cp~cg~kF   19 (129)
T TIGR02300         9 KRICPNTGSKF   19 (129)
T ss_pred             cccCCCcCccc
Confidence            35677666655

Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.

>PRK00846 hypothetical protein; Provisional

Probab=80.37  E-value=17  Score=25.21  Aligned_cols=16  Identities=25%  Similarity=0.486  Sum_probs=7.0

Q ss_pred             HHHHHHHHHHHHHHHH
Q psy16189         98 LQTVLTNVEKELHLRN  113 (262)
Q Consensus        98 l~~~i~~lekel~~~~  113 (262)
                      +..+|..||-.+.-..
T Consensus        11 le~Ri~~LE~rlAfQe   26 (77)
T PRK00846         11 LEARLVELETRLSFQE   26 (77)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3344444444444333

>PF13942 Lipoprotein_20: YfhG lipoprotein

Probab=80.27  E-value=29  Score=27.89  Aligned_cols=71  Identities=28%  Similarity=0.392  Sum_probs=55.4

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         30 EQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQT  100 (262)
Q Consensus        30 ~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~  100 (262)
                      .+..-|++--.+.....+.|..|+.+....+...-.+.|.|..+...|+.+++--..+++.|-+.|+.|++
T Consensus        95 ~~vRPL~QlWRe~Q~lql~L~eEr~Ry~rLQqssD~~lD~Lr~qq~~Lq~qL~~T~RKLEnLTDIERQLSS  165 (179)
T PF13942_consen   95 ASVRPLLQLWREQQVLQLQLSEERARYQRLQQSSDSELDALRQQQQRLQYQLDTTTRKLENLTDIERQLSS  165 (179)
T ss_pred             HHHhHHHHHHHHhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHhc
Confidence            34445555566777777788888888887777888888999999999999998888888888887777754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	262
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	4e-14
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-13
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-11
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-10
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-10
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	6e-10
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	4e-09
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	1e-08
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	2e-08
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	2e-08
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	2e-08
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-08
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-07
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	9e-07
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	7e-04
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	7e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	8e-08
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	9e-08
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	1e-07
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	1e-07
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	1e-07
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	1e-07
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	2e-07
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	2e-07
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	2e-07
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-07
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	2e-07
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	2e-07
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	3e-07
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	4e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	6e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	2e-06
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	6e-06
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	6e-06
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	7e-06
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	8e-06
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	9e-06
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	2e-05
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	2e-05
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	2e-05
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	3e-05
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	2e-04
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	5e-04
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	7e-05
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	4e-04
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	5e-04
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	5e-04
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	6e-04
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	6e-04
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	7e-04

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens} Length = 64

 Score = 64.4 bits (157), Expect = 4e-14
 Identities = 19/64 (29%), Positives = 25/64 (39%), Gaps = 8/64 (12%)

Query: 204 ETLTCPSC-------KVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYH 256
             ++CP C           +  V T+C HVFC  CLR         CP C        YH
Sbjct: 2   AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLR-DSLKNANTCPTCRKKINHKRYH 60

Query: 257 RLYL 260
            +Y+
Sbjct: 61  PIYI 64

>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 = 63.3 bits (154), Expect = 1e-13
 Identities = 20/64 (31%), Positives = 26/64 (40%), Gaps = 8/64 (12%)

Query: 204 ETLTCPSC-------KVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYH 256
            T++CP C           +  V T+C HVFC  CLR         CP C        YH
Sbjct: 9   GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLR-DSLKNANTCPTCRKKINHKRYH 67

Query: 257 RLYL 260
            +Y+
Sbjct: 68  PIYI 71

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81

 Score = 57.5 bits (139), Expect = 2e-11
 Identities = 12/43 (27%), Positives = 19/43 (44%), Gaps = 1/43 (2%)

Query: 206 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNA 248
             C  C+   ++ V+TKC H FC  C    +     +C  C+ 
Sbjct: 16  FRCFICRQAFQNPVVTKCRHYFCESCALEHFR-ATPRCYICDQ 57

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 71

 Score = 55.6 bits (134), Expect = 1e-10
 Identities = 11/50 (22%), Positives = 17/50 (34%), Gaps = 1/50 (2%)

Query: 204 ETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN 253
               C  C       V   C HVFC+ C++       ++C  C      +
Sbjct: 14  TVPECAICLQTCVHPVSLPCKHVFCYLCVKGASW-LGKRCALCRQEIPED 62

>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 = 59.4 bits (143), Expect = 2e-10
 Identities = 14/63 (22%), Positives = 20/63 (31%)

Query: 192 DEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG 251
            E              C  C    KD  +  C H+ C  CL +  E+  + CP C     
Sbjct: 319 QEQYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK 378

Query: 252 AND 254
             +
Sbjct: 379 GTE 381

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 66

 Score = 53.3 bits (128), Expect = 6e-10
 Identities = 11/51 (21%), Positives = 18/51 (35%)

Query: 204 ETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAND 254
           +   C  C +       T+C H FC  C+     +   KC  C  +   + 
Sbjct: 14  DKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKDK 64

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 72

 Score = 50.9 bits (122), Expect = 4e-09
 Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 5/62 (8%)

Query: 188 AGTLDEVMMEEIREYKETLTCPSCKVKRKDAV-LTKCFHVFCWDCLRTRYETRQRKCPKC 246
             +     + E+  Y   + C  CK    DA  +T+C H FC  C+  R+     +CPKC
Sbjct: 1   GSSGSSGNLSELTPY---ILCSICKGYLIDATTITECLHTFCKSCIV-RHFYYSNRCPKC 56

Query: 247 NA 248
           N 
Sbjct: 57  NI 58

>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 = 51.1 bits (122), Expect = 1e-08
 Identities = 22/108 (20%), Positives = 43/108 (39%), Gaps = 10/108 (9%)

Query: 146 EAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAGTLDEVMMEEIREYKET 205
           E   +  +++S +  +    K   E +A L+ +         +G+  ++ + ++ E   T
Sbjct: 3   EPYSLTAQQSSLIREDKSNAKLWNEVLASLKDRP-------ASGSPFQLFLSKVEE---T 52

Query: 206 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN 253
             C  C+      + T C H  C DCL   +  +   CP C    G +
Sbjct: 53  FQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRS 100

>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 = 2e-08
 Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 4/70 (5%)

Query: 186 EQAGTLDEVMMEEIREYKETLTCPSCKVKRKDAV-LTKCFHVFCWDCLRTRYETRQRKCP 244
                +DE  +E I    E   C  C  K +DA     C  + C+ C+R     ++ +CP
Sbjct: 6   HHHSHMDEQSVESI---AEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCP 62

Query: 245 KCNAAFGAND 254
            C A     +
Sbjct: 63  HCRAPLQLRE 72

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 56

 Score = 48.5 bits (116), Expect = 2e-08
 Identities = 15/47 (31%), Positives = 19/47 (40%), Gaps = 4/47 (8%)

Query: 200 REYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKC 246
            E  + L C  C+ + K   L  C H  C  CL    E    +CP C
Sbjct: 1   EEEFQFLRCQQCQAEAKCPKLLPCLHTLCSGCL----EASGMQCPIC 43

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens} Length = 99

 Score = 49.8 bits (119), Expect = 2e-08
 Identities = 12/56 (21%), Positives = 26/56 (46%), Gaps = 2/56 (3%)

Query: 196 MEEIREYKETLTCPSCKVKRKDAV-LTKCFHVFCWDCLRTRYETRQRKCPKCNAAF 250
           +  ++   + L C  C      A+ + +C H +C  C+R ++ + + +CP C    
Sbjct: 13  LAVMKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIR-KFLSYKTQCPTCCVTV 67

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 53.3 bits (128), Expect = 3e-08
 Identities = 38/198 (19%), Positives = 69/198 (34%), Gaps = 4/198 (2%)

Query: 10   EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
            EEEA   +++           +  ++   +   +D N KL  ER    +           
Sbjct: 966  EEEAARQKLQ---LEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAE 1022

Query: 70   LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
              E+   L    +   + I +LE + +  +     +EK              +  E    
Sbjct: 1023 EEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQ 1082

Query: 130  AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKK-IEQA 188
             A+LK  L K   +L+ A   + ++TS       K + L+  I+ L+   E  K    +A
Sbjct: 1083 IAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKA 1142

Query: 189  GTLDEVMMEEIREYKETL 206
                  + EE+   K  L
Sbjct: 1143 EKQKRDLSEELEALKTEL 1160

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 50.2 bits (120), Expect = 3e-07
 Identities = 32/185 (17%), Positives = 77/185 (41%), Gaps = 7/185 (3%)

Query: 26   EDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMH 85
             + +E   RL  + +E ++   ++     +  +  +  + EK  + +Q+  L+ Q++   
Sbjct: 909  AEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEE 968

Query: 86   TAIRKLEEKERYLQTVLTNVEKEL-HLRNQAMDLNKRKAI---ESAQSAADLKLHLEKYH 141
             A +KL+ ++      +  +E ++  + +Q   L K + +     +    +L    EK  
Sbjct: 969  AARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAK 1028

Query: 142  AQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAGTLDEVMMEEIRE 201
              L + +       S LE    K ++ ++E+ +++RK E   +          +  +I E
Sbjct: 1029 -NLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLE--GESSDLHEQIAELQAQIAE 1085

Query: 202  YKETL 206
             K  L
Sbjct: 1086 LKAQL 1090

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 48.7 bits (116), Expect = 9e-07
 Identities = 31/206 (15%), Positives = 84/206 (40%), Gaps = 11/206 (5%)

Query: 9    NEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKD 68
             E E +L+EME      E+ +E++ +L  + ++       L  +  +     +  + EK 
Sbjct: 923  QELEEILHEME---ARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKV 979

Query: 69   ILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQ 128
                ++  ++  I  M     KL ++ + L+  ++++   L    +      +   +   
Sbjct: 980  TADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHES 1039

Query: 129  SAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERM------ 182
              ++L++ L+K     +E +++  +          +   LQ +IA+L+ +  +       
Sbjct: 1040 MISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQA 1099

Query: 183  --KKIEQAGTLDEVMMEEIREYKETL 206
               ++E   +     +++IRE +  +
Sbjct: 1100 ALARLEDETSQKNNALKKIRELESHI 1125

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 39.8 bits (93), Expect = 7e-04
 Identities = 22/166 (13%), Positives = 66/166 (39%), Gaps = 7/166 (4%)

Query: 46   NFKLMTERIKSNQLHKLAREEKDI--LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLT 103
            ++  M        L K+ R+E+++    E++   K +       +++LE+K   L     
Sbjct: 836  HWPWMXLFFXIXPLLKVTRQEEEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKN 895

Query: 104  NVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVV---TEKTSSLEA 160
             ++++L    +     +   +  A    +L+  L +  A+++E ++       +   ++ 
Sbjct: 896  LLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQ 955

Query: 161  EAYKTKRLQEEIAQLRRKTERMKK--IEQAGTLDEVMMEEIREYKE 204
            +    +   EE    R+K +  K     +   +++ ++    +  +
Sbjct: 956  QMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNK 1001

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 39.8 bits (93), Expect = 7e-04
 Identities = 30/198 (15%), Positives = 73/198 (36%), Gaps = 15/198 (7%)

Query: 17   EMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNA 76
            EM+   +  +  +E+  +   +L+E +  + +L  E+   N L +  + E ++  E    
Sbjct: 858  EMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEK---NLLQEKLQAETELYAEA--- 911

Query: 77   LKLQIDAMHTAIRKLEEKERYLQTVLTNVEKEL-HLRNQAMDLN------KRKAIESAQS 129
             +     +    ++LEE    ++  +   E+    L+ +   +       + +  E   +
Sbjct: 912  -EEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAA 970

Query: 130  AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRK-TERMKKIEQA 188
               L+L       ++K+ +  +            + K L+E ++ L     E  +K +  
Sbjct: 971  RQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNL 1030

Query: 189  GTLDEVMMEEIREYKETL 206
              L       I E +  L
Sbjct: 1031 TKLKNKHESMISELEVRL 1048

>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 = 49.6 bits (118), Expect = 8e-08
 Identities = 25/124 (20%), Positives = 46/124 (37%), Gaps = 8/124 (6%)

Query: 139 KYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTER-MKKIEQAGTLDEVMME 197
            +H     +  V     S+ +           E  QL  + +  +++  Q   L + ++ 
Sbjct: 4   SHHHHHHSSGLVPRGSPSASKVYKASDSAEAIEAFQLTPQQQHLIREDCQNQKLWDEVLS 63

Query: 198 EIREYK-------ETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF 250
            + E         ++  C  C+      V T+CFH  C DCL+  ++ +   CP C    
Sbjct: 64  HLVEGPNFLKKLEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDL 123

Query: 251 GAND 254
           G N 
Sbjct: 124 GQNY 127

>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 = 47.4 bits (113), Expect = 9e-08
 Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 2/60 (3%)

Query: 197 EEIREYKETLTCPSCKVKRKDAVLTK-CFHVFCWDCLRTR-YETRQRKCPKCNAAFGAND 254
            E     + L C  CK    DAV+   C + +C +C+RT   E+ +  CP C+    + D
Sbjct: 7   GEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD 66

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 73

 Score = 47.0 bits (112), Expect = 1e-07
 Identities = 16/50 (32%), Positives = 21/50 (42%), Gaps = 2/50 (4%)

Query: 203 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQ--RKCPKCNAAF 250
           +E + CP C    +  V   C H FC  C+    ET     KCP C  + 
Sbjct: 18  QEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSV 67

>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase, protein binding complex; 4.80A {Homo sapiens} Length = 149

 Score = 48.9 bits (116), Expect = 1e-07
 Identities = 24/119 (20%), Positives = 53/119 (44%), Gaps = 13/119 (10%)

Query: 137 LEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAGTLDEVMM 196
            +++ A ++E  +   +  + ++A+  + ++ +EE     ++  + +K E    +++V+ 
Sbjct: 8   FQEHWALMEELNRSKKDFEAIIQAKNKELEQTKEE-----KEKMQAQKEEVLSHMNDVLE 62

Query: 197 EEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDY 255
            E       L C  C     +AV   C H FC  C+   +  R+ +CP C     +  Y
Sbjct: 63  NE-------LQCIICSEYFIEAVTLNCAHSFCSYCIN-EWMKRKIECPICRKDIKSKTY 113

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 58

 Score = 46.5 bits (111), Expect = 1e-07
 Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 2/46 (4%)

Query: 203 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQR--KCPKC 246
           +   +C  C    K+ V+ +C H FC  C+   +E  +R   CP C
Sbjct: 13  QVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 65

 Score = 46.5 bits (110), Expect = 1e-07
 Identities = 11/57 (19%), Positives = 21/57 (36%), Gaps = 5/57 (8%)

Query: 204 ETLTCPSCKVKR-----KDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDY 255
           +   CP CK  +        ++  C H  C  C+   +      CP+C      +++
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF 58

>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 = 48.6 bits (115), Expect = 2e-07
 Identities = 9/54 (16%), Positives = 20/54 (37%)

Query: 201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAND 254
           + +    C +C+   +     +C H +C  CL +   +  + C  C       +
Sbjct: 27  KLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEE 80

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens} Length = 92

 Score = 47.1 bits (112), Expect = 2e-07
 Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 2/58 (3%)

Query: 195 MMEEIREYKETLTCPSCKVKRKDAVLTK-CFHVFCWDCLRTR-YETRQRKCPKCNAAF 250
           +  E     + L C  CK    DAV+   C + +C +C+RT   E+ +  CP C+   
Sbjct: 3   LGSEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQND 60

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 63

 Score = 46.2 bits (110), Expect = 2e-07
 Identities = 16/46 (34%), Positives = 20/46 (43%), Gaps = 2/46 (4%)

Query: 203 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQR--KCPKC 246
           +E + CP C    +  V   C H FC  C+    ET     KCP C
Sbjct: 18  QEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 69

 Score = 46.4 bits (110), Expect = 2e-07
 Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 8/52 (15%)

Query: 204 ETLTCPSC-------KVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNA 248
            T++CP C           +  V T+C HVFC  CLR         CP C  
Sbjct: 14  GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLR-DSLKNANTCPTCRK 64

>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 = 48.8 bits (116), Expect = 2e-07
 Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 1/72 (1%)

Query: 180 ERMKKIEQAGTLDEVMMEEIREYKETLTCPSCKVKRKDAVLTK-CFHVFCWDCLRTRYET 238
           E  +  ++A T    ++   R     L CP C    K+ + TK C H FC DC+ T   +
Sbjct: 29  ELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRS 88

Query: 239 RQRKCPKCNAAF 250
             ++CP C    
Sbjct: 89  GNKECPTCRKKL 100

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus} Length = 85

 Score = 46.6 bits (111), Expect = 2e-07
 Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 5/53 (9%)

Query: 203 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRK-----CPKCNAAF 250
           KE +TCP C    K+ V   C H FC  C+   YE+ +       CP C   +
Sbjct: 17  KEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPY 69

>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 = 47.1 bits (112), Expect = 3e-07
 Identities = 16/57 (28%), Positives = 21/57 (36%)

Query: 201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHR 257
             +    CP C +  ++AV T C H FC  C+         KCP  N     N    
Sbjct: 14  PLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFP 70

>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 = 46.4 bits (110), Expect = 4e-07
 Identities = 14/54 (25%), Positives = 23/54 (42%)

Query: 201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAND 254
            + ++++C  C+    D V T C H+FC  C+    +     CP C       D
Sbjct: 19  HFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD 72

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 49.5 bits (117), Expect = 5e-07
 Identities = 33/243 (13%), Positives = 81/243 (33%), Gaps = 49/243 (20%)

Query: 57  NQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQT--VLTNVEKELHLRNQ 114
            +L            +  + +KL+I ++   +R+L + + Y     VL NV+        
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN-- 260

Query: 115 AMDLN--------KRKAIESAQSAADLKLHLEKYHAQLKEAQ------QVVTEKTSSLEA 160
           A +L+         ++  +   +A    + L+ +   L   +      + +  +   L  
Sbjct: 261 AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR 320

Query: 161 EAYKT---------KRLQEEIAQLRR----KTERMKKIEQAGTLDEVMMEEIREYKETLT 207
           E   T         + +++ +A          +++  I ++ +L+ +   E R+  + L+
Sbjct: 321 EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES-SLNVLEPAEYRKMFDRLS 379

Query: 208 CPSCKVKRKDAVLTKCFHVFC--WDCLRTRYETRQ--RKCPKCNAAFGAND-----YHRL 258
                V    A +     +    W  +  + +      K  K +               +
Sbjct: 380 -----VFPPSAHIPT--ILLSLIWFDV-IKSDVMVVVNKLHKYSLVEKQPKESTISIPSI 431

Query: 259 YLE 261
           YLE
Sbjct: 432 YLE 434

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus} Length = 133

 Score = 46.7 bits (110), Expect = 6e-07
 Identities = 16/47 (34%), Positives = 21/47 (44%), Gaps = 1/47 (2%)

Query: 214 KRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYL 260
             +  V T+C HVFC  CLR   +     CP C        YH +Y+
Sbjct: 88  NGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKINHKRYHPIYI 133

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus} Length = 133

 Score = 42.8 bits (100), Expect = 1e-05
 Identities = 17/55 (30%), Positives = 22/55 (40%), Gaps = 8/55 (14%)

Query: 203 KETLTCPSC-------KVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF 250
             T++CP C           +  V T+C HVFC  CLR   +     CP C    
Sbjct: 5   SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKI 58

>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 = 45.8 bits (108), Expect = 2e-06
 Identities = 16/57 (28%), Positives = 21/57 (36%)

Query: 201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHR 257
             +    CP C +  ++AV T C H FC  C+         KCP  N     N    
Sbjct: 14  PLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFP 70

>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 Length = 117

 Score = 43.4 bits (102), Expect = 6e-06
 Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 4/49 (8%)

Query: 203 KETLTCPSCKVKRKDAV-LTKCFHVFCWDCLRTRYETRQRKCPKCNAAF 250
           ++ L C  C    ++ V L  C H+FC +C+     T    CP C    
Sbjct: 20  EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGT---GCPVCYTPA 65

>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 = 43.4 bits (102), Expect = 6e-06
 Identities = 11/48 (22%), Positives = 14/48 (29%)

Query: 204 ETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG 251
               C  C     + V   C H  C  C ++  E     CP C     
Sbjct: 14  SECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS 61

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 85

 Score = 42.3 bits (100), Expect = 7e-06
 Identities = 15/53 (28%), Positives = 21/53 (39%), Gaps = 5/53 (9%)

Query: 203 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRK-----CPKCNAAF 250
           KE +TCP C       +   C H FC  CL   ++          CP C  ++
Sbjct: 17  KEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISY 69

>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 = 43.2 bits (102), Expect = 8e-06
 Identities = 18/63 (28%), Positives = 27/63 (42%), Gaps = 4/63 (6%)

Query: 192 DEVMMEE--IREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQ--RKCPKCN 247
             V   +  I   ++ L CP C    K+ V TKC H+FC  C+      ++   +CP C 
Sbjct: 6   LRVEEVQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCK 65

Query: 248 AAF 250
              
Sbjct: 66  NDI 68

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1 Length = 68

 Score = 41.6 bits (98), Expect = 9e-06
 Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 2/45 (4%)

Query: 207 TCPSCKVKRKD-AVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF 250
            CP C     + ++   C H FC+ C+      +   CP C    
Sbjct: 7   RCPICLEDPSNYSMALPCLHAFCYVCITRWIR-QNPTCPLCKVPV 50

>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 = 41.1 bits (97), Expect = 2e-05
 Identities = 12/54 (22%), Positives = 20/54 (37%), Gaps = 6/54 (11%)

Query: 203 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRK------CPKCNAAF 250
           +E +TCP C     + +   C H  C  C+    +           CP C  ++
Sbjct: 10  QEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISY 63

>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 = 41.7 bits (98), Expect = 2e-05
 Identities = 17/68 (25%), Positives = 24/68 (35%), Gaps = 2/68 (2%)

Query: 191 LDEVMMEEIREYKETLTCPSCKVKRKDAV-LTKCFHVFCWDCLRTRYETRQRKCPKCNAA 249
           +      +I E    L C  C     DA  + +C H FC  C+    ET  + CP C+  
Sbjct: 1   MHRTTRIKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETS-KYCPICDVQ 59

Query: 250 FGANDYHR 257
                   
Sbjct: 60  VHKTRPLL 67

>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 Length = 114

 Score = 42.1 bits (98), Expect = 2e-05
 Identities = 17/62 (27%), Positives = 21/62 (33%), Gaps = 6/62 (9%)

Query: 196 MEEIREYKETLTCPSCKVKRKDAV--LTKCFHVFCWDCLRTRYETRQRK----CPKCNAA 249
           ME++            K      V  LTKC H F   CL   Y    +     CP C   
Sbjct: 32  MEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTI 91

Query: 250 FG 251
           +G
Sbjct: 92  YG 93

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 43.9 bits (104), Expect = 3e-05
 Identities = 24/169 (14%), Positives = 63/169 (37%), Gaps = 18/169 (10%)

Query: 26   EDMQEQNSRLLQQLREKDDANFKLMTERIKS-NQLHKLAREEKDILHEQVNALKLQIDAM 84
            E  ++ +  L  ++ +        +  +I   N+ +K   E+ + L    +    ++ + 
Sbjct: 917  ERYKKLHIGLENKIMQ--------LQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSD 968

Query: 85   HTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQL 144
               +R  EE+ +     + ++++E+    + +   + +     + A   K   E+  ++L
Sbjct: 969  VERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSEL 1028

Query: 145  KEAQQVVTEKTSSLEAEAY---------KTKRLQEEIAQLRRKTERMKK 184
            KE   ++  +   L    +           K+L EE  QL       + 
Sbjct: 1029 KEQNTLLKTEKEELNRRIHDQAKEITETMEKKLVEETKQLELDLNDERL 1077

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 41.2 bits (97), Expect = 2e-04
 Identities = 26/179 (14%), Positives = 70/179 (39%), Gaps = 16/179 (8%)

Query: 29   QEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAI 88
              +    LQ    +  A  +L   +I++  + +  ++    L  ++  L+ +ID  +   
Sbjct: 886  TLKAIVYLQCCYRRMMAKRELKKLKIEARSVERY-KKLHIGLENKIMQLQRKIDEQNKEY 944

Query: 89   RKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQ 148
            + L EK   L+   +   ++L           R  +E  + + +     +    ++   Q
Sbjct: 945  KSLLEKMNNLEITYSTETEKL-----------RSDVERLRMSEE---EAKNATNRVLSLQ 990

Query: 149  QVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERM-KKIEQAGTLDEVMMEEIREYKETL 206
            + + +    L     + K ++E   + + +TE++  ++++  TL +   EE+       
Sbjct: 991  EEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQ 1049

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 40.1 bits (94), Expect = 5e-04
 Identities = 24/197 (12%), Positives = 66/197 (33%), Gaps = 8/197 (4%)

Query: 10   EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDI 69
            +    + +  +  QA        ++    LRE    +  +              R  K I
Sbjct: 833  KRYQCMRDATIALQALLRGYLVRNKYQMMLREH--KSIIIQKHVRGWLARVHYHRTLKAI 890

Query: 70   LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQS 129
            ++ Q    ++        ++         + +   +E ++    + +D   ++     + 
Sbjct: 891  VYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEK 950

Query: 130  AADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAG 189
              +L++       +L+   + +       +    +   LQEEIA+LR++  + +  ++  
Sbjct: 951  MNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKT- 1009

Query: 190  TLDEVMMEEIREYKETL 206
                 + E   +YK   
Sbjct: 1010 -----IEEWADKYKHET 1021

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus} Length = 101

 Score = 40.2 bits (93), Expect = 7e-05
 Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)

Query: 208 CPSCKVKRKDAV-LTKCFHVFCWDCLRTRYETRQRKCPKCNA 248
           C  C +  K    +  C HVFC+DC     +   + CP C+ 
Sbjct: 4   CDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSD 45

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 88

 Score = 37.8 bits (88), Expect = 4e-04
 Identities = 14/50 (28%), Positives = 19/50 (38%), Gaps = 6/50 (12%)

Query: 203 KETLTCPSC----KVKRKDAVLTKCFHVFCWDCLRTRYETRQR--KCPKC 246
           +E L CP C      ++    L  C H  C  CL     +     +CP C
Sbjct: 13  REVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFC 62

>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 = 36.8 bits (85), Expect = 5e-04
 Identities = 9/54 (16%), Positives = 19/54 (35%), Gaps = 3/54 (5%)

Query: 200 REYKETL-TCPSCK-VKRKDAVLTKCFHVFCWDCLRTRYETRQ-RKCPKCNAAF 250
             Y + +  C  C  +  +      C       C+   +++    +CP CN  +
Sbjct: 9   ETYPDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 62

>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 Length = 79

 Score = 37.1 bits (86), Expect = 5e-04
 Identities = 16/69 (23%), Positives = 28/69 (40%), Gaps = 8/69 (11%)

Query: 193 EVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVF-CWDCLRTRYETRQRKCPKCNAAFG 251
            V+ E++R+ KE + C  C  +  ++    C H   C  C       + + CP C +   
Sbjct: 6   RVLQEKLRKLKEAMLCMVCCEEEINSTFCPCGHTVCCESCAA-----QLQSCPVCRSRV- 59

Query: 252 ANDYHRLYL 260
                 +YL
Sbjct: 60  -EHVQHVYL 67

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C* Length = 3245

 Score = 39.9 bits (93), Expect = 6e-04
 Identities = 23/168 (13%), Positives = 73/168 (43%), Gaps = 20/168 (11%)

Query: 15   LNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQV 74
            L ++  T    +D+Q   ++  ++L  K++   + + + ++  Q  ++ +++      + 
Sbjct: 1926 LKKLRDTEAQVKDLQVSLAQKNRELDVKNEQANQKLKQMVQDQQAAEIKQKD-----ARE 1980

Query: 75   NALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAAD-L 133
              ++L +     A++K++               +L           R+ +E  ++AA+ L
Sbjct: 1981 LQVQLDVRNKEIAVQKVK------------AYADLEKAEPTGP--LREEVEQLENAANEL 2026

Query: 134  KLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTER 181
            KL  ++  A +   ++ +            +T++++ E ++++ K +R
Sbjct: 2027 KLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDR 2074

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 75

 Score = 36.7 bits (85), Expect = 6e-04
 Identities = 14/65 (21%), Positives = 23/65 (35%), Gaps = 8/65 (12%)

Query: 197 EEIREYKETLTCPSCKVKRKDAVLTKCFHVF-CWDCLRTRYETRQRKCPKCNAAFGANDY 255
           E++R  +E   C  C  +    V   C H+  C  C          KCP C         
Sbjct: 17  EQLRRLQEEKLCKICMDRNIAIVFVPCGHLVTCKQC-----AEAVDKCPMCYTVI--TFK 69

Query: 256 HRLYL 260
            ++++
Sbjct: 70  QKIFM 74

>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} Length = 267

 Score = 39.2 bits (90), Expect = 7e-04
 Identities = 29/231 (12%), Positives = 72/231 (31%), Gaps = 14/231 (6%)

Query: 28  MQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTA 87
           +  ++ +    L  +D +N        + ++      +        +      I + +  
Sbjct: 14  LHPKSGKYFHNLHARDLSN-IYQQCYKQIDETINQLVDSTSPSTIGIEEQVADITSTYKL 72

Query: 88  IRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEA 147
           +   E +       + +++K     + A         +  ++       L + +  +   
Sbjct: 73  LSTYESESNSFDEHIKDLKKNFKQSSDACPQIDLSTWDKYRTGELTAPKLSELYLNMPTP 132

Query: 148 QQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKIEQAGTLDEVMMEEIREYKETLT 207
           +       +         K L+         T  +  ++     D++ +E     K  LT
Sbjct: 133 EPATMVNNTDTL------KILKVLPYIWNDPTCVIPDLQNPADEDDLQIEGG---KIELT 183

Query: 208 CPSCKVKRKDAVL-TKCFHVFCWDCLRTRYETR-QRKCPK--CNAAFGAND 254
           CP      +  ++  KC HVF  D ++   +    R CP+  C+      D
Sbjct: 184 CPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRD 234

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	262
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.64
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.58
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.58
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.58
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.57
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.56
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.56
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.54
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.53
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.53
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.51
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.5
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.49
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.49
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.49
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.49
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.49
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.48
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.48
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	99.48
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.47
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.47
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.45
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.44
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.43
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.43
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.43
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.43
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.42
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.41
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.41
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	99.41
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.4
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.39
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.39
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.38
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.38
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.37
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.37
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.35
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.34
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.33
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.32
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.32
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.31
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.3
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.3
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.3
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.3
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.29
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.28
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.27
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.27
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.26
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.25
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.23
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.21
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.21
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.2
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	99.18
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	99.14
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.11
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	99.1
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	98.97
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.93
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	98.89
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	98.76
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.67
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.58
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	98.45
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	98.31
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.16
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	98.11
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	97.9
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	97.77
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	97.74
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	97.72
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	97.62
1joc_A	125	EEA1, early endosomal autoantigen 1; FYVE domain,	97.18
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	97.01
3nw0_A	238	Non-structural maintenance of chromosomes element	96.95
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	96.95
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	96.94
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	96.69
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	96.61
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	96.55
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	96.51
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	96.5
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	96.36
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	96.02
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	95.9
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	95.83
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	95.62
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	95.56
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	95.55
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	95.53
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	95.39
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	95.06
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	94.73
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	94.68
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	94.67
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	94.67
1z60_A	59	TFIIH basal transcription factor complex P44 subun	94.44
3i2d_A	371	E3 SUMO-protein ligase SIZ1; signal transduction,	94.35
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	94.21
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	94.11
2e7s_A	135	RAB guanine nucleotide exchange factor SEC2; coile	93.86
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	93.78
4fo9_A	360	E3 SUMO-protein ligase PIAS2; E3 ligase, pinit dom	93.42
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	93.13
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	92.98
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	92.92
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	92.89
2zet_C	153	Melanophilin; complex, GTP-binding protein, GTPase	92.69
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	92.54
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	92.25
1y02_A	120	CARP2, FYVE-ring finger protein sakura; zinc-bindi	91.5
3mpx_A	434	FYVE, rhogef and PH domain-containing protein 5; s	91.17
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	90.7
3cvf_A	79	Homer-3, homer protein homolog 3; coiled coil, alt	90.57
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	90.07
2fiy_A	309	Protein FDHE homolog; FDHE protein, structural gen	90.02
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	89.98
1zbd_B	134	Rabphilin-3A; G protein, effector, RABCDR, synapti	89.69
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	89.54
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	89.52
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	89.39
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	89.09
3i00_A	120	HIP-I, huntingtin-interacting protein 1; transcrip	89.05
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	88.97
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	88.73
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	88.62
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	88.57
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	88.02
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	87.58
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	87.47
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	87.29
2gmg_A	105	Hypothetical protein PF0610; winged-helix like pro	86.85
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	86.71
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	86.48
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	86.07
3t7l_A	90	Zinc finger FYVE domain-containing protein 16; str	85.24
2yw8_A	82	RUN and FYVE domain-containing protein 1; structur	85.01
1vfy_A	73	Phosphatidylinositol-3-phosphate binding FYVE doma	84.82
4gkw_A	167	Spindle assembly abnormal protein 6; double helix,	84.82
1vd4_A	62	Transcription initiation factor IIE, alpha subunit	84.67
2i1j_A	575	Moesin; FERM, coiled-coil, C-ermad, ERM, radixin,	84.46
1z2q_A	84	LM5-1; membrane protein, FYVE domain, zinc-finger;	84.32
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	84.16
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	84.13
2jr6_A	68	UPF0434 protein NMA0874; solution, structural geno	84.05
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	84.01
1dvp_A	220	HRS, hepatocyte growth factor-regulated tyrosine k	83.91
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	83.25
1yuz_A	202	Nigerythrin; rubrythrin, rubredoxin, hemerythrin,	82.81
3zyq_A	226	Hepatocyte growth factor-regulated tyrosine kinas	82.38
1wfk_A	88	Zinc finger, FYVE domain containing 19; riken stru	82.33
3pwf_A	170	Rubrerythrin; non heme iron peroxidases, oxidative	82.19
1x4u_A	84	Zinc finger, FYVE domain containing 27 isoform B;	81.92
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	81.09
3uk3_C	57	Zinc finger protein 217; transcription factor, DNA	80.98
2jrp_A	81	Putative cytoplasmic protein; two-zinc binding pro	80.87
2jne_A	101	Hypothetical protein YFGJ; zinc fingers, two zinc,	80.64
2jny_A	67	Uncharacterized BCR; structure, CGR1, NESG, struct	80.34
2hf1_A	68	Tetraacyldisaccharide-1-P 4-kinase; LPXK, lipid A	80.09

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=99.64  E-value=3.5e-16  Score=121.11  Aligned_cols=51  Identities=27%  Similarity=0.638  Sum_probs=45.0

Q ss_pred             ccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      +...+.|+||...|.+|+++||||+||..|+..|+. +...||.||.++...
T Consensus        50 ~~~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           50 LENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMK-RKIECPICRKDIKSK  100 (138)
T ss_dssp             HHHHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTT-TCSBCTTTCCBCCCE
T ss_pred             ccccCCCcccCcccCCceECCCCCCccHHHHHHHHH-cCCcCCCCCCcCCCC
Confidence            334588999999999999999999999999999987 567899999999654

>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=99.58  E-value=1.6e-15  Score=115.22  Aligned_cols=61  Identities=25%  Similarity=0.537  Sum_probs=51.9

Q ss_pred             HHHHHhccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCC-CCcc
Q psy16189        196 MEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA-NDYH  256 (262)
Q Consensus       196 ~~e~~~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~-~d~~  256 (262)
                      ......+...+.|+||...|.+|++++|||+||..|+..|+..+...||.||.++.. .++.
T Consensus        43 ~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~  104 (124)
T 3fl2_A           43 QLFLSKVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQ  104 (124)
T ss_dssp             HHHHHHHHHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCC
T ss_pred             HHHHHhCccCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCCCCCCC
Confidence            344455666799999999999999999999999999999998777799999999976 4443

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=99.58  E-value=1.3e-15  Score=106.19  Aligned_cols=58  Identities=17%  Similarity=0.356  Sum_probs=51.5

Q ss_pred             ccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      +...+.|+||...+.+|++++|||+||..|+..|+..+...||.||.++...++.+.+
T Consensus         5 ~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~~n~   62 (78)
T 1t1h_A            5 FPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNY   62 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECT
T ss_pred             CcccCCCCCccccccCCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCccCH
Confidence            4557899999999999999999999999999999987688999999999877766543

>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=99.58  E-value=9.2e-16  Score=112.18  Aligned_cols=63  Identities=24%  Similarity=0.616  Sum_probs=55.2

Q ss_pred             HHHHhccccCccccccccccccee-ccccccccHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        197 EEIREYKETLTCPSCKVKRKDAVL-TKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       197 ~e~~~~~~~~~C~iC~~~~~~~v~-l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      .....+...+.|+||...|.+|+. ++|||+||..||..|+......||.||.+|...++.+.+
T Consensus        14 ~~~~~l~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~~~~   77 (100)
T 3lrq_A           14 QSVESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCR   77 (100)
T ss_dssp             HHHHHHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECT
T ss_pred             cccccCCCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhHhhH
Confidence            445556777999999999999999 999999999999999997767899999999888877654

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus}

Probab=99.57  E-value=8e-16  Score=105.15  Aligned_cols=57  Identities=35%  Similarity=0.847  Sum_probs=51.7

Q ss_pred             cccCcccccccccccc-------eeccccccccHHHHHHHhccCCCCccCCCcccCCCCcccccc
Q psy16189        203 KETLTCPSCKVKRKDA-------VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~-------v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      .....|+||.+.+.+|       ++++|||+||..|+..|+.. ...||.||.++...+++++||
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~l   71 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKRYHPIYI   71 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHH-CSBCTTTCCBCCCCSCCCCCC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHc-CCCCCCCCCccChhheeeccC
Confidence            3468899999999887       88999999999999999985 468999999999999999997

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens}

Probab=99.56  E-value=1.4e-15  Score=101.75  Aligned_cols=55  Identities=35%  Similarity=0.864  Sum_probs=50.5

Q ss_pred             cCcccccccccccc-------eeccccccccHHHHHHHhccCCCCccCCCcccCCCCcccccc
Q psy16189        205 TLTCPSCKVKRKDA-------VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       205 ~~~C~iC~~~~~~~-------v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      ...|+||...+.++       +.++|||+||..|+..|+.. ...||.||.++...++.++||
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~l   64 (64)
T 2xeu_A            3 MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKRYHPIYI   64 (64)
T ss_dssp             CCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHH-CSBCTTTCCBCTTTCEEECCC
T ss_pred             CCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHc-CCCCCCCCccCCccceeeeeC
Confidence            47899999999876       78999999999999999985 668999999999999999997

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.56  E-value=2.2e-15  Score=101.32  Aligned_cols=57  Identities=23%  Similarity=0.686  Sum_probs=50.9

Q ss_pred             cCccccccc-ccccc----eeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccccC
Q psy16189        205 TLTCPSCKV-KRKDA----VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLE  261 (262)
Q Consensus       205 ~~~C~iC~~-~~~~~----v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~~  261 (262)
                      ...|+||.. .+.+|    ++++|||+||..|+..|+..+...||.||.++...++.+++|.
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~   64 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQLFE   64 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCCEEECCC
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCccccccceeeccc
Confidence            478999999 88887    5789999999999999987677789999999999999998875

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.54  E-value=3.3e-15  Score=100.71  Aligned_cols=54  Identities=20%  Similarity=0.538  Sum_probs=48.5

Q ss_pred             ccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCc
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDY  255 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~  255 (262)
                      +...+.|+||...+.+|+.++|||+||..|+..|+..+...||.||.++...++
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~i   65 (66)
T 2ecy_A           12 VEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKDKV   65 (66)
T ss_dssp             CCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTTC
T ss_pred             CCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhhc
Confidence            456789999999999999999999999999999997667789999999987654

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens}

Probab=99.53  E-value=1.8e-15  Score=105.60  Aligned_cols=60  Identities=20%  Similarity=0.540  Sum_probs=52.2

Q ss_pred             hccccCcccccccccccceeccccccccHHHHHHHhccC------CCCccCCCcccCCCCcccccc
Q psy16189        201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETR------QRKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~------~~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      .+...+.|+||...|.+|++++|||+||..|+..|+...      ...||.||.++...++.+.+.
T Consensus         8 ~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~   73 (79)
T 2egp_A            8 NVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQANQH   73 (79)
T ss_dssp             CCCCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGGGTCSS
T ss_pred             hcccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhCCcCHH
Confidence            356678999999999999999999999999999998853      678999999999888776653

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.53  E-value=5.3e-15  Score=101.62  Aligned_cols=55  Identities=31%  Similarity=0.620  Sum_probs=48.7

Q ss_pred             hccccCcccccccccccceeccccccccHHHHHHHhcc--CCCCccCCCcccCCCCc
Q psy16189        201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYET--RQRKCPKCNAAFGANDY  255 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~~~d~  255 (262)
                      .+...+.|+||...+.+|++++|||+||..|+..|+..  +...||.||.++...++
T Consensus        16 ~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~   72 (73)
T 2ysl_A           16 KLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAI   72 (73)
T ss_dssp             CCCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCCC
T ss_pred             hCccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcccC
Confidence            45667899999999999999999999999999999973  56689999999988765

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.51  E-value=1.1e-14  Score=102.77  Aligned_cols=60  Identities=30%  Similarity=0.685  Sum_probs=52.3

Q ss_pred             hccccCcccccccccccceeccccccccHHHHHHHhccC-----CCCccCCCcccCCCCcccccc
Q psy16189        201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETR-----QRKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~-----~~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      .+...+.|+||...+.+|++++|||+||..|+..|+...     ...||.||.++...++.+.+.
T Consensus        15 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~   79 (85)
T 2ecw_A           15 MIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPNLH   79 (85)
T ss_dssp             CCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCEECSC
T ss_pred             hCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCCcCHH
Confidence            355678999999999999999999999999999999862     678999999999888776653

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens}

Probab=99.50  E-value=8.7e-15  Score=105.19  Aligned_cols=57  Identities=26%  Similarity=0.571  Sum_probs=47.7

Q ss_pred             hccccCcccccccccccceecc-ccccccHHHHHHHhcc-CCCCccCCCccc-CCCCccc
Q psy16189        201 EYKETLTCPSCKVKRKDAVLTK-CFHVFCWDCLRTRYET-RQRKCPKCNAAF-GANDYHR  257 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l~-CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~-~~~d~~~  257 (262)
                      .+...+.|+||...|.+|++++ |||+||..|+..|+.. +...||.||.++ ...++.+
T Consensus         9 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~   68 (92)
T 3ztg_A            9 PIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIA   68 (92)
T ss_dssp             CCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEE
T ss_pred             cCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCc
Confidence            3566799999999999999999 9999999999999964 347899999998 4444443

>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=99.49  E-value=1.5e-14  Score=105.59  Aligned_cols=57  Identities=7%  Similarity=-0.039  Sum_probs=50.9

Q ss_pred             ccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      +...+.||||...|.+||+++|||+||..||..||. +...||.||.++...++.+.+
T Consensus        26 ~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~-~~~~cP~~~~~l~~~~L~pn~   82 (100)
T 2kre_A           26 APDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLL-NSPTDPFNRQTLTESMLEPVP   82 (100)
T ss_dssp             CSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTT-SCSBCSSSCCBCCTTSSEECH
T ss_pred             CcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHH-cCCCCCCCCCCCChhhceECH
Confidence            455799999999999999999999999999999998 568899999999988776653

>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=99.49  E-value=1.8e-14  Score=107.22  Aligned_cols=63  Identities=27%  Similarity=0.585  Sum_probs=52.7

Q ss_pred             HHHHhccccCcccccccccccceeccccccccHHHHHHHhccC--CCCccCCCcccCCCCccccc
Q psy16189        197 EEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETR--QRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       197 ~e~~~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      .....+...+.|+||...+.+|++++|||+||..|+..|+...  ...||.||.++...++.+.+
T Consensus        13 ~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~   77 (112)
T 1jm7_A           13 NVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQEST   77 (112)
T ss_dssp             HHHHHHHHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCC
T ss_pred             HHHHhccCCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhcCccH
Confidence            3344555668999999999999999999999999999999853  35799999999988776654

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.49  E-value=1.6e-14  Score=102.84  Aligned_cols=59  Identities=25%  Similarity=0.585  Sum_probs=50.9

Q ss_pred             hccccCccccccccccc----ceeccccccccHHHHHHHhccC--CCCccCCCcccCCCCccccc
Q psy16189        201 EYKETLTCPSCKVKRKD----AVLTKCFHVFCWDCLRTRYETR--QRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~----~v~l~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      .+...+.|+||...|.+    |++++|||+||..|+..|+...  ...||.||.++...++..+.
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~i~~l~   75 (88)
T 2ct2_A           11 ALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLTQLT   75 (88)
T ss_dssp             CCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSSTTTSE
T ss_pred             hccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccchhHHHHH
Confidence            35667899999999998    9999999999999999999865  47899999999887776553

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.49  E-value=1.4e-14  Score=102.26  Aligned_cols=60  Identities=25%  Similarity=0.576  Sum_probs=52.4

Q ss_pred             hccccCcccccccccccceeccccccccHHHHHHHhcc-----CCCCccCCCcccCCCCcccccc
Q psy16189        201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYET-----RQRKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~-----~~~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      .+...+.|+||...+.+|++++|||+||..|+..|+..     +...||.||.++...++.+.+.
T Consensus        15 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~   79 (85)
T 2ecv_A           15 NVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPNRH   79 (85)
T ss_dssp             CCCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSSCCCSCC
T ss_pred             HccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHhcCccHH
Confidence            45667899999999999999999999999999999875     3678999999999888876653

>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=99.49  E-value=1.2e-14  Score=113.90  Aligned_cols=53  Identities=30%  Similarity=0.791  Sum_probs=47.8

Q ss_pred             hccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      .+...+.|+||...|.+|++++|||+||..|+..|+..+...||.||.++...
T Consensus        74 ~l~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           74 KLEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHHHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             hCccCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            34456899999999999999999999999999999997777899999999876

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens}

Probab=99.48  E-value=1.4e-14  Score=99.93  Aligned_cols=55  Identities=29%  Similarity=0.590  Sum_probs=47.1

Q ss_pred             hccccCcccccccccccceecc-ccccccHHHHHHHhccC-CCCccCCCcccCCCCc
Q psy16189        201 EYKETLTCPSCKVKRKDAVLTK-CFHVFCWDCLRTRYETR-QRKCPKCNAAFGANDY  255 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l~-CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~~d~  255 (262)
                      .+...+.|+||...|.+|++++ |||+||..|+..|+... ...||.||.++...|.
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~   67 (74)
T 2yur_A           11 PIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDA   67 (74)
T ss_dssp             CSCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTTT
T ss_pred             cCCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCccc
Confidence            4566789999999999999999 99999999999999853 3689999998765443

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.48  E-value=2e-14  Score=98.58  Aligned_cols=57  Identities=28%  Similarity=0.627  Sum_probs=49.5

Q ss_pred             HhccccCcccccccccccceec-cccccccHHHHHHHhccCCCCccCCCcccCCCCccc
Q psy16189        200 REYKETLTCPSCKVKRKDAVLT-KCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHR  257 (262)
Q Consensus       200 ~~~~~~~~C~iC~~~~~~~v~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~  257 (262)
                      +.+...+.|+||...+.+|+.+ +|||+||..|+..|+.. ...||.||.++...++..
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~   67 (72)
T 2djb_A           10 SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYY-SNRCPKCNIVVHQTQPLS   67 (72)
T ss_dssp             CCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHH-CSSCTTTCCCCCSSCSCC
T ss_pred             hhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHc-CCcCCCcCcccCcccccc
Confidence            3456678999999999999887 99999999999999974 578999999998876654

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=99.48  E-value=2e-13  Score=109.27  Aligned_cols=58  Identities=5%  Similarity=-0.046  Sum_probs=51.2

Q ss_pred             ccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      +...+.||||+..|.+||+++|||+||..||..|+..+...||.||.++...++.+.+
T Consensus       103 ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~pN~  160 (179)
T 2f42_A          103 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNL  160 (179)
T ss_dssp             CCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECH
T ss_pred             CcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcchH
Confidence            4556999999999999999999999999999999987555799999999888777654

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=99.47  E-value=1.6e-14  Score=102.34  Aligned_cols=56  Identities=9%  Similarity=-0.026  Sum_probs=50.0

Q ss_pred             ccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCcccc
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRL  258 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~i  258 (262)
                      +...+.||||...|.+||+++|||+||..||..|+.. ...||.||.++...++.+.
T Consensus        11 ~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~~~~l~pn   66 (85)
T 2kr4_A           11 APDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLN-SPTDPFNRQMLTESMLEPV   66 (85)
T ss_dssp             CCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHH-CSBCTTTCCBCCGGGCEEC
T ss_pred             CchheECcccCchhcCCeECCCCCEECHHHHHHHHhc-CCCCCCCcCCCChHhcchH
Confidence            4557999999999999999999999999999999984 6789999999988777654

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens}

Probab=99.47  E-value=1.4e-14  Score=105.57  Aligned_cols=58  Identities=22%  Similarity=0.496  Sum_probs=49.4

Q ss_pred             hccccCcccccccccccceec-cccccccHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        201 EYKETLTCPSCKVKRKDAVLT-KCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      .+...+.|+||...+.+|+.+ +|||+||..|+..|+. +...||.||.++...++.+.+
T Consensus        18 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~-~~~~CP~Cr~~~~~~~l~~n~   76 (99)
T 2y43_A           18 TIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLS-YKTQCPTCCVTVTEPDLKNNR   76 (99)
T ss_dssp             HHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHT-TCCBCTTTCCBCCGGGCEECH
T ss_pred             hCCCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHH-CCCCCCCCCCcCChhhCCcCH
Confidence            344568999999999999888 9999999999999998 457899999999877766543

>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=99.45  E-value=3.2e-14  Score=106.88  Aligned_cols=61  Identities=21%  Similarity=0.495  Sum_probs=52.7

Q ss_pred             HHHHHhccccCcccccccccccceec-cccccccHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        196 MEEIREYKETLTCPSCKVKRKDAVLT-KCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       196 ~~e~~~~~~~~~C~iC~~~~~~~v~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      ...+..+...+.|+||...|.+|+++ +|||+||..|+..|+.   ..||.||.++...++.+.+
T Consensus        13 ~~~~~~l~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~~~~~~~n~   74 (117)
T 1jm7_B           13 RAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG---TGCPVCYTPAWIQDLKINR   74 (117)
T ss_dssp             HHHHHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT---TBCSSSCCBCSCSSCCCCH
T ss_pred             HHHHHhchhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhc---CCCcCCCCcCccccccccH
Confidence            34556677789999999999999999 9999999999999987   6799999999877776543

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=99.44  E-value=3.1e-14  Score=98.15  Aligned_cols=60  Identities=23%  Similarity=0.555  Sum_probs=50.5

Q ss_pred             HHHHHHhccccCcccccccccccceecccccc-ccHHHHHHHhccCCCCccCCCcccCCCCccccccC
Q psy16189        195 MMEEIREYKETLTCPSCKVKRKDAVLTKCFHV-FCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLE  261 (262)
Q Consensus       195 l~~e~~~~~~~~~C~iC~~~~~~~v~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~~  261 (262)
                      +.++++.+.....|+||...+.+++++||||. ||..|+..|     ..||.||.+|..  ..++|++
T Consensus        14 ~~~~~~~~~~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~--~~~i~~S   74 (74)
T 4ic3_A           14 TEEQLRRLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV-----DKCPMCYTVITF--KQKILMS   74 (74)
T ss_dssp             HHHHHHHHHHHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTC-----SBCTTTCCBCSE--EEECBC-
T ss_pred             HHHHHhcCccCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcC-----ccCCCcCcCccC--cEEEeeC
Confidence            34555666777999999999999999999999 999999886     679999999864  5788874

>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=99.43  E-value=7.4e-14  Score=101.47  Aligned_cols=57  Identities=7%  Similarity=-0.029  Sum_probs=50.6

Q ss_pred             ccccCcccccccccccceecccc-ccccHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCF-HVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~Cg-H~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      +...+.||||...|++||+++|| |+||..||..||.. ...||.||.++...++.+.+
T Consensus        19 ~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~-~~~cP~~~~~l~~~~L~pn~   76 (98)
T 1wgm_A           19 ACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLTMDQIRPNT   76 (98)
T ss_dssp             CCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBCCTTTSEECH
T ss_pred             CcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHh-CCCCCCCCCCCChhhceEcH
Confidence            45579999999999999999999 99999999999985 67899999999988776653

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.43  E-value=6.1e-14  Score=98.35  Aligned_cols=49  Identities=27%  Similarity=0.657  Sum_probs=44.4

Q ss_pred             ccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      ....+.|+||...+.+|++++|||+||..|+..|+.. ...||.||.++.
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~   60 (81)
T 2csy_A           12 EEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRA-TPRCYICDQPTG   60 (81)
T ss_dssp             CCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHH-CSBCSSSCCBCC
T ss_pred             CCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHC-CCcCCCcCcccc
Confidence            4556899999999999999999999999999999974 668999999986

>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=99.43  E-value=5e-14  Score=105.66  Aligned_cols=55  Identities=25%  Similarity=0.563  Sum_probs=49.1

Q ss_pred             cccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccc
Q psy16189        203 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHR  257 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~  257 (262)
                      ...+.|+||...+.+|+.++|||+||..|+..|+..+...||.||.++...++.+
T Consensus        21 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~   75 (116)
T 1rmd_A           21 VKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLES   75 (116)
T ss_dssp             HHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBC
T ss_pred             cCCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhccc
Confidence            3458999999999999999999999999999999876788999999998777654

>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=99.43  E-value=8e-14  Score=103.21  Aligned_cols=52  Identities=31%  Similarity=0.646  Sum_probs=46.5

Q ss_pred             hccccCcccccccccccceec-cccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        201 EYKETLTCPSCKVKRKDAVLT-KCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      .+...+.|+||...+.+|+++ +|||+||..|+..|+.. ...||.||.++...
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           11 ELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHKT   63 (108)
T ss_dssp             HHGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTS-CSBCTTTCCBSCSS
T ss_pred             ccCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHh-CCcCcCCCcccccc
Confidence            456679999999999999997 99999999999999985 47899999999765

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.42  E-value=4.6e-14  Score=96.47  Aligned_cols=53  Identities=21%  Similarity=0.478  Sum_probs=46.1

Q ss_pred             cccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCcc
Q psy16189        203 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYH  256 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~  256 (262)
                      .....|+||...+.+|+.++|||+||..|+..|+.. ...||.||.+|...++.
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~   65 (71)
T 2d8t_A           13 LTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWL-GKRCALCRQEIPEDFLD   65 (71)
T ss_dssp             SSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTC-SSBCSSSCCBCCHHHHS
T ss_pred             CCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHC-CCcCcCcCchhCHhhcc
Confidence            345789999999999999999999999999999874 47899999999865544

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B

Probab=99.41  E-value=1.8e-13  Score=95.11  Aligned_cols=56  Identities=18%  Similarity=0.426  Sum_probs=46.6

Q ss_pred             ccccCcccccccccc--cceecc--ccccccHHHHHHHhccCCCCccCCCcccCCCCccc
Q psy16189        202 YKETLTCPSCKVKRK--DAVLTK--CFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHR  257 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~--~~v~l~--CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~  257 (262)
                      ++..+.||||.+.+.  +++++|  |||.||..|+..+|..+...||.||.++...++..
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~~   67 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVY   67 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSSCC
T ss_pred             cccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCchhh
Confidence            456789999999884  456665  99999999999998767788999999998776543

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.41  E-value=9.8e-14  Score=92.48  Aligned_cols=46  Identities=35%  Similarity=0.712  Sum_probs=41.3

Q ss_pred             hccccCcccccccccccceeccccccccHHHHHHHhcc--CCCCccCC
Q psy16189        201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYET--RQRKCPKC  246 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~--~~~~CP~C  246 (262)
                      .+...+.|+||...+.+|++++|||+||..|+..|+..  +...||.|
T Consensus        16 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           16 KLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             hCccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            45667899999999999999999999999999999974  56689998

>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=99.41  E-value=5.6e-14  Score=98.06  Aligned_cols=62  Identities=26%  Similarity=0.635  Sum_probs=52.2

Q ss_pred             HHHHHHHhccccCcccccccccccceecccccc-ccHHHHHHHhccCCCCccCCCcccCCCCccccccCC
Q psy16189        194 VMMEEIREYKETLTCPSCKVKRKDAVLTKCFHV-FCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLES  262 (262)
Q Consensus       194 ~l~~e~~~~~~~~~C~iC~~~~~~~v~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~~~  262 (262)
                      .+.++++.+.....|+||+..+.+++++||||. ||..|+..+     ..||.||.++..  +.++|+++
T Consensus         7 ~l~~~~~~l~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~--~~~i~~p~   69 (79)
T 2yho_A            7 VLQEKLRKLKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQL-----QSCPVCRSRVEH--VQHVYLPT   69 (79)
T ss_dssp             THHHHHHHHHHHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTC-----SBCTTTCCBCCE--EEECBCTT
T ss_pred             HHHHHHHcCCCCCEeEEeCcccCcEEEECCCCHHHHHHHHHhc-----CcCCCCCchhhC--eEEEEeCc
Confidence            355666677777899999999999999999999 999999875     379999999875  57888763

>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=99.40  E-value=6.4e-14  Score=105.43  Aligned_cols=57  Identities=28%  Similarity=0.558  Sum_probs=50.3

Q ss_pred             hccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccc
Q psy16189        201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHR  257 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~  257 (262)
                      .+...+.|+||...+.+|+.++|||+||..|+..|+......||.||.++...++.+
T Consensus        14 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~   70 (118)
T 3hct_A           14 PLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFP   70 (118)
T ss_dssp             CCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEE
T ss_pred             CCCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHhccc
Confidence            456678999999999999999999999999999999876668999999998766544

>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=99.39  E-value=9.3e-14  Score=119.35  Aligned_cols=56  Identities=5%  Similarity=-0.043  Sum_probs=49.7

Q ss_pred             cccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCcccc
Q psy16189        203 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRL  258 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~i  258 (262)
                      -..+.||||...|.+||+++|||+||..||..|+..+...||.||.++...++.+.
T Consensus       206 ~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~~n  261 (281)
T 2c2l_A          206 PDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPN  261 (281)
T ss_dssp             CSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEEC
T ss_pred             CcccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCccc
Confidence            34689999999999999999999999999999998766669999999987776654

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.39  E-value=1.7e-13  Score=94.70  Aligned_cols=59  Identities=24%  Similarity=0.599  Sum_probs=49.1

Q ss_pred             HHHHHhccccCcccccccccccceecccccc-ccHHHHHHHhccCCCCccCCCcccCCCCccccccC
Q psy16189        196 MEEIREYKETLTCPSCKVKRKDAVLTKCFHV-FCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLE  261 (262)
Q Consensus       196 ~~e~~~~~~~~~C~iC~~~~~~~v~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~~  261 (262)
                      .+..+.+.....|+||+..+.+|+++||||. ||..|+..     ...||.||.++..  ..+||++
T Consensus        16 ~~~~~~~~~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~-----~~~CP~Cr~~i~~--~~~i~~S   75 (75)
T 2ecg_A           16 EEQLRRLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEA-----VDKCPMCYTVITF--KQKIFMS   75 (75)
T ss_dssp             HHHHHHHHHHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHH-----CSBCTTTCCBCCC--CCBCCCC
T ss_pred             HHHHHcCCCCCCCCcCCCCCCCEEEecCCCHHHHHHHhhC-----CCCCccCCceecC--cEEEecC
Confidence            3455556667899999999999999999999 99999964     3679999999865  5788874

>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=99.38  E-value=6.2e-14  Score=104.95  Aligned_cols=48  Identities=23%  Similarity=0.536  Sum_probs=44.4

Q ss_pred             cCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      .+.|+||...+.+|++++|||+||..|+..|+..+...||.||.++..
T Consensus        15 ~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           15 ECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            488999999999999999999999999999998777899999999863

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.38  E-value=1.1e-13  Score=94.21  Aligned_cols=57  Identities=25%  Similarity=0.590  Sum_probs=48.8

Q ss_pred             hccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      .+.....|+||...+.+ ++++|||+||..|+..|+. +...||.||.++...+...++
T Consensus        11 ~~~~~~~C~IC~~~~~~-~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~~~~~~~   67 (70)
T 2ecn_A           11 QLTDEEECCICMDGRAD-LILPCAHSFCQKCIDKWSD-RHRNCPICRLQMTGANESSGP   67 (70)
T ss_dssp             CCCCCCCCSSSCCSCCS-EEETTTEEECHHHHHHSSC-CCSSCHHHHHCTTCCCCCCCC
T ss_pred             cCCCCCCCeeCCcCccC-cccCCCCcccHHHHHHHHH-CcCcCCCcCCcccCCCccccC
Confidence            35567899999999998 8999999999999999887 677899999999876655544

>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=99.37  E-value=1.4e-13  Score=109.59  Aligned_cols=52  Identities=31%  Similarity=0.775  Sum_probs=46.3

Q ss_pred             hccccCcccccccccccceec-cccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        201 EYKETLTCPSCKVKRKDAVLT-KCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      .+...+.|+||...|.+|+.+ +|||+||..|+..|+..+...||.||.++..
T Consensus        50 ~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           50 SLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             CCHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             hCCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            345567899999999999887 9999999999999999778889999999954

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.37  E-value=2.8e-13  Score=88.55  Aligned_cols=46  Identities=30%  Similarity=0.749  Sum_probs=40.9

Q ss_pred             hccccCcccccccccccceeccccccccHHHHHHHhcc--CCCCccCC
Q psy16189        201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYET--RQRKCPKC  246 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~--~~~~CP~C  246 (262)
                      .+...+.|+||...+.+|++++|||+||..|+..|+..  +...||.|
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           11 NLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CSCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            35667899999999999999999999999999999764  56789998

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.35  E-value=3.2e-13  Score=91.40  Aligned_cols=50  Identities=34%  Similarity=0.767  Sum_probs=43.7

Q ss_pred             ccccCcccccccccccc-------eeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        202 YKETLTCPSCKVKRKDA-------VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~-------v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      ......|+||...+.++       ++++|||+||..|+..|+.. ...||.||.+|..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINH   68 (69)
T ss_dssp             TTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHH-CSSCTTTCCCCCC
T ss_pred             CCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHc-CCCCCCCCCccCc
Confidence            34568899999999887       88999999999999999985 6689999998864

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=99.34  E-value=3.9e-13  Score=102.68  Aligned_cols=57  Identities=35%  Similarity=0.842  Sum_probs=51.6

Q ss_pred             ccCcccccccccccc-------eeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccccC
Q psy16189        204 ETLTCPSCKVKRKDA-------VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLE  261 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~-------v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~~  261 (262)
                      ..+.|+||.+.|.+|       +.++|||+||..|+..|+.. ...||.||.++...++.++|++
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~l~~l~i~   69 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKRYHPIYIG   69 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTT-CSBCTTTCCBCTTTCEEECBCS
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHh-CCCCCCCCCcCccccccccccC
Confidence            458999999999888       99999999999999999984 5689999999999999998875

>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=99.33  E-value=5.1e-13  Score=96.37  Aligned_cols=56  Identities=29%  Similarity=0.511  Sum_probs=47.0

Q ss_pred             cccCcccccccccccceecc-ccccccHHHHHHHhccC-----CCCccC--CCcc-cCCCCcccc
Q psy16189        203 KETLTCPSCKVKRKDAVLTK-CFHVFCWDCLRTRYETR-----QRKCPK--CNAA-FGANDYHRL  258 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~v~l~-CgH~fC~~Ci~~~~~~~-----~~~CP~--Cr~~-~~~~d~~~i  258 (262)
                      ...+.||||...|.+||+++ |||+||..||..||...     ...||.  |+.. +...++.+.
T Consensus         5 ~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn   69 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQD   69 (94)
T ss_dssp             SSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEEC
T ss_pred             CcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCC
Confidence            44689999999999999996 99999999999999753     468999  8877 766666554

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.32  E-value=7.4e-13  Score=92.00  Aligned_cols=55  Identities=24%  Similarity=0.515  Sum_probs=45.8

Q ss_pred             ccccCcccccccccccc---eeccccccccHHHHHHHhccCCCCccCCCcccCCCCccc
Q psy16189        202 YKETLTCPSCKVKRKDA---VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHR  257 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~---v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~  257 (262)
                      ......|+||+..|..+   +.++|||.||..|+..|+.. ...||.||.++...++.+
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~   69 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQ-HDSCPVCRKSLTGQNTAT   69 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTT-TCSCTTTCCCCCCSCSCC
T ss_pred             CCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHc-CCcCcCcCCccCCcccCC
Confidence            44568999999998765   56799999999999999974 578999999998776654

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.32  E-value=3.2e-13  Score=87.88  Aligned_cols=47  Identities=30%  Similarity=0.737  Sum_probs=41.1

Q ss_pred             cccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        203 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      ...+.|+||...|.+|++++|||+||..|+..    ....||.||.++...
T Consensus         4 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~----~~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEA----SGMQCPICQAPWPLG   50 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSS----SSSSCSSCCSSSSCC
T ss_pred             ccCCCceEeCCccCCeEEcCCCCcccHHHHcc----CCCCCCcCCcEeecC
Confidence            34688999999999999999999999999877    356799999998654

>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=99.31  E-value=4.9e-13  Score=103.64  Aligned_cols=52  Identities=17%  Similarity=0.459  Sum_probs=46.8

Q ss_pred             HhccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        200 REYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       200 ~~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      +.+...+.|+||...+.+|+.++|||+||..||..|+..+...||.||.++.
T Consensus        26 ~~l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           26 TKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             GGCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             ccCCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            3567789999999999999999999999999999999877778999999764

>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=99.30  E-value=1.1e-12  Score=87.65  Aligned_cols=54  Identities=22%  Similarity=0.555  Sum_probs=47.2

Q ss_pred             cCcccccccccccceec--ccccc-ccHHHHHHHhccCCCCccCCCcccCCCCccccccC
Q psy16189        205 TLTCPSCKVKRKDAVLT--KCFHV-FCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLE  261 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l--~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~~  261 (262)
                      ...|+||++.+++++++  ||||. ||..|+..|+. +...||.||.++.  ++.++|++
T Consensus         8 ~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~-~~~~CPiCR~~i~--~~i~i~~~   64 (64)
T 2vje_A            8 IEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKK-RNKPCPVCRQPIQ--MIVLTYFP   64 (64)
T ss_dssp             GSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHH-TTCCCTTTCCCCC--EEEEEECC
T ss_pred             cCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHH-cCCcCCCcCcchh--ceEeeecC
Confidence            47899999999999987  99999 79999999886 4567999999985  57888874

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=99.30  E-value=1.2e-12  Score=84.55  Aligned_cols=49  Identities=22%  Similarity=0.550  Sum_probs=41.6

Q ss_pred             ccccCccccccccccc---ceecc-ccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        202 YKETLTCPSCKVKRKD---AVLTK-CFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~---~v~l~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      +.....|+||.+.+.+   ++.++ |||.||..|+..|+.. ...||.||.++.
T Consensus         2 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~   54 (55)
T 1iym_A            2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV   54 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT-CCSCSSSCCCSC
T ss_pred             CCCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHc-CCcCcCCCCEeE
Confidence            3456889999999977   67776 9999999999999874 678999999874

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1

Probab=99.30  E-value=9.9e-13  Score=88.86  Aligned_cols=48  Identities=23%  Similarity=0.695  Sum_probs=42.0

Q ss_pred             ccCcccccccccccc-eeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        204 ETLTCPSCKVKRKDA-VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~-v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      ....|+||...+.+| +.++|||+||..|+..|+.. ...||.||.++..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   52 (68)
T 1chc_A            4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHH-SCSTTTTCCCCCC
T ss_pred             CCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhC-cCcCcCCChhhHh
Confidence            357899999999986 78899999999999999974 4689999999863

>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=99.30  E-value=1.2e-12  Score=84.51  Aligned_cols=46  Identities=22%  Similarity=0.538  Sum_probs=40.8

Q ss_pred             cCccccccccccc----ceeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        205 TLTCPSCKVKRKD----AVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       205 ~~~C~iC~~~~~~----~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      ...|+||.+.+.+    +++++|||.||..|+..|+... ..||.||.+|.
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~~   54 (55)
T 2ecm_A            5 SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLCSGPSS   54 (55)
T ss_dssp             CCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHT-CCCTTSCCSSC
T ss_pred             CCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcC-CcCCCCCCcCC
Confidence            4789999999865    6888999999999999999865 78999999875

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=99.29  E-value=7.1e-13  Score=101.23  Aligned_cols=56  Identities=36%  Similarity=0.862  Sum_probs=50.4

Q ss_pred             ccCcccccccccccc-------eeccccccccHHHHHHHhccCCCCccCCCcccCCCCcccccc
Q psy16189        204 ETLTCPSCKVKRKDA-------VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~-------v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      ....|+||...+..+       +.++|||+||..|+..|+.. ...||.||.++..+++.++|+
T Consensus        71 ~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~~  133 (133)
T 4ap4_A           71 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKRYHPIYI  133 (133)
T ss_dssp             SSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHH-CSBCTTTCCBCCGGGEEEECC
T ss_pred             CCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHc-CCCCCCCCCcCChhcceeeeC
Confidence            457899999988776       88899999999999999985 568999999999999999996

>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=99.28  E-value=1.6e-12  Score=86.66  Aligned_cols=54  Identities=19%  Similarity=0.557  Sum_probs=46.5

Q ss_pred             cCcccccccccccceec--ccccc-ccHHHHHHHhccCCCCccCCCcccCCCCccccccC
Q psy16189        205 TLTCPSCKVKRKDAVLT--KCFHV-FCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLE  261 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l--~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~~  261 (262)
                      ...|+||++.+++++++  ||||. ||..|+..++.. ...||.||.++.  ++.++|+.
T Consensus         7 ~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~-~~~CPiCR~~i~--~~i~i~~s   63 (63)
T 2vje_B            7 LKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKA-GASCPICKKEIQ--LVIKVFIA   63 (63)
T ss_dssp             GSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHT-TCBCTTTCCBCC--EEEEEEEC
T ss_pred             CCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHh-CCcCCCcCchhh--ceEEEecC
Confidence            47899999999999887  99999 999999998864 478999999985  57888863

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens}

Probab=99.27  E-value=2.2e-12  Score=92.41  Aligned_cols=48  Identities=25%  Similarity=0.639  Sum_probs=41.8

Q ss_pred             ccCccccccccccc---ceeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        204 ETLTCPSCKVKRKD---AVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       204 ~~~~C~iC~~~~~~---~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      ....|+||+..|..   ++.++|||.||..|+..|+. ....||.||.+|..
T Consensus        39 ~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           39 QEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQ-KSGTCPVCRCMFPP   89 (91)
T ss_dssp             SCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHT-TTCBCTTTCCBSSC
T ss_pred             CCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHH-cCCcCcCcCccCCC
Confidence            45789999999877   67889999999999999997 45689999998864

>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=99.27  E-value=1.1e-12  Score=104.78  Aligned_cols=57  Identities=28%  Similarity=0.558  Sum_probs=50.5

Q ss_pred             hccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccc
Q psy16189        201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHR  257 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~  257 (262)
                      .+...+.|+||...+.+|+.++|||+||..|+..|+..+...||.||.++...++.+
T Consensus        14 ~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~   70 (170)
T 3hcs_A           14 PLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFP   70 (170)
T ss_dssp             CCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEE
T ss_pred             CCCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhhhhh
Confidence            456678999999999999999999999999999999876679999999998776544

>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=99.26  E-value=3.3e-12  Score=113.53  Aligned_cols=58  Identities=22%  Similarity=0.481  Sum_probs=49.4

Q ss_pred             HhccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccc
Q psy16189        200 REYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHR  257 (262)
Q Consensus       200 ~~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~  257 (262)
                      +.......|+||...+.+|+++||||.||..|+..|+..+...||.||.++....+..
T Consensus       327 e~~~~~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~~i~  384 (389)
T 2y1n_A          327 EMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIV  384 (389)
T ss_dssp             HTTTSSSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEEECS
T ss_pred             hhcCCCCCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCceeEe
Confidence            3444558999999999999999999999999999998867789999999998754433

>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=99.25  E-value=3.6e-12  Score=86.36  Aligned_cols=49  Identities=27%  Similarity=0.554  Sum_probs=41.3

Q ss_pred             cccCcccccccccc---cceeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        203 KETLTCPSCKVKRK---DAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       203 ~~~~~C~iC~~~~~---~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      .....|+||...+.   .++.++|||.||..|+..|+.. ...||.||.++..
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   63 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLIT-NKKCPICRVDIEA   63 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHH-CSBCTTTCSBSCS
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHc-CCCCcCcCccccC
Confidence            44578999999884   4578899999999999999985 4579999999865

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.23  E-value=3e-12  Score=88.28  Aligned_cols=48  Identities=27%  Similarity=0.591  Sum_probs=41.9

Q ss_pred             ccCcccccccccccc---eeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        204 ETLTCPSCKVKRKDA---VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~---v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      ....|+||+..|..+   +.++|||.||..|+..|+.. ...||.||.++..
T Consensus        22 ~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~-~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           22 EQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKA-NRTCPICRADSGP   72 (75)
T ss_dssp             SCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHH-CSSCTTTCCCCCC
T ss_pred             CCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHc-CCcCcCcCCcCCC
Confidence            457899999998776   77899999999999999985 4689999999865

>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=99.21  E-value=7.2e-12  Score=93.40  Aligned_cols=48  Identities=35%  Similarity=0.663  Sum_probs=40.3

Q ss_pred             cCcccccccccccce------------------eccccccccHHHHHHHhc----cCCCCccCCCcccCC
Q psy16189        205 TLTCPSCKVKRKDAV------------------LTKCFHVFCWDCLRTRYE----TRQRKCPKCNAAFGA  252 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v------------------~l~CgH~fC~~Ci~~~~~----~~~~~CP~Cr~~~~~  252 (262)
                      ...|+||+..|..+.                  +++|||.||..||..|+.    .+...||.||..|..
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCC
Confidence            368999999986653                  789999999999999995    245689999999964

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.21  E-value=8.7e-12  Score=85.62  Aligned_cols=50  Identities=28%  Similarity=0.515  Sum_probs=42.0

Q ss_pred             ccccCcccccccccccce---eccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        202 YKETLTCPSCKVKRKDAV---LTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v---~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      +.....|+||...+..+.   +++|||.||..|+..|+..+ ..||.||.+|..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~-~~CP~Cr~~~~~   64 (74)
T 2ep4_A           12 LNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVR-KVCPLCNMPVLQ   64 (74)
T ss_dssp             CCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHC-SBCTTTCCBCSS
T ss_pred             CCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcC-CcCCCcCccccc
Confidence            455688999999987653   44999999999999999854 589999999864

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.20  E-value=9.5e-12  Score=84.10  Aligned_cols=52  Identities=25%  Similarity=0.520  Sum_probs=44.7

Q ss_pred             ccCcccccccccccceecccccc-ccHHHHHHHhccCCCCccCCCcccCCCCccccccCC
Q psy16189        204 ETLTCPSCKVKRKDAVLTKCFHV-FCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLES  262 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~v~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~~~  262 (262)
                      ....|+||++.+.+++++||||. ||..|+..     ...||.||.++..  +.+||.++
T Consensus        14 ~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~-----~~~CP~CR~~i~~--~~~i~~~~   66 (68)
T 2ea5_A           14 NSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKY-----FQQCPMCRQFVQE--SFALSGPS   66 (68)
T ss_dssp             CSSCCSSSSSSCCCCEETTTTBCCSCTTHHHH-----CSSCTTTCCCCCC--EECCCSSC
T ss_pred             CCCCCCCcCcCCCCEEEECCCChhhhHHHHhc-----CCCCCCCCcchhc--eEEeecCC
Confidence            35789999999999999999999 99999984     3679999998864  68888653

>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=99.18  E-value=6.8e-12  Score=105.25  Aligned_cols=58  Identities=29%  Similarity=0.539  Sum_probs=49.8

Q ss_pred             hccccCcccccccccccceec-cccccccHHHHHHHhccC-CCCccC--CCcccCCCCcccc
Q psy16189        201 EYKETLTCPSCKVKRKDAVLT-KCFHVFCWDCLRTRYETR-QRKCPK--CNAAFGANDYHRL  258 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~l-~CgH~fC~~Ci~~~~~~~-~~~CP~--Cr~~~~~~d~~~i  258 (262)
                      .....+.||||+..|.+||+. .|||+||..||..||..+ ...||.  |+.++...++.+-
T Consensus       177 ~~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~pN  238 (267)
T 3htk_C          177 GGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRD  238 (267)
T ss_dssp             SSBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEEC
T ss_pred             CCceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCcC
Confidence            356678999999999999985 999999999999999753 467999  9999988777653

>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=99.14  E-value=1.1e-11  Score=109.48  Aligned_cols=61  Identities=31%  Similarity=0.667  Sum_probs=52.3

Q ss_pred             HHHHHHHhccccCcccccccccccceecccccc-ccHHHHHHHhccCCCCccCCCcccCCCCccccccC
Q psy16189        194 VMMEEIREYKETLTCPSCKVKRKDAVLTKCFHV-FCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLE  261 (262)
Q Consensus       194 ~l~~e~~~~~~~~~C~iC~~~~~~~v~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~~  261 (262)
                      .+.+++..+.....|+||...+.+|+++||||. ||..|+..+     +.||.||.++..  ..++|++
T Consensus       284 ~~~~~~~~l~~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~-----~~CP~CR~~i~~--~~~i~~s  345 (345)
T 3t6p_A          284 SLEEQLRRLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL-----RKCPICRGIIKG--TVRTFLS  345 (345)
T ss_dssp             CHHHHHHHHHTTCBCTTTSSSBCCEEEETTCCEEECTTTGGGC-----SBCTTTCCBCCE--EEECC--
T ss_pred             cHHHHHHhCcCCCCCCccCCcCCceEEcCCCChhHhHHHHhcC-----CcCCCCCCCccC--eEEeecC
Confidence            456778888889999999999999999999999 999999975     579999999864  5788863

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.11  E-value=3.8e-11  Score=83.99  Aligned_cols=49  Identities=27%  Similarity=0.601  Sum_probs=39.6

Q ss_pred             cCccccccccccc--------------ceec-cccccccHHHHHHHhccCCCCccCCCcccCCCC
Q psy16189        205 TLTCPSCKVKRKD--------------AVLT-KCFHVFCWDCLRTRYETRQRKCPKCNAAFGAND  254 (262)
Q Consensus       205 ~~~C~iC~~~~~~--------------~v~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d  254 (262)
                      ...|+||...+.+              ++.+ +|||.|+..||..|+.. ...||.||.+|...+
T Consensus        15 ~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~~~   78 (81)
T 2ecl_A           15 CDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQ-NNRCPLCQQDWVVQR   78 (81)
T ss_dssp             CSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTT-CCBCTTTCCBCCEEE
T ss_pred             CCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHh-CCCCCCcCCCcchhh
Confidence            3669999998865              4444 59999999999999985 468999999987544

>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=99.10  E-value=3.9e-11  Score=79.17  Aligned_cols=56  Identities=14%  Similarity=0.184  Sum_probs=50.4

Q ss_pred             cCcccccccccccceec-cccccccHHHHHHHhccCCCCccCCCcccCCCCccccccC
Q psy16189        205 TLTCPSCKVKRKDAVLT-KCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLE  261 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~~  261 (262)
                      .+.||||.+.+.+||++ +|||+||..||..|+... .+||.+|.++...|+.++++.
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~-~~cP~t~~~L~~~~Lip~~~~   59 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDT-GNDPITNEPLSIEEIVEIVPS   59 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHH-SBCTTTCCBCCGGGCEECCCC
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhC-CCCcCCcCCCChhhcEECccC
Confidence            37899999999999999 999999999999999853 569999999999999998764

>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=98.97  E-value=3.3e-10  Score=83.16  Aligned_cols=47  Identities=23%  Similarity=0.528  Sum_probs=39.6

Q ss_pred             cCcccccccccccc------------------eeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        205 TLTCPSCKVKRKDA------------------VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       205 ~~~C~iC~~~~~~~------------------v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      ...|+||...|..+                  +.++|||.|+..||..|+.. ...||.||++|..
T Consensus        37 ~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~~~~  101 (106)
T 3dpl_R           37 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWEF  101 (106)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT-CSBCSSSCSBCCE
T ss_pred             CCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHc-CCcCcCCCCccee
Confidence            35799999988754                  44799999999999999984 6789999999754

>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=98.93  E-value=1.5e-10  Score=83.20  Aligned_cols=53  Identities=25%  Similarity=0.543  Sum_probs=42.0

Q ss_pred             ccCcccccccccccceec---cccccccHHHHHHHhcc----C---CCCccC--CCcc--cCCCCcc
Q psy16189        204 ETLTCPSCKVKRKDAVLT---KCFHVFCWDCLRTRYET----R---QRKCPK--CNAA--FGANDYH  256 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~v~l---~CgH~fC~~Ci~~~~~~----~---~~~CP~--Cr~~--~~~~d~~  256 (262)
                      ..+.|+||.+.+..+.++   +|||.||..|+..+|..    +   ...||.  |+..  +...++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~~~i~   70 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQENEIE   70 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECHHHHH
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCHHHHH
Confidence            357899999999887554   79999999999998864    2   357999  9998  6654444

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=98.89  E-value=2.1e-06  Score=72.71  Aligned_cols=138  Identities=8%  Similarity=0.084  Sum_probs=74.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         17 EMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKER   96 (262)
Q Consensus        17 Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~   96 (262)
                      ++..+-.....+...-..++..+.++++.+..+......++.....+..+...++.++..++..+.+....+....    
T Consensus        12 ~LQ~lD~~i~~l~~~~~~lp~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~~~~~~l~~v~----   87 (256)
T 3na7_A           12 EISHLDKEIDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSEIK----   87 (256)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCS----
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccC----
Confidence            3444444455555555556677777777777776666666666666666666666666555555555444332111    


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q psy16189         97 YLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLE  159 (262)
Q Consensus        97 ~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le  159 (262)
                       ....+..|.+++...+..+......+.++...+..+...+..+...+..++..+......+.
T Consensus        88 -~~kE~~aL~kEie~~~~~i~~lE~eile~~e~ie~~~~~l~~~~~~l~~~~~~l~~~~~~~~  149 (256)
T 3na7_A           88 -SERELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKLALELESLVE  149 (256)
T ss_dssp             -SSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             11233445555555554444445555555555555555555555555555555544444443

>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=98.76  E-value=8.1e-10  Score=82.30  Aligned_cols=46  Identities=24%  Similarity=0.540  Sum_probs=0.0

Q ss_pred             Ccccccccccccc------------------eeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        206 LTCPSCKVKRKDA------------------VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       206 ~~C~iC~~~~~~~------------------v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      ..|+||...|..+                  +.++|||.|+..||..|+.. ...||.||.+|..
T Consensus        49 d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~-~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           49 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWEF  112 (117)
T ss_dssp             -----------------------------------------------------------------
T ss_pred             CcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHc-CCcCCCCCCeeee
Confidence            5799999998653                  22599999999999999985 5789999999754

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=98.67  E-value=1.3e-08  Score=72.24  Aligned_cols=46  Identities=28%  Similarity=0.689  Sum_probs=40.7

Q ss_pred             Ccccccccccccc-eeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        206 LTCPSCKVKRKDA-VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       206 ~~C~iC~~~~~~~-v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      -.|+.|.-++... .++||+|.||.+|+..|...+...||.|+.++.
T Consensus         2 hfC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~   48 (101)
T 3vk6_A            2 HFCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQ   48 (101)
T ss_dssp             CBCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCS
T ss_pred             eecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeee
Confidence            3699999998765 678999999999999998888889999999885

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.58  E-value=3.3e-08  Score=68.61  Aligned_cols=49  Identities=22%  Similarity=0.545  Sum_probs=41.1

Q ss_pred             cCccccccccc--ccceecccc-----ccccHHHHHHHhccCC-CCccCCCcccCCC
Q psy16189        205 TLTCPSCKVKR--KDAVLTKCF-----HVFCWDCLRTRYETRQ-RKCPKCNAAFGAN  253 (262)
Q Consensus       205 ~~~C~iC~~~~--~~~v~l~Cg-----H~fC~~Ci~~~~~~~~-~~CP~Cr~~~~~~  253 (262)
                      ...|.||...+  .+++++||+     |.|...||..|+.... ..||.||.+|...
T Consensus        15 ~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~   71 (80)
T 2d8s_A           15 QDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIME   71 (80)
T ss_dssp             SCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCC
T ss_pred             CCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecC
Confidence            46799999877  456788996     9999999999998653 6899999999654

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=98.45  E-value=0.00043  Score=57.59  Aligned_cols=34  Identities=9%  Similarity=0.058  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHH
Q psy16189         13 ALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDAN   46 (262)
Q Consensus        13 ~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~   46 (262)
                      ++-.+++.+...|+++......+-..+.+.+..+
T Consensus        10 ~l~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~   43 (284)
T 1c1g_A           10 MLKLDKENALDRADEAEADKKAAEDRSKQLEDEL   43 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444433333333333333333

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=98.31  E-value=0.00099  Score=55.36  Aligned_cols=42  Identities=12%  Similarity=0.125  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhH
Q psy16189         15 LNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKS   56 (262)
Q Consensus        15 ~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka   56 (262)
                      ...|..+..-|+.+......+-..+......+..+..+...+
T Consensus         5 ~~~~~~l~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~   46 (284)
T 1c1g_A            5 KKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSL   46 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333344333333333333333333333333333333

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.16  E-value=2.5e-06  Score=57.96  Aligned_cols=48  Identities=17%  Similarity=0.457  Sum_probs=39.7

Q ss_pred             cCcccccccccccc-eeccccccccHHHHHHHhccCC-CCccCCCcccCC
Q psy16189        205 TLTCPSCKVKRKDA-VLTKCFHVFCWDCLRTRYETRQ-RKCPKCNAAFGA  252 (262)
Q Consensus       205 ~~~C~iC~~~~~~~-v~l~CgH~fC~~Ci~~~~~~~~-~~CP~Cr~~~~~  252 (262)
                      ...|.||...+... ....|+|.|-..|+..|+.++. ..||.|+.++..
T Consensus        15 i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~   64 (74)
T 2ct0_A           15 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH   64 (74)
T ss_dssp             SCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCS
T ss_pred             CCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCC
Confidence            46799999988644 3349999999999999998653 679999999864

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=98.11  E-value=0.0019  Score=54.39  Aligned_cols=214  Identities=11%  Similarity=0.121  Sum_probs=108.1

Q ss_pred             HHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---
Q psy16189         34 RLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELH---  110 (262)
Q Consensus        34 ~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~---  110 (262)
                      +.|-+|.+.|..+.++...+.........+..+...+...+..++..++.....+.+++........++...+.++.   
T Consensus         8 ~~L~~LQ~lD~~i~~l~~~~~~lp~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~~~~~~l~~v~   87 (256)
T 3na7_A            8 KQLIEISHLDKEIDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSEIK   87 (256)
T ss_dssp             HHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence            34556666676776666666666666666666666666666666666665555555555555555555555554443   


Q ss_pred             ------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        111 ------LRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKK  184 (262)
Q Consensus       111 ------~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~~  184 (262)
                            .+...++..+++...+...+.++...++.++..+..+...+......+......   +...+..+...+..+..
T Consensus        88 ~~kE~~aL~kEie~~~~~i~~lE~eile~~e~ie~~~~~l~~~~~~l~~~~~~l~~~~~~---~~~~~~e~~~e~~~l~~  164 (256)
T 3na7_A           88 SERELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKLALELESL---VENEVKNIKETQQIIFK  164 (256)
T ss_dssp             SSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Confidence                  344455555555555665666666666666666666666666665555543332   22233333333333322


Q ss_pred             H--HhhCCchHHHHHHHHhccccCcccccccccccceeccccccccHHHHHHHhc-cCCCCccCCCcccC
Q psy16189        185 I--EQAGTLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYE-TRQRKCPKCNAAFG  251 (262)
Q Consensus       185 ~--~~~~~~~~~l~~e~~~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~~  251 (262)
                      .  .-....+..+-..++.++.+.. .+--.++...++..|+-..-..=+..... .....||.||.-+-
T Consensus       165 ~r~~l~~~i~~~lL~~Yerir~~~~-g~avv~v~~~~C~GC~~~lppq~~~~i~~~~~Iv~Cp~CgRIL~  233 (256)
T 3na7_A          165 KKEDLVEKTEPKIYSFYERIRRWAK-NTSIVTIKKQACGGCFIRLNDKIYTEVLTSGDMITCPYCGRILY  233 (256)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHHHHG-GGSEEECBTTBCTTTCCBCCHHHHHHHHHSSSCEECTTTCCEEE
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCC-CceEEEeeCCccCCCCeeeCHHHHHHHHCCCCEEECCCCCeeEE
Confidence            2  1122334445555555543211 11111222222333333332222222222 23456999998663

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=97.90  E-value=9.5e-06  Score=52.85  Aligned_cols=49  Identities=18%  Similarity=0.430  Sum_probs=39.8

Q ss_pred             ccCcccccccccccceecccc--c---cccHHHHHHHhcc-CCCCccCCCcccCC
Q psy16189        204 ETLTCPSCKVKRKDAVLTKCF--H---VFCWDCLRTRYET-RQRKCPKCNAAFGA  252 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~v~l~Cg--H---~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~  252 (262)
                      ....|.||.....++.++||.  |   .|-..|+..|+.. +...||.|+.+|..
T Consensus         5 ~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            5 DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            346799999887777778865  3   7899999999974 56789999998864

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=97.77  E-value=0.0091  Score=47.48  Aligned_cols=131  Identities=15%  Similarity=0.132  Sum_probs=61.7

Q ss_pred             chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          7 SGNEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHT   86 (262)
Q Consensus         7 ~~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~   86 (262)
                      ...+...+........+.|++++....-+...-.+++..   |-.+...+......+......+..++..++.....+  
T Consensus         8 ~~ee~~ywk~~~~~~~q~~~~le~El~EFqesSrELE~E---LE~eL~~~Ek~~~~L~~~~~~L~~E~e~~k~K~~~~--   82 (189)
T 2v71_A            8 LKEETAYWKELSMKYKQSFQEARDELVEFQEGSRELEAE---LEAQLVQAEQRNRDLQADNQRLKYEVEALKEKLEHQ--   82 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--
Confidence            344444554545555555555554444433333333322   222333333333333333344444444333322221  


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         87 AIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQV  150 (262)
Q Consensus        87 ~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~  150 (262)
                              .......++.|++++..+......++.++.++.+...++.+........+..+...
T Consensus        83 --------~~e~~~~~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~R~~~~SleD~e~k  138 (189)
T 2v71_A           83 --------YAQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIMSLEDFEQR  138 (189)
T ss_dssp             --------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHHHH
Confidence                    12223346666777666666666666666666666666665555555555444443

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster}

Probab=97.74  E-value=4.7e-06  Score=72.35  Aligned_cols=50  Identities=30%  Similarity=0.557  Sum_probs=38.3

Q ss_pred             ccCccccccccccc----c--e--eccccccccHHHHHHHhccCC----------CCccCCCcccCCC
Q psy16189        204 ETLTCPSCKVKRKD----A--V--LTKCFHVFCWDCLRTRYETRQ----------RKCPKCNAAFGAN  253 (262)
Q Consensus       204 ~~~~C~iC~~~~~~----~--v--~l~CgH~fC~~Ci~~~~~~~~----------~~CP~Cr~~~~~~  253 (262)
                      ....|+||...+.+    |  +  ..+|||.|...|+..|+.+-+          ..||.|+.+++.+
T Consensus       307 ~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~s  374 (381)
T 3k1l_B          307 EELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS  374 (381)
T ss_dssp             SCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGG
T ss_pred             CCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCcc
Confidence            34579999998765    2  1  248999999999999997421          3599999998753

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=97.72  E-value=0.00018  Score=73.12  Aligned_cols=23  Identities=17%  Similarity=0.124  Sum_probs=10.4

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHH
Q psy16189         10 EEEALLNEMEVTGQAFEDMQEQN   32 (262)
Q Consensus        10 ~~~~l~~Eie~~~~a~e~~q~q~   32 (262)
                      +...+..+++.+......++...
T Consensus       858 El~~L~~eL~el~~~L~~le~~l  880 (1184)
T 1i84_S          858 EMQAKDEELQRTKERQQKAEAEL  880 (1184)
T ss_dssp             HCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444455555444444444333

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=97.62  E-value=0.00026  Score=72.03  Aligned_cols=35  Identities=6%  Similarity=0.166  Sum_probs=15.2

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q psy16189          9 NEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKD   43 (262)
Q Consensus         9 ~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e   43 (262)
                      .+...+...++.+.....+++.+...+-.++.+..
T Consensus       864 ~eL~el~~~L~~le~~l~ele~~l~~Le~e~~~l~  898 (1184)
T 1i84_S          864 EELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQ  898 (1184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444333333

>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol 3-phosphate binding, membrane protein; HET: ITP; 2.20A {Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A* 1hyj_A

Probab=97.18  E-value=0.0051  Score=45.93  Aligned_cols=30  Identities=20%  Similarity=0.517  Sum_probs=23.8

Q ss_pred             Ccccccccccccc----eeccccccccHHHHHHH
Q psy16189        206 LTCPSCKVKRKDA----VLTKCFHVFCWDCLRTR  235 (262)
Q Consensus       206 ~~C~iC~~~~~~~----v~l~CgH~fC~~Ci~~~  235 (262)
                      ..|.+|...|.-.    ..-.||++||..|....
T Consensus        70 ~~C~~C~~~Fs~~~RrHHCR~CG~vfC~~Cs~~~  103 (125)
T 1joc_A           70 QNCMACGKGFSVTVRRHHCRQCGNIFCAECSAKN  103 (125)
T ss_dssp             CBCTTTCCBCCSSSCCEECTTTCCEECGGGSCEE
T ss_pred             CCCcCcCCccccccccccCCCCCeEEChHHhCCc
Confidence            6799999988532    44599999999997654

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=97.01  E-value=0.038  Score=38.84  Aligned_cols=90  Identities=21%  Similarity=0.385  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Q psy16189         21 TGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQI-DAMHTAIRKLEEKERYLQ   99 (262)
Q Consensus        21 ~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~-~~~~~~i~~l~e~e~~l~   99 (262)
                      +++.|+.++.+...+-.++.+.+....+|..+..........+...+..+..|+..|...+ +..+..+..-.-.-..+.
T Consensus         3 ~~~~~e~lre~l~~le~~~~~~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElEeLTasLFeEAN~MVa~ar~e~~~~e   82 (97)
T 2eqb_B            3 LGSNYNQLKEDYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLTASLFDEANNMVADARKEKYAIE   82 (97)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5667888888888888888889999999999999998888888888999999988888776 444555544433333344


Q ss_pred             HHHHHHHHHHH
Q psy16189        100 TVLTNVEKELH  110 (262)
Q Consensus       100 ~~i~~lekel~  110 (262)
                      .++..|..+|.
T Consensus        83 ~kn~~L~~qL~   93 (97)
T 2eqb_B           83 ILNKRLTEQLR   93 (97)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            44444444443

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}

Probab=96.95  E-value=0.00076  Score=56.18  Aligned_cols=49  Identities=16%  Similarity=0.466  Sum_probs=39.7

Q ss_pred             cCcccccccccccc-eeccccccccHHHHHHHhccC-CCCccCCCcccCCC
Q psy16189        205 TLTCPSCKVKRKDA-VLTKCFHVFCWDCLRTRYETR-QRKCPKCNAAFGAN  253 (262)
Q Consensus       205 ~~~C~iC~~~~~~~-v~l~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~~  253 (262)
                      ...|.+|....... ....|+|.|-..|+..|+.++ .+.||.|+.+++..
T Consensus       180 i~~C~iC~~iv~~g~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          180 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             CCBCTTTCSBCSSCEECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCcCcchhhHHhCCcccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            57799999976544 344599999999999999865 46899999998754

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=96.95  E-value=0.089  Score=52.90  Aligned_cols=14  Identities=14%  Similarity=0.332  Sum_probs=0.0

Q ss_pred             HhhhhhhHHHHHHH
Q psy16189         38 QLREKDDANFKLMT   51 (262)
Q Consensus        38 ~l~e~e~~~~kl~~   51 (262)
                      ++.+.++.+..|..
T Consensus       936 rL~~~e~~n~~L~~  949 (1080)
T 2dfs_A          936 KIDEQNKEYKSLLE  949 (1080)
T ss_dssp             --------------
T ss_pred             HHHHHHHHHHHHHH
Confidence            33333444444433

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=96.94  E-value=0.00055  Score=49.04  Aligned_cols=32  Identities=28%  Similarity=0.673  Sum_probs=26.7

Q ss_pred             cCcccccccc-ccccee--ccccccccHHHHHHHh
Q psy16189        205 TLTCPSCKVK-RKDAVL--TKCFHVFCWDCLRTRY  236 (262)
Q Consensus       205 ~~~C~iC~~~-~~~~v~--l~CgH~fC~~Ci~~~~  236 (262)
                      .+.|++|... +..++.  +.|||.||..|+..++
T Consensus         3 e~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~h   37 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKATH   37 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHHS
T ss_pred             CCCCcCCCCCCCCCceEECCcCChHHhHHHCHHHh
Confidence            4789999975 567776  8999999999999833

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=96.69  E-value=0.2  Score=50.36  Aligned_cols=17  Identities=6%  Similarity=-0.007  Sum_probs=0.0

Q ss_pred             HHHHHHHHHhhhhhhHH
Q psy16189         30 EQNSRLLQQLREKDDAN   46 (262)
Q Consensus        30 ~q~~~~~~~l~e~e~~~   46 (262)
                      ..+..|...|.+++..+
T Consensus       921 ~~~~~LE~kl~eLq~rL  937 (1080)
T 2dfs_A          921 KLHIGLENKIMQLQRKI  937 (1080)
T ss_dssp             -----------------
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33444444555554444

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=96.61  E-value=0.17  Score=39.25  Aligned_cols=100  Identities=13%  Similarity=0.130  Sum_probs=65.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         16 NEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKE   95 (262)
Q Consensus        16 ~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e   95 (262)
                      ..++.+...+..-.+...++-++.+|+.-.+..+..-.....-++..+...++.|+.++..|+.+++.-...-.+..+..
T Consensus        13 kQL~E~n~kLk~EsE~~~rlkK~~tEl~k~~~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L~qEr~~r~q~se~~   92 (168)
T 3o0z_A           13 KQLEEANDLLRTESDTAVRLRKSHTEMSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQAILEAERRDRGHDSEMI   92 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444454445555555555555555544444444444455566677788888888888888888777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q psy16189         96 RYLQTVLTNVEKELHLRNQA  115 (262)
Q Consensus        96 ~~l~~~i~~lekel~~~~~~  115 (262)
                      ..+..++..|..++...+..
T Consensus        93 ~elq~ri~~L~~El~~~k~~  112 (168)
T 3o0z_A           93 GDLQARITSLQEEVKHLKHN  112 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            77888888888887766543

>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=96.55  E-value=0.003  Score=61.91  Aligned_cols=59  Identities=10%  Similarity=0.038  Sum_probs=51.2

Q ss_pred             HHhccccCcccccccccccceecccc-ccccHHHHHHHhccCCCCccCCCcccCCCCcccc
Q psy16189        199 IREYKETLTCPSCKVKRKDAVLTKCF-HVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRL  258 (262)
Q Consensus       199 ~~~~~~~~~C~iC~~~~~~~v~l~Cg-H~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~i  258 (262)
                      ....-..+.|||-.+.+.+||++|.| ++|-..+|..|+.. +.+||.-|.++...++.|.
T Consensus       885 ~~~iP~~F~cPIs~~lM~DPVilpsG~~TydR~~I~~wl~~-~~tdP~Tr~~L~~~~liPN  944 (968)
T 3m62_A          885 YGDVPDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLS-DSTDPFNRMPLKLEDVTPN  944 (968)
T ss_dssp             HCCSCGGGBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTT-CCBCTTTCCBCCGGGCEEC
T ss_pred             ccCCcHHhCCcchhhHHhCCeEcCCCCEEECHHHHHHHHhc-CCCCCCCCCCCCccccccc
Confidence            34455679999999999999999998 69999999999985 6689999999998877765

>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil (dimeric, parallel), familial hypertrophic cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo sapiens} SCOP: h.1.26.1 PDB: 2fxm_A

Probab=96.51  E-value=0.16  Score=37.85  Aligned_cols=84  Identities=12%  Similarity=0.214  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        100 TVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKT  179 (262)
Q Consensus       100 ~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~  179 (262)
                      .....+..+...+...+......+.+.......+...-..+...+..+...+.+............+.++.++..++..+
T Consensus        41 ~~~~~l~~Ek~~L~~qL~~E~~~l~e~EE~~~~L~~~k~eLe~~l~el~~rleeeee~~~~L~~~kkkle~e~~~Lk~~l  120 (129)
T 2fxo_A           41 EKMVSLLQEKNDLQLQVQAEQDNLADAEERCDQLIKNKIQLEAKVKEMNKRLEDEEEMNAELTAKKRKLEDECSELKRDI  120 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444443334444444455555555556666666666666666666666667777888888877777


Q ss_pred             HHHH
Q psy16189        180 ERMK  183 (262)
Q Consensus       180 ~~~~  183 (262)
                      +.+.
T Consensus       121 ed~e  124 (129)
T 2fxo_A          121 DDLE  124 (129)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6653

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=96.50  E-value=0.19  Score=38.62  Aligned_cols=104  Identities=12%  Similarity=0.176  Sum_probs=52.5

Q ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         49 LMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQ  128 (262)
Q Consensus        49 l~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~  128 (262)
                      +..+..+|......+......|+.+++.+-..+..       |+-.+.....+-..++.+|..+...+.....+.....+
T Consensus        26 ~E~dLEraEERae~aE~k~~eLEeeL~~v~~nlKs-------LE~seekasqrEd~yEeqIk~L~~kLKEAE~RAE~AER   98 (155)
T 2efr_A           26 LKKLLERAEERAELSEGKSAELEEELKTVTNNLKS-------LEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAER   98 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-------chhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555444444444444444444332222       33333344444455555555555555444555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q psy16189        129 SAADLKLHLEKYHAQLKEAQQVVTEKTSSLE  159 (262)
Q Consensus       129 ~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le  159 (262)
                      .+..|...++.+...+...+.........+.
T Consensus        99 sv~kLEk~id~lEd~L~~~Kek~~~i~~eLd  129 (155)
T 2efr_A           99 SVTKLEKSIDDLEDELYAQKLKYKAISEEMK  129 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5666666666666666555544444444444

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=96.36  E-value=0.0012  Score=44.49  Aligned_cols=36  Identities=28%  Similarity=0.747  Sum_probs=30.9

Q ss_pred             cccCcccccccccccceeccc----cccccHHHHHHHhcc
Q psy16189        203 KETLTCPSCKVKRKDAVLTKC----FHVFCWDCLRTRYET  238 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~v~l~C----gH~fC~~Ci~~~~~~  238 (262)
                      ...+.|.+|.++..+..+..|    +|-||+.|....++.
T Consensus        13 ~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           13 SGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             CCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             CCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHh
Confidence            346889999999999988888    699999999887764

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=96.02  E-value=2.6  Score=46.96  Aligned_cols=65  Identities=14%  Similarity=0.255  Sum_probs=39.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        121 RKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKI  185 (262)
Q Consensus       121 ~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~~~  185 (262)
                      .++.++..........+...++.+.++...+..+..+++....+...++.+++....++.+..+-
T Consensus      2014 ~~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~rA~~L 2078 (3245)
T 3vkg_A         2014 EEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDRSIAL 2078 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444445555555566666666666666666666666666666666677776666666665443

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=95.90  E-value=0.14  Score=47.83  Aligned_cols=25  Identities=16%  Similarity=0.041  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         91 LEEKERYLQTVLTNVEKELHLRNQA  115 (262)
Q Consensus        91 l~e~e~~l~~~i~~lekel~~~~~~  115 (262)
                      +++..+.+......++.++...++.
T Consensus       507 l~~~~~~~~~~~~~~~~~~~~~~~~  531 (597)
T 3oja_B          507 LNKVFTHLKERQAFKLRETQARRTE  531 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHh
Confidence            3333334444444444444444433

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=95.83  E-value=3.1  Score=46.37  Aligned_cols=50  Identities=10%  Similarity=0.103  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q psy16189        126 SAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQL  175 (262)
Q Consensus       126 ~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l  175 (262)
                      ....+.++...+..++.+.+....+...+..+++....++.+++.-+..|
T Consensus      2033 ~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~rA~~Li~gL 2082 (3245)
T 3vkg_A         2033 IVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDRSIALLDNL 2082 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            33334444444444444444443334444444444444444444444333

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=95.62  E-value=0.32  Score=45.28  Aligned_cols=45  Identities=16%  Similarity=0.231  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        139 KYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMK  183 (262)
Q Consensus       139 ~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~  183 (262)
                      ........++.++.+....++..+.....+..+...++.++..+.
T Consensus       534 ~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~  578 (597)
T 3oja_B          534 AKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLE  578 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            333333444444444445555555555555555555555555443

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=95.56  E-value=0.49  Score=35.27  Aligned_cols=46  Identities=20%  Similarity=0.260  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        132 DLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRR  177 (262)
Q Consensus       132 ~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~  177 (262)
                      +++..+..++..+..++..+.....+......-.-.++.+|..+++
T Consensus        81 ~~q~~i~~lE~eL~~~r~em~~ql~EYq~Ll~vKl~Ld~EIatYRk  126 (131)
T 3tnu_A           81 QIQEMIGSVEEQLAQLRCEMEQQNQEYKILLDVKTRLEQEIATYRR  126 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444444455555555443

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=95.55  E-value=0.49  Score=35.13  Aligned_cols=45  Identities=22%  Similarity=0.230  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q psy16189        132 DLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLR  176 (262)
Q Consensus       132 ~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~  176 (262)
                      ++...+..++..+..++..+.....+......-.-.++.+|..++
T Consensus        79 ~~q~~i~~lE~eL~~~r~e~~~ql~EYq~LlnvKl~Ld~EIatYR  123 (129)
T 3tnu_B           79 DARNKLAELEEALQKAKQDMARLLREYQELMNTKLALDVEIATYR  123 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444444444443444433334444444444443

>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil (dimeric, parallel), familial hypertrophic cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo sapiens} SCOP: h.1.26.1 PDB: 2fxm_A

Probab=95.53  E-value=0.51  Score=35.09  Aligned_cols=80  Identities=20%  Similarity=0.199  Sum_probs=41.0

Q ss_pred             HhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         38 QLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMD  117 (262)
Q Consensus        38 ~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~  117 (262)
                      .+..+++.+.+|.....+.......+......+..+...|..++..-...+....+.-..+...-..|+..+..+...++
T Consensus        14 E~~~~~eel~~lke~l~k~e~~r~ele~~~~~l~~Ek~~L~~qL~~E~~~l~e~EE~~~~L~~~k~eLe~~l~el~~rle   93 (129)
T 2fxo_A           14 EMASMKEEFTRLKEALEKSEARRKELEEKMVSLLQEKNDLQLQVQAEQDNLADAEERCDQLIKNKIQLEAKVKEMNKRLE   93 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555555554444555555555555555555555555555555555444444444444444455555555544443

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=95.39  E-value=0.77  Score=36.37  Aligned_cols=30  Identities=10%  Similarity=0.084  Sum_probs=20.2

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189          8 GNEEEALLNEMEVTGQAFEDMQEQNSRLLQ   37 (262)
Q Consensus         8 ~~~~~~l~~Eie~~~~a~e~~q~q~~~~~~   37 (262)
                      |....-+...++.+...|++.+..+.-|-.
T Consensus        16 k~~~~~~~q~~~~le~El~EFqesSrELE~   45 (189)
T 2v71_A           16 KELSMKYKQSFQEARDELVEFQEGSRELEA   45 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444556677777777777777776666554

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=95.06  E-value=0.89  Score=35.20  Aligned_cols=32  Identities=19%  Similarity=0.400  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         89 RKLEEKERYLQTVLTNVEKELHLRNQAMDLNK  120 (262)
Q Consensus        89 ~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k  120 (262)
                      ..|.+.-..+...-..|++++..+...++..+
T Consensus        51 rELq~~~~~L~~~k~~Leke~~~LQa~L~qEr   82 (168)
T 3o0z_A           51 RELQERNRILENSKSQTDKDYYQLQAILEAER   82 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444445555555555554444333

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=94.73  E-value=0.74  Score=34.65  Aligned_cols=45  Identities=22%  Similarity=0.270  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        105 VEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQ  149 (262)
Q Consensus       105 lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~  149 (262)
                      +++++..++..+....-+..++.+++.+++.++..++.++..+..
T Consensus        87 ~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~~~le~  131 (138)
T 3hnw_A           87 KDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIVKLET  131 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333444444444444444444433

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=94.68  E-value=0.76  Score=32.58  Aligned_cols=50  Identities=16%  Similarity=0.205  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        132 DLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTER  181 (262)
Q Consensus       132 ~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~  181 (262)
                      .|...+..++..+..++..+......++........++.++..|.+++.-
T Consensus        48 sL~kk~~~lE~eld~~ee~L~ea~~kLee~ek~~~~aE~ev~~L~Rriql   97 (101)
T 3u1c_A           48 QLEKQLRVTEDSRDQVLEELHKSEDSLLFAEENAAKAESEVASLNRRIQL   97 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333444444444444444444444444555566666666665543

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=94.67  E-value=0.5  Score=35.10  Aligned_cols=88  Identities=14%  Similarity=0.222  Sum_probs=35.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH----HHHHHHHHHHHH
Q psy16189         95 ERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSL----EAEAYKTKRLQE  170 (262)
Q Consensus        95 e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~l----e~~~~~~~~~e~  170 (262)
                      +.-+..++..+..........+...+..+.++...+..|..+++.+.++...+...+.+.....    ......+..++.
T Consensus        10 E~~y~~K~eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~~~~~~l~~~q~~i~~lE~   89 (129)
T 3tnu_B           10 ESWYQTKYEELQQTAGRHGDDLRNTKHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAEQRGELALKDARNKLAELEE   89 (129)
T ss_dssp             ------------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555555544444444555555555566666666666666655555555544433    233444555666


Q ss_pred             HHHHHHHHHHHH
Q psy16189        171 EIAQLRRKTERM  182 (262)
Q Consensus       171 e~~~l~~~~~~~  182 (262)
                      ++..++..+.+.
T Consensus        90 eL~~~r~e~~~q  101 (129)
T 3tnu_B           90 ALQKAKQDMARL  101 (129)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHH
Confidence            666666655554

>2ocy_A RAB guanine nucleotide exchange factor SEC2; RAB, GEF, guanine exchange factor, coiled-coil, endocytosis/exocytosis complex; 3.30A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=94.67  E-value=1.1  Score=34.29  Aligned_cols=46  Identities=30%  Similarity=0.438  Sum_probs=21.1

Q ss_pred             HHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         36 LQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQI   81 (262)
Q Consensus        36 ~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~   81 (262)
                      ...+...+....+|+.+..........+...+..++.|+..|...+
T Consensus        50 ~~~~~~~~~e~~~L~~~l~~E~~~R~~aE~~~~~ie~ElEeLTasL   95 (154)
T 2ocy_A           50 KRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLTASL   95 (154)
T ss_dssp             HTHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444444444444444444433

>1z60_A TFIIH basal transcription factor complex P44 subunit; basic transcription factor, zinc binding protein, ring finger; NMR {Homo sapiens} SCOP: g.49.1.2

Probab=94.44  E-value=0.035  Score=35.50  Aligned_cols=41  Identities=32%  Similarity=0.677  Sum_probs=31.1

Q ss_pred             Ccccccccccccce---eccccccccHHHHHHHhccCCCCccCCC
Q psy16189        206 LTCPSCKVKRKDAV---LTKCFHVFCWDCLRTRYETRQRKCPKCN  247 (262)
Q Consensus       206 ~~C~iC~~~~~~~v---~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr  247 (262)
                      ..|..|...+.+..   ...|++.||.+| +..+...-+.||.|.
T Consensus        16 ~~C~~C~~~~~~~~~y~C~~C~~~FC~dC-D~fiHe~Lh~CPgC~   59 (59)
T 1z60_A           16 RFCYGCQGELKDQHVYVCAVCQNVFCVDC-DVFVHDSLHSCPGCI   59 (59)
T ss_dssp             CEETTTTEECTTSEEECCTTTTCCBCHHH-HHTTTTTSCSSSTTC
T ss_pred             CcccccCcccCCCccEECCccCcCcccch-hHHHHhhccCCcCCC
Confidence            46999999986543   459999999999 444444567799983

>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A {Saccharomyces cerevisiae}

Probab=94.35  E-value=0.022  Score=49.98  Aligned_cols=55  Identities=22%  Similarity=0.529  Sum_probs=40.7

Q ss_pred             hccccCccccccccccccee-ccccccccHHHH---HHHhccCCCCccCCCcccCCCCc
Q psy16189        201 EYKETLTCPSCKVKRKDAVL-TKCFHVFCWDCL---RTRYETRQRKCPKCNAAFGANDY  255 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~-l~CgH~fC~~Ci---~~~~~~~~~~CP~Cr~~~~~~d~  255 (262)
                      ...-.+.||+-...+..|+. ..|.|.-|++-.   ......+.+.||+|+..+...++
T Consensus       245 s~~vSL~CPlS~~ri~~PvRg~~C~HlQCFDl~sfL~~~~~~~~W~CPIC~k~~~~~dL  303 (371)
T 3i2d_A          245 STIMSLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIALENL  303 (371)
T ss_dssp             EEEEESBCTTTSSBCSSEEEETTCCSSCCEEHHHHHHHHHHSCCCBCTTTCCBCCGGGE
T ss_pred             eeEEeecCCCccccccccCcCCcCCCcceECHHHHHHHhhcCCceeCCCCCcccCHHHe
Confidence            34556899999999999975 599999777652   22223456789999998876654

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=94.21  E-value=0.4  Score=35.75  Aligned_cols=88  Identities=16%  Similarity=0.225  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH----HHHHHHHHHHHH
Q psy16189         95 ERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSL----EAEAYKTKRLQE  170 (262)
Q Consensus        95 e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~l----e~~~~~~~~~e~  170 (262)
                      +.-+..++..+..........+...+..+.++...+..|..+++.+.++...+...+.+.....    ......+..++.
T Consensus        12 E~~y~~K~eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~~~~~~l~~~q~~i~~lE~   91 (131)
T 3tnu_A           12 EEWFFTKTEELNREVATNSELVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKGRYCMQLAQIQEMIGSVEE   91 (131)
T ss_dssp             -----------------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345555555555555444444444444555555555555555555555555555444443332    233344555566


Q ss_pred             HHHHHHHHHHHH
Q psy16189        171 EIAQLRRKTERM  182 (262)
Q Consensus       171 e~~~l~~~~~~~  182 (262)
                      ++..++..+.+.
T Consensus        92 eL~~~r~em~~q  103 (131)
T 3tnu_A           92 QLAQLRCEMEQQ  103 (131)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            666666555544

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=94.11  E-value=1  Score=31.83  Aligned_cols=93  Identities=18%  Similarity=0.287  Sum_probs=44.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         68 DILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEA  147 (262)
Q Consensus        68 ~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~  147 (262)
                      +.+...+..|+...+...+....++..-+........++.+                     +..++..+..++..+..+
T Consensus         5 d~iKkKm~~lk~e~e~a~d~ae~~e~~~k~~e~~~~~~E~e---------------------i~sL~kKiq~lE~eld~~   63 (101)
T 3u59_A            5 EAIKKKMQMLKLDKENAIDRAEQAEADKKQAEDRCKQLEEE---------------------QQGLQKKLKGTEDEVEKY   63 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH---------------------HHHHHHHHHHHHHHHHHH
Confidence            44555555566555554444444444333333333333333                     333333333344444444


Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        148 QQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTER  181 (262)
Q Consensus       148 ~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~  181 (262)
                      ...+......++........++.++..|.+++.-
T Consensus        64 ~e~l~~a~~kLe~~ek~~~~AE~evasLnRriql   97 (101)
T 3u59_A           64 SESVKEAQEKLEQAEKKATDAEAEVASLNRRIQL   97 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444554455555666666666666543

>2e7s_A RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 3.00A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=93.86  E-value=1.4  Score=32.82  Aligned_cols=87  Identities=21%  Similarity=0.363  Sum_probs=58.0

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Q psy16189         24 AFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQI-DAMHTAIRKLEEKERYLQTVL  102 (262)
Q Consensus        24 a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~-~~~~~~i~~l~e~e~~l~~~i  102 (262)
                      .|+.+......+...+...+....+|..+..........+...+..++.|+..|.+.+ +..+..+..-.-.-..+..++
T Consensus        26 ~le~l~~~l~~l~~~l~~~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElE~LTasLFeEAN~MVa~ar~~~~~~e~r~  105 (135)
T 2e7s_A           26 NYNQLKEDYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLTASLFDEANNLVADARMEKYAIEILN  105 (135)
T ss_dssp             HHHHHHHHHHHHHHHTTTHHHHHHTHHHHHHHTTSHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555666666778888888999999888888888888888899999888888766 444555543322223333334


Q ss_pred             HHHHHHHH
Q psy16189        103 TNVEKELH  110 (262)
Q Consensus       103 ~~lekel~  110 (262)
                      ..|+.++.
T Consensus       106 ~~L~~ql~  113 (135)
T 2e7s_A          106 KRLTEQLR  113 (135)
T ss_dssp             HHHHHTTT
T ss_pred             HHHHHHHH
Confidence            44444433

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=93.78  E-value=1.2  Score=31.49  Aligned_cols=20  Identities=15%  Similarity=0.277  Sum_probs=7.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q psy16189         70 LHEQVNALKLQIDAMHTAIR   89 (262)
Q Consensus        70 l~~e~~~l~~~~~~~~~~i~   89 (262)
                      +...+..|+...+...+...
T Consensus         7 IKkKm~~lk~e~e~a~drae   26 (101)
T 3u1c_A            7 IKKKMQMLKLDKENALDRAE   26 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33333444444443333333

>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring domain, structural GE consortium, SGC; 2.39A {Homo sapiens} PDB: 2asq_B

Probab=93.42  E-value=0.056  Score=47.29  Aligned_cols=55  Identities=20%  Similarity=0.469  Sum_probs=40.5

Q ss_pred             hccccCccccccccccccee-ccccccccHHHH---HHHhccCCCCccCCCcccCCCCc
Q psy16189        201 EYKETLTCPSCKVKRKDAVL-TKCFHVFCWDCL---RTRYETRQRKCPKCNAAFGANDY  255 (262)
Q Consensus       201 ~~~~~~~C~iC~~~~~~~v~-l~CgH~fC~~Ci---~~~~~~~~~~CP~Cr~~~~~~d~  255 (262)
                      .+.-.+.||+-...+..|+. ..|.|.-|++-.   ......+.+.||+|+..+...++
T Consensus       211 ~~~vSL~CPlS~~ri~~P~Rg~~C~HlqCFDl~sfL~~~~~~~~W~CPiC~k~~~~~dL  269 (360)
T 4fo9_A          211 SLRVSLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYESL  269 (360)
T ss_dssp             CEEEESBCTTTCSBCSSEEEETTCCCCCCEEHHHHHHHHHHSCCCBCTTTCSBCCGGGE
T ss_pred             eeEEeeeCCCccceeccCCcCCCCCCCccCCHHHHHHHHhhCCCeECCCCCcccCHHHe
Confidence            34556899999999999965 599999776643   22223456789999999876654

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=93.13  E-value=2.6  Score=38.39  Aligned_cols=43  Identities=23%  Similarity=0.292  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q psy16189        132 DLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQ  174 (262)
Q Consensus       132 ~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~  174 (262)
                      +|+..+..|+..|...-..+..+..-+++.+.++++||..|+.
T Consensus       114 ELRRrIqyLKekVdnQlsnIrvLQsnLedq~~kIQRLEvDIdi  156 (562)
T 3ghg_A          114 DLRSRIEVLKRKVIEKVQHIQLLQKNVRAQLVDMKRLEVDIDI  156 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444333344444555555555566666655443

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=92.98  E-value=1.6  Score=32.81  Aligned_cols=56  Identities=7%  Similarity=0.156  Sum_probs=28.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         99 QTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEK  154 (262)
Q Consensus        99 ~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~  154 (262)
                      +..+..|+.++......+..+++.+....-.+..+..+++.++.++..++..+..+
T Consensus        74 ~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~~~l  129 (138)
T 3hnw_A           74 KKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIVKL  129 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33455556665555555555555555555555555555554444444444433333

>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1

Probab=92.92  E-value=0.12  Score=35.63  Aligned_cols=47  Identities=17%  Similarity=0.489  Sum_probs=36.7

Q ss_pred             cCccccccccccc----ceec---cccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        205 TLTCPSCKVKRKD----AVLT---KCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       205 ~~~C~iC~~~~~~----~v~l---~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      ...|.||.+..--    -++.   -|+-..|..|..--...+...||-|++++.
T Consensus        16 ~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYk   69 (93)
T 1weo_A           16 GQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYK   69 (93)
T ss_dssp             SCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCC
T ss_pred             CCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCccc
Confidence            3579999997522    1333   778888999998877778888999999995

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=92.89  E-value=1.7  Score=30.65  Aligned_cols=59  Identities=15%  Similarity=0.228  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         59 LHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMD  117 (262)
Q Consensus        59 ~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~  117 (262)
                      +..++..+++........+...+........++.+....+..++..++.++......+.
T Consensus        10 Km~~lk~e~e~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~   68 (101)
T 3u59_A           10 KMQMLKLDKENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVK   68 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556666666666666666666666666666666666677777777766665544443

>2zet_C Melanophilin; complex, GTP-binding protein, GTPase, G-protein, RAB, RAB27B, effector, SLP homology domain, acetylation, lipoprotein, membrane; HET: GTP; 3.00A {Mus musculus}

Probab=92.69  E-value=0.17  Score=38.86  Aligned_cols=44  Identities=18%  Similarity=0.453  Sum_probs=29.8

Q ss_pred             cCcccccccccc-----cceeccccccccHHHHHHHhccCCCCccCCCc
Q psy16189        205 TLTCPSCKVKRK-----DAVLTKCFHVFCWDCLRTRYETRQRKCPKCNA  248 (262)
Q Consensus       205 ~~~C~iC~~~~~-----~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~  248 (262)
                      ...|.+|..+|.     ..+...|.|.+|..|-...-......|-+|+.
T Consensus        68 ~~~C~~C~~~fg~l~~~g~~C~~C~~~VC~~C~~~~~~~~~W~C~vC~k  116 (153)
T 2zet_C           68 ETHCARCLQPYRLLLNSRRQCLECSLFVCKSCSHAHPEEQGWLCDPCHL  116 (153)
T ss_dssp             GTBCTTTCCBGGGCSSCCEECTTTCCEECGGGEECCSSSSSCEEHHHHH
T ss_pred             CccchhhcCccccccCCCCcCCCCCchhhcccccccCCCCcEeeHHHHH
Confidence            488999999863     23566999999999973221223455777754

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=92.25  E-value=3  Score=31.87  Aligned_cols=104  Identities=14%  Similarity=0.152  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         70 LHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQ  149 (262)
Q Consensus        70 l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~  149 (262)
                      ++..+......++..-..|..|++.-+.....+..|+-.-....+..+.+..++..+.....+.....+.....+..++.
T Consensus        26 ~E~dLEraEERae~aE~k~~eLEeeL~~v~~nlKsLE~seekasqrEd~yEeqIk~L~~kLKEAE~RAE~AERsv~kLEk  105 (155)
T 2efr_A           26 LKKLLERAEERAELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEK  105 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333344444433333333333333333333333333444444444444444444444444444444


Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHH
Q psy16189        150 VVTEKTSSLEAEAYKTKRLQEEIA  173 (262)
Q Consensus       150 ~~~~~~~~le~~~~~~~~~e~e~~  173 (262)
                      .+..+...+.....+.+.+..+++
T Consensus       106 ~id~lEd~L~~~Kek~~~i~~eLd  129 (155)
T 2efr_A          106 SIDDLEDELYAQKLKYKAISEEMK  129 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444443

>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module, phosphoinositide binding, caspase regulation, metal binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1 g.50.1.1

Probab=91.50  E-value=0.019  Score=42.32  Aligned_cols=42  Identities=24%  Similarity=0.539  Sum_probs=30.2

Q ss_pred             Cccccccccccc----ceeccccccccHHHHHHHhccCCCCccCCCc
Q psy16189        206 LTCPSCKVKRKD----AVLTKCFHVFCWDCLRTRYETRQRKCPKCNA  248 (262)
Q Consensus       206 ~~C~iC~~~~~~----~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~  248 (262)
                      ..|..|...|.-    ...-.||.+||..|...... ..+.|-.|-.
T Consensus        20 ~~C~~C~~~Fs~~~RkHHCR~CG~ifC~~Cs~~~~~-~vRVC~~C~~   65 (120)
T 1y02_A           20 PSCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGN-GPRLCLLCQR   65 (120)
T ss_dssp             CCCTTTCCCCSSGGGCEECTTTCCEECGGGEEC-----CCEEHHHHH
T ss_pred             CcccCcCCccccccccccCCCCCCeeCHHHhCCCCC-CceECHHHHH
Confidence            679999998853    24559999999999876554 3677888854

>3mpx_A FYVE, rhogef and PH domain-containing protein 5; structural genomics consortium, DH domain, SGC, L binding protein; 2.80A {Homo sapiens}

Probab=91.17  E-value=0.039  Score=49.58  Aligned_cols=45  Identities=20%  Similarity=0.592  Sum_probs=0.0

Q ss_pred             Ccccccccccc----cceeccccccccHHHHHHHhcc------CCCCccCCCccc
Q psy16189        206 LTCPSCKVKRK----DAVLTKCFHVFCWDCLRTRYET------RQRKCPKCNAAF  250 (262)
Q Consensus       206 ~~C~iC~~~~~----~~v~l~CgH~fC~~Ci~~~~~~------~~~~CP~Cr~~~  250 (262)
                      ..|..|...|.    ....-.||++||..|....+..      ..+.|-.|-..+
T Consensus       376 ~~c~~c~~~f~~~~r~h~Cr~Cg~~~C~~Cs~~~~~~~~~~~~~~rvC~~C~~~l  430 (434)
T 3mpx_A          376 MMCMNCGCDFSLTLRRHHCHACGKIVCRNCSRNKYPLKYLKDRMAKVCDGCFGEL  430 (434)
T ss_dssp             -------------------------------------------------------
T ss_pred             CcCCCcCCCCCCcchhhhcccCcCEeehhhCCCeeeCCCCCCCcCEecHHHHHHH
Confidence            45999999874    2345699999999999765421      245688886544

>3mq7_A Bone marrow stromal antigen 2; HIV, antiviral protein; 2.28A {Homo sapiens} PDB: 3mqc_A 3mqb_A 3mkx_A 3nwh_A 2xg7_A* 2x7a_A

Probab=90.70  E-value=3.5  Score=29.63  Aligned_cols=78  Identities=19%  Similarity=0.213  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        102 LTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTER  181 (262)
Q Consensus       102 i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~  181 (262)
                      -.-|+.+|....+.+....-.....++....|+..++..+.+.   +..+.++..++.....+++.+..+++.+++....
T Consensus        27 T~lLq~qLTqAQe~l~~~eaQAaTCNqTV~tL~~SL~~ekaq~---q~~vqeLqgEI~~Lnq~Lq~a~ae~erlr~~~~~  103 (121)
T 3mq7_A           27 THLLQQELTEAQKGFQDVEAQAATANHTVMALMASLDAEKAQG---QKKVEELEGEITTLNHKLQDASAEVERLRRENQV  103 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchh
Confidence            3445555555544444333334444444555555555544443   3446666666666666777777777777766554


Q ss_pred             H
Q psy16189        182 M  182 (262)
Q Consensus       182 ~  182 (262)
                      +
T Consensus       104 ~  104 (121)
T 3mq7_A          104 L  104 (121)
T ss_dssp             H
T ss_pred             h
Confidence            4

>3cvf_A Homer-3, homer protein homolog 3; coiled coil, alternative splicing, cell junction, cytoplasm, membrane, phosphoprotein, polymorphism; 2.90A {Homo sapiens}

Probab=90.57  E-value=2.8  Score=28.22  Aligned_cols=64  Identities=14%  Similarity=0.101  Sum_probs=35.3

Q ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         49 LMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAMHTAIRKLEEKERYLQTVLTNVEKELHLR  112 (262)
Q Consensus        49 l~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~~~~i~~l~e~e~~l~~~i~~lekel~~~  112 (262)
                      |+++...+.++..++...+..|+..++.|+..++.+...-.+++..-+.+...+..---++..+
T Consensus         4 l~~e~e~~~~klq~~E~rN~~Le~~v~~le~~Le~s~~~q~~~~~Elk~l~e~Ld~KI~eL~el   67 (79)
T 3cvf_A            4 MAAEREETQQKVQDLETRNAELEHQLRAMERSLEEARAERERARAEVGRAAQLLDVSLFELSEL   67 (79)
T ss_dssp             ------CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            5667777777777777777888888888887777666555444444444433333333333333

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=90.07  E-value=10  Score=34.08  Aligned_cols=14  Identities=36%  Similarity=0.147  Sum_probs=8.0

Q ss_pred             hHHHHHHHHHHHHH
Q psy16189         11 EEALLNEMEVTGQA   24 (262)
Q Consensus        11 ~~~l~~Eie~~~~a   24 (262)
                      ......||+.++.+
T Consensus       323 ~~eF~~Eve~L~~i  336 (487)
T 3oja_A          323 SETERLECERENQA  336 (487)
T ss_dssp             --CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc
Confidence            45566777777654

>2fiy_A Protein FDHE homolog; FDHE protein, structural genomics, P protein structure initiative, midwest center for structural genomics, MCSG; 2.10A {Pseudomonas aeruginosa} SCOP: e.59.1.1

Probab=90.02  E-value=0.061  Score=46.33  Aligned_cols=45  Identities=18%  Similarity=0.392  Sum_probs=32.7

Q ss_pred             ccCcccccccccccceec----ccc--ccccHHHHHHHhccCCCCccCCCcc
Q psy16189        204 ETLTCPSCKVKRKDAVLT----KCF--HVFCWDCLRTRYETRQRKCPKCNAA  249 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~v~l----~Cg--H~fC~~Ci~~~~~~~~~~CP~Cr~~  249 (262)
                      ..-.||+|.....-.++.    .=|  |.+|+-|-..|-. ...+||+|+..
T Consensus       181 ~~~~CPvCGs~P~~s~l~~~g~~~G~R~l~Cs~C~t~W~~-~R~~C~~Cg~~  231 (309)
T 2fiy_A          181 SRTLCPACGSPPMAGMIRQGGKETGLRYLSCSLCACEWHY-VRIKCSHCEES  231 (309)
T ss_dssp             TCSSCTTTCCCEEEEEEEC----CCEEEEEETTTCCEEEC-CTTSCSSSCCC
T ss_pred             cCCCCCCCCCcCceeEEeecCCCCCcEEEEeCCCCCEEee-cCcCCcCCCCC
Confidence            357899999987655443    244  5669999888655 45679999885

>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion, acrosom; 2.62A {Homo sapiens}

Probab=89.98  E-value=0.31  Score=35.72  Aligned_cols=45  Identities=16%  Similarity=0.340  Sum_probs=36.0

Q ss_pred             Ccccccccccccc-eeccccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        206 LTCPSCKVKRKDA-VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       206 ~~C~iC~~~~~~~-v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      +.|..|...+... ....=|..||..|....+.   .+|+.|+.++...
T Consensus        31 F~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~---~~C~~C~~~I~~~   76 (126)
T 2xqn_T           31 FCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHA---VVCQGCHNAIDPE   76 (126)
T ss_dssp             SBCTTTCCBCTTSEEEEETTEEEEHHHHHHHSC---CBCTTTCSBCCTT
T ss_pred             CCcCCCCCCCCcCEEEeECCEEechHHhCcCcC---ccCcccCCcCCcC
Confidence            7789999888663 4567799999999887654   5799999999754

>1zbd_B Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: g.50.1.1

Probab=89.69  E-value=0.82  Score=34.22  Aligned_cols=45  Identities=18%  Similarity=0.315  Sum_probs=29.0

Q ss_pred             ccCcccccccccc-----cceeccccccccHHHHHHHhc---cCCCCccCCCc
Q psy16189        204 ETLTCPSCKVKRK-----DAVLTKCFHVFCWDCLRTRYE---TRQRKCPKCNA  248 (262)
Q Consensus       204 ~~~~C~iC~~~~~-----~~v~l~CgH~fC~~Ci~~~~~---~~~~~CP~Cr~  248 (262)
                      ....|.+|...|.     ..+...|.|.+|..|-.....   .....|-.|+.
T Consensus        54 ~~~~C~~C~~~~g~l~~~g~~C~~C~~~VC~~C~~~~~~~~~~~~W~C~vC~k  106 (134)
T 1zbd_B           54 GVNRCILCGEQLGMLGSASVVCEDCKKNVCTKCGVETSNNRPHPVWLCKICLE  106 (134)
T ss_dssp             SSSBCSSSCCBCSTTSCCEEECTTTCCEEETTSEEECCCSSSSCCEEEHHHHH
T ss_pred             CCccccccCCCcccccCCCCCCCCCCcccccccCCccCCCCCccceechhhHH
Confidence            3578999999883     225568888888888654311   11344777754

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=89.54  E-value=0.31  Score=36.92  Aligned_cols=44  Identities=23%  Similarity=0.500  Sum_probs=32.2

Q ss_pred             cCcccccccccccceeccccccccHHHHHHHh----------ccCCCCccCCCc
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRY----------ETRQRKCPKCNA  248 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~----------~~~~~~CP~Cr~  248 (262)
                      ...|.+|..-=.--..-.|..+||..|+.+.+          ..+...||.|..
T Consensus        63 ~d~C~vC~~GG~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~  116 (142)
T 2lbm_A           63 DEQCRWCAEGGNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHP  116 (142)
T ss_dssp             BCSCSSSCCCSSEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCC
T ss_pred             CCeecccCCCCcEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccC
Confidence            46799998744322233899999999999755          346788999975

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=89.39  E-value=14  Score=34.55  Aligned_cols=93  Identities=13%  Similarity=0.139  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHHHHHHHH-------HHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         12 EALLNEMEVTGQAFEDMQ-------EQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQIDAM   84 (262)
Q Consensus        12 ~~l~~Eie~~~~a~e~~q-------~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~~~~~   84 (262)
                      +.+..+++.+...|...-       .-.+..++......+.++..-.-+...+.....-+..+++++.+.+.|...... 
T Consensus       434 ~~~~~~~~~~~~~Y~~~~~kg~~~~~vl~~fl~~~~~~~~~ilq~d~~l~~~~k~~~~~~~~~e~~~~~~~~l~~~~~~-  512 (592)
T 1f5n_A          434 RLFVQKLQDLKKKYYEEPRKGIQAEEILQTYLKSKESMTDAILQTDQTLTEKEKEIEVERVKAESAQASAKMLHEMQRK-  512 (592)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCTTHHHHHHHHHHHTHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence            567777888877776543       344566666666666665433222223333333444455555555555543332 


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         85 HTAIRKLEEKERYLQTVLTNVEK  107 (262)
Q Consensus        85 ~~~i~~l~e~e~~l~~~i~~lek  107 (262)
                        .-..++.+++.+...+..|..
T Consensus       513 --~~~~~~~~~~~~~e~~~ql~~  533 (592)
T 1f5n_A          513 --NEQMMEQKERSYQEHLKQLTE  533 (592)
T ss_dssp             --HHHHHHHHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHHHHHHHH
Confidence              222334555555555555444

>1m3v_A FLIN4, fusion of the LIM interacting domain of LDB1 and the N-terminal LIM domain of LMO4...; fusion protein, LMO proteins, metal binding protein; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3

Probab=89.09  E-value=0.27  Score=36.03  Aligned_cols=49  Identities=16%  Similarity=0.238  Sum_probs=37.7

Q ss_pred             Ccccccccccc---cceeccccccccHHHHHHHhccCCCCccCCCcccCCCCc
Q psy16189        206 LTCPSCKVKRK---DAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDY  255 (262)
Q Consensus       206 ~~C~iC~~~~~---~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~  255 (262)
                      +.|..|...+.   ......=|..||..|....+.. ..+|..|+.++...++
T Consensus        33 F~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~-~~~C~~C~~~I~~~~~   84 (122)
T 1m3v_A           33 LKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGN-SGAGGSGGHMGSGGDV   84 (122)
T ss_dssp             HCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCC-CCSSSCSSCCSCCEES
T ss_pred             CCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCC-CCccccCCCCcCchhe
Confidence            67899998885   3456677899999999987763 1269999999976554

>3i00_A HIP-I, huntingtin-interacting protein 1; transcription; 2.30A {Homo sapiens} PDB: 2qa7_A

Probab=89.05  E-value=2.9  Score=30.58  Aligned_cols=68  Identities=19%  Similarity=0.283  Sum_probs=49.9

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         10 EEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDILHEQVNALKLQ   80 (262)
Q Consensus        10 ~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e~e~~~~kl~~e~~ka~q~~~~~~~~k~~l~~e~~~l~~~   80 (262)
                      ..+.|+.||+.+...++.+....++.+-+   +.+.+..|.+|..-.......+..+.+.|..++..++..
T Consensus        16 ~Ie~Lkreie~lk~ele~l~~E~q~~v~q---l~~~i~~Le~eL~e~r~~~q~a~~e~e~Lr~e~~~l~~~   83 (120)
T 3i00_A           16 LIERLYREISGLKAQLENMKTESQRVVLQ---LKGHVSELEADLAEQQHLRQQAADDCEFLRAELDELRRQ   83 (120)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            47889999999999999998888877655   456778888888777655445555666666666655443

>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled coil, alanine, symmetry, axial stagger, BEND, contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1

Probab=88.97  E-value=3.8  Score=27.56  Aligned_cols=12  Identities=25%  Similarity=0.412  Sum_probs=4.5

Q ss_pred             HHHHHHHHHHHH
Q psy16189        164 KTKRLQEEIAQL  175 (262)
Q Consensus       164 ~~~~~e~e~~~l  175 (262)
                      +++.++.+++.+
T Consensus        49 Kiq~lE~eld~~   60 (81)
T 1ic2_A           49 KLKGTEDELDKY   60 (81)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            333333333333

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=88.73  E-value=5  Score=28.59  Aligned_cols=39  Identities=15%  Similarity=0.214  Sum_probs=25.4

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189        147 AQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKI  185 (262)
Q Consensus       147 ~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~~~  185 (262)
                      ++..+.--......++....++..+.+.|..++..++..
T Consensus        67 LkaQv~IY~~DF~aERadREkl~~eKe~L~~ql~~Lq~q  105 (110)
T 2v4h_A           67 LKAQADIYKADFQAERHAREKLVEKKEYLQEQLEQLQRE  105 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccchhhHHHHHhHHHHHHHHHHHHHHH
Confidence            344444445566667777777777777777777766654

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=88.62  E-value=4.1  Score=27.47  Aligned_cols=28  Identities=21%  Similarity=0.222  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         88 IRKLEEKERYLQTVLTNVEKELHLRNQA  115 (262)
Q Consensus        88 i~~l~e~e~~l~~~i~~lekel~~~~~~  115 (262)
                      +.+|+.+....-..|.-|.-++..++..
T Consensus         8 leqLE~KIq~avdtI~lLqmEieELKek   35 (81)
T 2jee_A            8 FEKLEAKVQQAIDTITLLQMEIEELKEK   35 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444433

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=88.57  E-value=4.4  Score=27.70  Aligned_cols=69  Identities=12%  Similarity=0.153  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhCCchHHHHHHHH
Q psy16189        132 DLKLHLEKYHAQLKEAQQVVTEKTSSLEAEAYKTKRLQEEIAQLRRKTERMKKI-EQAGTLDEVMMEEIR  200 (262)
Q Consensus       132 ~l~~~l~~l~~~~~~~~~~~~~~~~~le~~~~~~~~~e~e~~~l~~~~~~~~~~-~~~~~~~~~l~~e~~  200 (262)
                      .+..+...+..++..++..+......++.+......++.++..+++.++..--. .......+.|.+++.
T Consensus        11 ~l~~e~~~l~~e~dn~~~~~edfk~KyE~E~~~R~~~E~d~~~LrkdvD~a~l~r~dLE~kvesL~eEl~   80 (86)
T 3swk_A           11 QLTNDKARVEVERDNLAEDIMRLREKLQEEMLQREEAENTLQSFRQDVDNASLARLDLERKVESLQEEIA   80 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333444444555555555556666666677777777777777766654322 222333344444443

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=88.02  E-value=15  Score=33.40  Aligned_cols=9  Identities=11%  Similarity=0.254  Sum_probs=3.3

Q ss_pred             HHHHHHHHH
Q psy16189         75 NALKLQIDA   83 (262)
Q Consensus        75 ~~l~~~~~~   83 (262)
                      +.+...+++
T Consensus        60 rDltkrINE   68 (562)
T 3ghg_A           60 QDFTNRINK   68 (562)
T ss_dssp             HHHHHHHHH
T ss_pred             CcHHHHHHH
Confidence            333333333

>2ocy_A RAB guanine nucleotide exchange factor SEC2; RAB, GEF, guanine exchange factor, coiled-coil, endocytosis/exocytosis complex; 3.30A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=87.47  E-value=8  Score=29.45  Aligned_cols=20  Identities=5%  Similarity=-0.014  Sum_probs=11.1

Q ss_pred             HHhhhhhhHHHHHHHHHhhH
Q psy16189         37 QQLREKDDANFKLMTERIKS   56 (262)
Q Consensus        37 ~~l~e~e~~~~kl~~e~~ka   56 (262)
                      ...+.+||.+..+..+...+
T Consensus        13 n~qs~LeD~L~~~R~el~~~   32 (154)
T 2ocy_A           13 DKQSHLEEQLNKSLKTIASQ   32 (154)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhccHHHHHHHHHHHHHHH
Confidence            34445666666665555443

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=87.29  E-value=16  Score=32.80  Aligned_cols=12  Identities=42%  Similarity=0.443  Sum_probs=4.6

Q ss_pred             HHHHHHHHHHHH
Q psy16189         67 KDILHEQVNALK   78 (262)
Q Consensus        67 k~~l~~e~~~l~   78 (262)
                      +..++..+...+
T Consensus       369 ~~~le~~~~~~~  380 (487)
T 3oja_A          369 KKALDEQVSNGR  380 (487)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            333333333333

>2gmg_A Hypothetical protein PF0610; winged-helix like protein with metal binding site, structura genomics, PSI, protein structure initiative; NMR {Pyrococcus furiosus} SCOP: a.4.5.82

Probab=86.85  E-value=0.29  Score=34.85  Aligned_cols=32  Identities=31%  Similarity=0.528  Sum_probs=21.2

Q ss_pred             cccceeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        215 RKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       215 ~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      +..+....||+.|+    . .+ ..+..||.|+.....
T Consensus        65 v~p~~C~~CG~~F~----~-~~-~kPsrCP~CkSe~Ie   96 (105)
T 2gmg_A           65 IKPAQCRKCGFVFK----A-EI-NIPSRCPKCKSEWIE   96 (105)
T ss_dssp             ECCCBBTTTCCBCC----C-CS-SCCSSCSSSCCCCBC
T ss_pred             EECcChhhCcCeec----c-cC-CCCCCCcCCCCCccC
Confidence            45567789999992    1 11 245679999876543

>2jtn_A LIM domain-binding protein 1, LIM/homeobox protein LHX3; intramolecular (fusion) protein-protein complex, protein binding/transcription complex; NMR {Mus musculus}

Probab=86.71  E-value=0.56  Score=36.81  Aligned_cols=46  Identities=24%  Similarity=0.608  Sum_probs=30.8

Q ss_pred             CcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCC
Q psy16189        206 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAND  254 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d  254 (262)
                      +.|..|...+.......=|..||..|....+.   .+|..|+.++...+
T Consensus        88 F~C~~C~~~L~~~~f~~~g~~yC~~~y~~~f~---~kC~~C~~~I~~~~  133 (182)
T 2jtn_A           88 LKCSDCHVPLAERCFSRGESVYCKDDFFKRFG---TKCAACQLGIPPTQ  133 (182)
T ss_dssp             TSCTTTCCCCSSCCEEETTEEECHHHHHHTTS---CCCTTTCCCCCSSC
T ss_pred             CccCCCCCccCCCceeECCEeeecCccccccc---cccccCCCccCCCc
Confidence            55666766665443445577788888776543   56888888886543

>2rgt_A Fusion of LIM/homeobox protein LHX3, linker, INSU enhancer protein ISL-1; protein-protein complex, LIM domain, Zn finger, activator, D binding; 2.05A {Mus musculus} PDB: 3mmk_A

Probab=86.48  E-value=0.72  Score=35.68  Aligned_cols=46  Identities=24%  Similarity=0.608  Sum_probs=34.9

Q ss_pred             CcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCC
Q psy16189        206 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAND  254 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d  254 (262)
                      +.|..|...+.......=|..||..|....+.   .+|..|+.++...+
T Consensus        34 F~C~~C~~~L~~~~f~~~g~~yC~~~y~~~f~---~~C~~C~~~I~~~~   79 (169)
T 2rgt_A           34 LKCSDCHVPLAERCFSRGESVYCKDDFFKRFG---TKCAACQLGIPPTQ   79 (169)
T ss_dssp             SBCTTTCCBCCSCCEESSSCEECHHHHHHHHS---CBCTTTCCBCCTTS
T ss_pred             CccCCCCCcCCCCCcccCCeeeeccccccccc---ccccccccccCCCc
Confidence            67888888876655566788899999888665   46888888876543

>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein 1, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3

Probab=86.07  E-value=0.5  Score=33.03  Aligned_cols=46  Identities=24%  Similarity=0.500  Sum_probs=34.1

Q ss_pred             Ccccccccccccc-eeccccccccHHHHHHHhccCCCCccCCCcccCCCC
Q psy16189        206 LTCPSCKVKRKDA-VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAND  254 (262)
Q Consensus       206 ~~C~iC~~~~~~~-v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d  254 (262)
                      +.|..|...+... ....=|..||..|....+   .++|..|+.++...+
T Consensus        34 F~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~---~~~C~~C~~~I~~~~   80 (101)
T 2cup_A           34 FRCAKCLHPLANETFVAKDNKILCNKCTTRED---SPKCKGCFKAIVAGD   80 (101)
T ss_dssp             CCCSSSCCCTTSSCCEEETTEEECHHHHTTCC---CCBCSSSCCBCCSSS
T ss_pred             CcccccCCCCCcCeeECcCCEEEChhHhhhhc---CCccccCCCccccCC
Confidence            6688888877554 345678889999976543   357999999997543

>3t7l_A Zinc finger FYVE domain-containing protein 16; structural genomics consortium, SGC, lipid BIND protein, transport protein; 1.09A {Homo sapiens}

Probab=85.24  E-value=0.36  Score=33.50  Aligned_cols=45  Identities=27%  Similarity=0.536  Sum_probs=30.5

Q ss_pred             Cccccccccccc----ceeccccccccHHHHHHHhcc-----CCCCccCCCccc
Q psy16189        206 LTCPSCKVKRKD----AVLTKCFHVFCWDCLRTRYET-----RQRKCPKCNAAF  250 (262)
Q Consensus       206 ~~C~iC~~~~~~----~v~l~CgH~fC~~Ci~~~~~~-----~~~~CP~Cr~~~  250 (262)
                      ..|.+|...|.-    ...-.||++||..|.......     ..+.|..|-..+
T Consensus        21 ~~C~~C~~~F~~~~RrhhCr~CG~v~C~~Cs~~~~~l~~~~~~~RVC~~C~~~l   74 (90)
T 3t7l_A           21 PNCMNCQVKFTFTKRRHHCRACGKVFCGVCCNRKCKLQYLEKEARVCVVCYETI   74 (90)
T ss_dssp             CBCTTTCCBCCSSSCCEECTTTCCEECGGGSCEEEEETTTTEEEEECHHHHHHH
T ss_pred             CcCcCCCCcccchhhCccccCCCCEECCcccCCeeecCCCCCCCeECHHHHHHH
Confidence            569999998842    344599999999998764421     234566664433

>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics, structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB: 2yqm_A

Probab=85.01  E-value=0.33  Score=33.04  Aligned_cols=46  Identities=22%  Similarity=0.576  Sum_probs=30.8

Q ss_pred             cCcccccccccccc----eeccccccccHHHHHHHhc-----cCCCCccCCCccc
Q psy16189        205 TLTCPSCKVKRKDA----VLTKCFHVFCWDCLRTRYE-----TRQRKCPKCNAAF  250 (262)
Q Consensus       205 ~~~C~iC~~~~~~~----v~l~CgH~fC~~Ci~~~~~-----~~~~~CP~Cr~~~  250 (262)
                      ...|.+|...|.-.    ..-.||++||..|......     ...+.|-.|-..+
T Consensus        19 ~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~~~l~~~~~~~RVC~~C~~~l   73 (82)
T 2yw8_A           19 ATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSNELALPSYPKPVRVCDSCHTLL   73 (82)
T ss_dssp             CCBCTTTCCBCBTTBCCEECTTTCCEECSGGGCEEECCTTCSSCEEECHHHHHHT
T ss_pred             CCcccCcCCcccCccccccCCCCCCEEChHHhCCeeecCCCCCcCEECHHHHHHH
Confidence            35799999988532    3459999999999876432     1224476665443

>1vfy_A Phosphatidylinositol-3-phosphate binding FYVE domain of protein VPS27; endosome maturation, intracellular trafficking; 1.15A {Saccharomyces cerevisiae} SCOP: g.50.1.1

Probab=84.82  E-value=0.34  Score=32.18  Aligned_cols=30  Identities=23%  Similarity=0.342  Sum_probs=23.3

Q ss_pred             cCccccccccccc----ceeccccccccHHHHHH
Q psy16189        205 TLTCPSCKVKRKD----AVLTKCFHVFCWDCLRT  234 (262)
Q Consensus       205 ~~~C~iC~~~~~~----~v~l~CgH~fC~~Ci~~  234 (262)
                      ...|.+|...|.-    ...-.||++||..|...
T Consensus        11 ~~~C~~C~~~F~~~~RrHHCR~CG~v~C~~Cs~~   44 (73)
T 1vfy_A           11 SDACMICSKKFSLLNRKHHCRSCGGVFCQEHSSN   44 (73)
T ss_dssp             CSBCTTTCCBCBTTBCCEECTTTCCEECGGGSCE
T ss_pred             CCcccCCCCccCCccccccCCCCCEEEcccccCC
Confidence            3579999998853    23458999999999764

>4gkw_A Spindle assembly abnormal protein 6; double helix, SAS-5, centriole, structural protein; 3.30A {Caenorhabditis elegans}

Probab=84.82  E-value=9.7  Score=27.96  Aligned_cols=23  Identities=17%  Similarity=0.307  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         87 AIRKLEEKERYLQTVLTNVEKEL  109 (262)
Q Consensus        87 ~i~~l~e~e~~l~~~i~~lekel  109 (262)
                      .+.+++......+..+..|..++
T Consensus        47 KVDQlqKRn~~HQKEi~~Lrae~   69 (167)
T 4gkw_A           47 KVDQLQKRNVAHQKEIGKLRAEL   69 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHhccHHHHHHHHHHHHH
Confidence            33444443333333344433333

>1vd4_A Transcription initiation factor IIE, alpha subunit; zinc finger; NMR {Homo sapiens} SCOP: g.41.3.1

Probab=84.67  E-value=0.08  Score=33.59  Aligned_cols=39  Identities=18%  Similarity=0.394  Sum_probs=22.5

Q ss_pred             cCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      .+.|++|...|.....+.          ......++..||.|+..|...
T Consensus        14 ~~~C~~C~k~F~~~~~l~----------~~H~~~k~~~C~~C~k~f~~~   52 (62)
T 1vd4_A           14 SFKCPVCSSTFTDLEANQ----------LFDPMTGTFRCTFCHTEVEED   52 (62)
T ss_dssp             EEECSSSCCEEEHHHHHH----------HEETTTTEEBCSSSCCBCEEC
T ss_pred             CccCCCCCchhccHHHhH----------hhcCCCCCEECCCCCCccccC
Confidence            356777777665432221          111122456799999999654

>2i1j_A Moesin; FERM, coiled-coil, C-ermad, ERM, radixin, ezrin, MER actin binding, masking, regulation, SELF-inhibition, cell A membrane protein; 2.10A {Spodoptera frugiperda} PDB: 2i1k_A 1e5w_A

Probab=84.46  E-value=2.6  Score=39.30  Aligned_cols=25  Identities=4%  Similarity=0.252  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         61 KLAREEKDILHEQVNALKLQIDAMH   85 (262)
Q Consensus        61 ~~~~~~k~~l~~e~~~l~~~~~~~~   85 (262)
                      ..+.+++..++..+..+.......+
T Consensus       331 ~~~~~~~~~~~~~~~~~~~~~~~~~  355 (575)
T 2i1j_A          331 ERAEKKQQEYQDRLRQMQEEMERSQ  355 (575)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            3333344444444444444333333

>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR {Leishmania major}

Probab=84.32  E-value=0.39  Score=32.83  Aligned_cols=46  Identities=28%  Similarity=0.560  Sum_probs=31.1

Q ss_pred             cCccccccccccc----ceeccccccccHHHHHHHhc-------cCCCCccCCCccc
Q psy16189        205 TLTCPSCKVKRKD----AVLTKCFHVFCWDCLRTRYE-------TRQRKCPKCNAAF  250 (262)
Q Consensus       205 ~~~C~iC~~~~~~----~v~l~CgH~fC~~Ci~~~~~-------~~~~~CP~Cr~~~  250 (262)
                      ...|.+|...|.-    ...-.||++||..|......       ...+.|..|-..+
T Consensus        21 ~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~~~lp~~~~~~~~RVC~~C~~~l   77 (84)
T 1z2q_A           21 APACNGCGCVFTTTVRRHHCRNCGYVLCGDCSRHRAAIPMRGITEPERVCDACYLAL   77 (84)
T ss_dssp             CCBCTTTCCBCCTTSCCEECTTTCCEECTGGGCCEEEETTTTEEEEEECCHHHHHHH
T ss_pred             CCCCcCcCCccccchhcccccCCCcEEChHHhCCeEeccCCCCCCCCEECHHHHHHH
Confidence            3579999998853    24459999999999876422       1234577775444

>3ql9_A Transcriptional regulator ATRX; zinc finger, transcription, lysine trimethylation, protein, histone-binding protein, transcription-structural complex; HET: M3L; 0.93A {Homo sapiens} PDB: 3qla_A* 3qlc_A 3qln_A 2jm1_A

Probab=84.16  E-value=0.84  Score=33.90  Aligned_cols=44  Identities=23%  Similarity=0.500  Sum_probs=31.0

Q ss_pred             cCcccccccccccceeccccccccHHHHHHHh----------ccCCCCccCCCc
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRY----------ETRQRKCPKCNA  248 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~----------~~~~~~CP~Cr~  248 (262)
                      ...|.+|..--.-...-.|...||..|+.+.+          ..+...||.|+.
T Consensus        57 ~~~C~vC~dGG~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~  110 (129)
T 3ql9_A           57 DEQCRWCAEGGNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHP  110 (129)
T ss_dssp             BSSCTTTCCCSEEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCC
T ss_pred             CCcCeecCCCCeeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCC
Confidence            35599998643322223889999999999753          346688999965

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=84.13  E-value=9.6  Score=27.32  Aligned_cols=50  Identities=14%  Similarity=0.087  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16189         98 LQTVLTNVEKELHLRNQAMDLNKRKAIESAQSAADLKLHLEKYHAQLKEA  147 (262)
Q Consensus        98 l~~~i~~lekel~~~~~~~~~~k~k~~e~~~~~~~l~~~l~~l~~~~~~~  147 (262)
                      ....++.|++++..++...+.+..++-++.+...+|.+.-......+..+
T Consensus        33 ~~~~~~~Lq~El~~lr~~~~~l~~~iReLEq~NDDLER~~R~t~~SLeD~   82 (111)
T 2v66_B           33 SYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIVSLEDF   82 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHhhHHHH
Confidence            34456677777777776666666666666666666655544444444443

>2jr6_A UPF0434 protein NMA0874; solution, structural genomics, PSI, structure initiative, northeast structural genomics consort NESG; NMR {Neisseria meningitidis}

Probab=84.05  E-value=0.2  Score=32.93  Aligned_cols=43  Identities=19%  Similarity=0.258  Sum_probs=29.1

Q ss_pred             ccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccccC
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLE  261 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~~  261 (262)
                      +-..+.||+|.....-..  .               .+.-.||.|+..|...|=.++.+.
T Consensus         5 LL~iL~CP~ck~~L~~~~--~---------------~~~LiC~~cg~~YPI~dGIPvmL~   47 (68)
T 2jr6_A            5 FLDILVCPVTKGRLEYHQ--D---------------KQELWSRQAKLAYPIKDGIPYMLE   47 (68)
T ss_dssp             SSCCCBCSSSCCBCEEET--T---------------TTEEEETTTTEEEEEETTEECCCT
T ss_pred             HhhheECCCCCCcCeEeC--C---------------CCEEEcCCCCcEecCCCCeeeeCh
Confidence            455688999997553211  1               133469999999988887777664

>2xjy_A Rhombotin-2; oncoprotein, T-cell leukemia, proto-oncogene, transcription, developmental protein; 2.40A {Homo sapiens} PDB: 2xjz_A

Probab=84.01  E-value=0.93  Score=33.28  Aligned_cols=47  Identities=17%  Similarity=0.355  Sum_probs=35.7

Q ss_pred             Ccccccccccc---cceeccccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        206 LTCPSCKVKRK---DAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       206 ~~C~iC~~~~~---~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      +.|..|...+.   .+....=|..||..|....+.. ..+|+.|+.++...
T Consensus        30 F~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~-~~~C~~C~~~I~~~   79 (131)
T 2xjy_A           30 LSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQ-DGLCASCDKRIRAY   79 (131)
T ss_dssp             CBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCC-CEECTTTCCEECTT
T ss_pred             cccCcCCCccccCCCeEEEECCEEeecCchhhhCCC-ccChhhcCCccCcc
Confidence            67889998885   2456677899999999887652 12699999988653

>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate; VHS, FYVE, zinc finger, superhelix, transferase; HET: CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2 g.50.1.1

Probab=83.91  E-value=0.27  Score=40.00  Aligned_cols=32  Identities=25%  Similarity=0.569  Sum_probs=24.6

Q ss_pred             ccCccccccccccc----ceeccccccccHHHHHHH
Q psy16189        204 ETLTCPSCKVKRKD----AVLTKCFHVFCWDCLRTR  235 (262)
Q Consensus       204 ~~~~C~iC~~~~~~----~v~l~CgH~fC~~Ci~~~  235 (262)
                      ....|++|...|.-    ...-.||++||..|....
T Consensus       160 ~~~~C~~C~~~F~~~~rrhhCr~CG~v~C~~Cs~~~  195 (220)
T 1dvp_A          160 DGRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTAKQ  195 (220)
T ss_dssp             CCSBCTTTCCBCCSSSCCEECTTTCCEECSTTSCEE
T ss_pred             CCCccCCCCCccCCcccccccCCcCCEEChHHhCCe
Confidence            34679999998842    345599999999998654

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=83.25  E-value=10  Score=26.98  Aligned_cols=33  Identities=18%  Similarity=0.212  Sum_probs=17.6

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy16189          9 NEEEALLNEMEVTGQAFEDMQEQNSRLLQQLRE   41 (262)
Q Consensus         9 ~~~~~l~~Eie~~~~a~e~~q~q~~~~~~~l~e   41 (262)
                      -+.+.|..-+.....++..++.+-..+-..+..
T Consensus        24 ~ei~~L~~~L~~AEeaL~~Kq~~idelk~ei~q   56 (110)
T 2v4h_A           24 MQLEDLRQQLQQAEEALVAKQELIDKLKEEAEQ   56 (110)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345556666666666666655544444443333

>1yuz_A Nigerythrin; rubrythrin, rubredoxin, hemerythrin, electron transfer, DIIR center, oxidoreductase; 1.40A {Desulfovibrio vulgaris subsp} SCOP: a.25.1.1 g.41.5.1 PDB: 1yv1_A 1yux_A

Probab=82.81  E-value=0.86  Score=36.59  Aligned_cols=24  Identities=21%  Similarity=0.293  Sum_probs=14.5

Q ss_pred             eeccccccccHHHHHHHhccCCCCccCCCccc
Q psy16189        219 VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF  250 (262)
Q Consensus       219 v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  250 (262)
                      ++..|||++=.        ..+..||.|+.+=
T Consensus       173 ~C~~CG~i~~g--------~~p~~CP~C~~~k  196 (202)
T 1yuz_A          173 LCPICGYIHKG--------EDFEKCPICFRPK  196 (202)
T ss_dssp             ECSSSCCEEES--------SCCSBCTTTCCBG
T ss_pred             EECCCCCEEcC--------cCCCCCCCCCCCh
Confidence            44566666432        1346899998853

>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate; signaling; 1.48A {Homo sapiens} PDB: 4avx_A*

Probab=82.38  E-value=0.36  Score=39.51  Aligned_cols=46  Identities=22%  Similarity=0.510  Sum_probs=31.4

Q ss_pred             cCccccccccccc----ceeccccccccHHHHHHHhc-------cCCCCccCCCccc
Q psy16189        205 TLTCPSCKVKRKD----AVLTKCFHVFCWDCLRTRYE-------TRQRKCPKCNAAF  250 (262)
Q Consensus       205 ~~~C~iC~~~~~~----~v~l~CgH~fC~~Ci~~~~~-------~~~~~CP~Cr~~~  250 (262)
                      ...|.+|...|.-    ...-.||++||..|...+..       ...+.|..|-..+
T Consensus       164 ~~~C~~C~~~F~~~~RrhHCR~CG~v~C~~Cs~~~~~~p~~~~~~~~RVC~~C~~~l  220 (226)
T 3zyq_A          164 AEECHRCRVQFGVMTRKHHCRACGQIFCGKCSSKYSTIPKFGIEKEVRVCEPCYEQL  220 (226)
T ss_dssp             CSBCTTTCCBCBTTBCCEECTTTCCEECTTTCCEEEEEGGGTEEEEEEECHHHHHHH
T ss_pred             CCCCcCcCCCCCccccccccCCCcCEeChhhcCCcccCCCCCCCCCCEeCHHHHHHh
Confidence            4579999998742    34569999999999875332       1235577775433

>1wfk_A Zinc finger, FYVE domain containing 19; riken structural genomics/proteomics initiative, RSGI, structural genomics, unknown function; NMR {Mus musculus} SCOP: g.50.1.1

Probab=82.33  E-value=0.41  Score=33.11  Aligned_cols=46  Identities=28%  Similarity=0.546  Sum_probs=31.1

Q ss_pred             cCcccccccccccc----eeccccccccHHHHHHHhc------cCCCCccCCCccc
Q psy16189        205 TLTCPSCKVKRKDA----VLTKCFHVFCWDCLRTRYE------TRQRKCPKCNAAF  250 (262)
Q Consensus       205 ~~~C~iC~~~~~~~----v~l~CgH~fC~~Ci~~~~~------~~~~~CP~Cr~~~  250 (262)
                      ...|.+|...|.-.    ..-.||++||..|......      ...+.|-.|-..+
T Consensus         9 ~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~~~~lp~~g~~~~RVC~~C~~~l   64 (88)
T 1wfk_A            9 ESRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSFSALVPRAGNTQQKVCKQCHTIL   64 (88)
T ss_dssp             CSBCTTTCCBCCSSSCEEECSSSCCEEETTTSCEEEEETTTTSEEEEECHHHHHHH
T ss_pred             CCCCcCcCCcccCccccccCCCCCCEEChhHcCCceeccccCCCcCEECHHHHHHH
Confidence            35799999988532    3459999999999865332      1235577775433

>3pwf_A Rubrerythrin; non heme iron peroxidases, oxidative stress, oxidoreductase; 1.64A {Pyrococcus furiosus} PDB: 3mps_A 3pza_A 3qvd_A 1nnq_A 2hr5_A

Probab=82.19  E-value=0.53  Score=36.77  Aligned_cols=24  Identities=21%  Similarity=0.311  Sum_probs=14.8

Q ss_pred             eeccccccccHHHHHHHhccCCCCccCCCccc
Q psy16189        219 VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF  250 (262)
Q Consensus       219 v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  250 (262)
                      ++..|||++-.        .-+..||+|+.|-
T Consensus       140 ~C~~CG~i~~~--------~~p~~CP~Cg~~~  163 (170)
T 3pwf_A          140 ICPICGYTAVD--------EAPEYCPVCGAPK  163 (170)
T ss_dssp             ECTTTCCEEES--------CCCSBCTTTCCBG
T ss_pred             EeCCCCCeeCC--------CCCCCCCCCCCCH
Confidence            44566776541        1234899999753

>1x4u_A Zinc finger, FYVE domain containing 27 isoform B; phosphoinositide binding, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=81.92  E-value=0.47  Score=32.40  Aligned_cols=30  Identities=20%  Similarity=0.498  Sum_probs=23.2

Q ss_pred             Cccccccccccc----ceeccccccccHHHHHHH
Q psy16189        206 LTCPSCKVKRKD----AVLTKCFHVFCWDCLRTR  235 (262)
Q Consensus       206 ~~C~iC~~~~~~----~v~l~CgH~fC~~Ci~~~  235 (262)
                      ..|.+|...|.-    ...-.||++||..|....
T Consensus        15 ~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~~   48 (84)
T 1x4u_A           15 GNCTGCSATFSVLKKRRSCSNCGNSFCSRCCSFK   48 (84)
T ss_dssp             SSCSSSCCCCCSSSCCEECSSSCCEECTTTSCEE
T ss_pred             CcCcCcCCccccchhhhhhcCCCcEEChhhcCCc
Confidence            579999998842    234599999999997653

>1rut_X Flinc4, fusion protein of LMO4 protein and LIM domain- binding protein 1; B-tandem zipper, protein binding; 1.30A {Mus musculus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB: 2dfy_X 2xjz_I 2xjy_B

Probab=81.09  E-value=0.78  Score=36.17  Aligned_cols=47  Identities=23%  Similarity=0.521  Sum_probs=34.8

Q ss_pred             Cccccccccccc---ceeccccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        206 LTCPSCKVKRKD---AVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       206 ~~C~iC~~~~~~---~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      +.|..|...+..   +....=|..||..|....+.. ..+|+.|+.++...
T Consensus        33 F~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~-~~~C~~C~~~I~~~   82 (188)
T 1rut_X           33 LKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGN-SGACSACGQSIPAS   82 (188)
T ss_dssp             CBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSC-CEECTTTCCEECTT
T ss_pred             cccCCCCcccccCCceEEEeCCcccccccccccccc-CCccccCCCccccC
Confidence            678888888764   456677889999998887652 11599999888653

>3uk3_C Zinc finger protein 217; transcription factor, DNA binding, DNA-metal BI protein complex; 2.10A {Homo sapiens}

Probab=80.98  E-value=0.77  Score=27.71  Aligned_cols=42  Identities=24%  Similarity=0.411  Sum_probs=25.7

Q ss_pred             cCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        205 TLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      .+.|++|...|.....+. .|      +......++..||.|+..|...
T Consensus         4 ~~~C~~C~~~f~~~~~l~-~H------~~~h~~~~~~~C~~C~~~f~~~   45 (57)
T 3uk3_C            4 SRECSYCGKFFRSNYYLN-IH------LRTHTGEKPYKCEFCEYAAAQK   45 (57)
T ss_dssp             -CBCTTTCCBCSCHHHHH-HH------HHHHHCCCCEECSSSSCEESSH
T ss_pred             CccCCCCcchhCChHHHH-HH------HHHcCCCCCcCCCCCcchhCCH
Confidence            478999998887653321 12      1122234567899999988653

>2jrp_A Putative cytoplasmic protein; two-zinc binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium LT2}

Probab=80.87  E-value=0.14  Score=34.83  Aligned_cols=10  Identities=40%  Similarity=1.029  Sum_probs=6.3

Q ss_pred             Cccccccccc
Q psy16189        206 LTCPSCKVKR  215 (262)
Q Consensus       206 ~~C~iC~~~~  215 (262)
                      ..||.|...+
T Consensus         3 ~~CP~C~~~l   12 (81)
T 2jrp_A            3 ITCPVCHHAL   12 (81)
T ss_dssp             CCCSSSCSCC
T ss_pred             CCCCCCCCcc
Confidence            5677777654

>2jne_A Hypothetical protein YFGJ; zinc fingers, two zinc, structural genomics, PSI-2, protein structure initiative; NMR {Escherichia coli} SCOP: g.41.18.1

Probab=80.64  E-value=0.13  Score=35.96  Aligned_cols=40  Identities=25%  Similarity=0.575  Sum_probs=26.1

Q ss_pred             CcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        206 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      ..||.|...+..    .=|+.+|..|-..+.  ....||.|+.++.
T Consensus        33 ~~CP~Cq~eL~~----~g~~~hC~~C~~~f~--~~a~CPdC~q~Le   72 (101)
T 2jne_A           33 LHCPQCQHVLDQ----DNGHARCRSCGEFIE--MKALCPDCHQPLQ   72 (101)
T ss_dssp             CBCSSSCSBEEE----ETTEEEETTTCCEEE--EEEECTTTCSBCE
T ss_pred             ccCccCCCccee----cCCEEECccccchhh--ccccCcchhhHHH
Confidence            889999986532    124445888865422  2345999988874

>2jny_A Uncharacterized BCR; structure, CGR1, NESG, structural genomics, PSI-2, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: b.171.1.1

Probab=80.34  E-value=0.36  Score=31.56  Aligned_cols=43  Identities=21%  Similarity=0.174  Sum_probs=29.0

Q ss_pred             ccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccccC
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLE  261 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~~  261 (262)
                      +-..+.||+|.....-..                 ..+.-.||.|+..|...|=.++.+.
T Consensus         7 LLeiL~CP~ck~~L~~~~-----------------~~g~LvC~~c~~~YPI~dGIPvmL~   49 (67)
T 2jny_A            7 LLEVLACPKDKGPLRYLE-----------------SEQLLVNERLNLAYRIDDGIPVLLI   49 (67)
T ss_dssp             GTCCCBCTTTCCBCEEET-----------------TTTEEEETTTTEEEEEETTEECCCS
T ss_pred             HHHHhCCCCCCCcCeEeC-----------------CCCEEEcCCCCccccCCCCEeeeCh
Confidence            556789999998554211                 1234469999998887777777654

>2hf1_A Tetraacyldisaccharide-1-P 4-kinase; LPXK, lipid A biosynthes structural genomics, PSI-2, protein structure initiative; 1.90A {Chromobacterium violaceum} SCOP: b.171.1.1

Probab=80.09  E-value=0.21  Score=32.79  Aligned_cols=43  Identities=28%  Similarity=0.359  Sum_probs=29.1

Q ss_pred             ccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccccC
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYLE  261 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~~  261 (262)
                      +-..+.||+|.....-..                 ..+.-.||.|+..|...|=.++.+.
T Consensus         5 LL~iL~CP~ck~~L~~~~-----------------~~~~LiC~~cg~~YPI~dGIPvmL~   47 (68)
T 2hf1_A            5 FLEILVCPLCKGPLVFDK-----------------SKDELICKGDRLAFPIKDGIPMMLE   47 (68)
T ss_dssp             CEEECBCTTTCCBCEEET-----------------TTTEEEETTTTEEEEEETTEECCCG
T ss_pred             HhhheECCCCCCcCeEeC-----------------CCCEEEcCCCCcEecCCCCeeeeCh
Confidence            445688999997543211                 1234569999999988887777664

---

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	262
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-13
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	3e-09
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	4e-08
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	1e-07
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	1e-07
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	5e-05
d1t1ha_	78	g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cre	1e-04
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	1e-04
d2c2la2	80	g.44.1.2 (A:225-304) STIP1 homology and U box-cont	2e-04
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	4e-04
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	0.001
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	0.002

>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 = 63.0 bits (153), Expect = 1e-13
 Identities = 14/54 (25%), Positives = 23/54 (42%)

Query: 201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAND 254
            + ++++C  C+    D V T C H+FC  C+    +     CP C       D
Sbjct: 19  HFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD 72

>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 = 50.4 bits (120), Expect = 3e-09
 Identities = 17/60 (28%), Positives = 24/60 (40%), Gaps = 4/60 (6%)

Query: 193 EVMMEEIREYKET----LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNA 248
           +V  E+   Y E       C  C    KD  +  C H+ C  CL +  E+  + CP C  
Sbjct: 7   KVTQEQYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRC 66

>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 = 46.8 bits (111), Expect = 4e-08
 Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 4/47 (8%)

Query: 204 ETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF 250
           + L C  C+ + K   L  C H  C  CL    E    +CP C A +
Sbjct: 5   QFLRCQQCQAEAKCPKLLPCLHTLCSGCL----EASGMQCPICQAPW 47

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

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]

 Score = 45.5 bits (107), Expect = 1e-07
 Identities = 11/63 (17%), Positives = 21/63 (33%), Gaps = 5/63 (7%)

Query: 204 ETLTCPSC-----KVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRL 258
           +   CP C     +      ++  C H  C  C+   +      CP+C      +++   
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQ 61

Query: 259 YLE 261
             E
Sbjct: 62  LFE 64

>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 = 46.6 bits (110), Expect = 1e-07
 Identities = 18/67 (26%), Positives = 27/67 (40%), Gaps = 2/67 (2%)

Query: 193 EVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQR--KCPKCNAAF 250
           E +   I   ++ L CP C    K+ V TKC H+FC  C+      ++   +CP C    
Sbjct: 9   EEVQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI 68

Query: 251 GANDYHR 257
                  
Sbjct: 69  TKRSLQE 75

>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 = 38.4 bits (89), Expect = 5e-05
 Identities = 12/44 (27%), Positives = 17/44 (38%), Gaps = 2/44 (4%)

Query: 208 CPSCKVKRKDAV-LTKCFHVFCWDCLRTRYETRQRKCPKCNAAF 250
           CP C     +      C H FC+ C+  R+  +   CP C    
Sbjct: 8   CPICLEDPSNYSMALPCLHAFCYVCIT-RWIRQNPTCPLCKVPV 50

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 78

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]

 Score = 37.4 bits (86), Expect = 1e-04
 Identities = 10/54 (18%), Positives = 17/54 (31%)

Query: 201 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAND 254
           E+ E   CP      KD V+      +    ++   +   + CPK         
Sbjct: 4   EFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG 57

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

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]

 Score = 36.6 bits (84), Expect = 1e-04
 Identities = 9/52 (17%), Positives = 16/52 (30%), Gaps = 4/52 (7%)

Query: 206 LTCPSC----KVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN 253
           + CP C    ++   +     C +  C  C           CP C   +  +
Sbjct: 1   VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED 52

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 80

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]

 Score = 37.1 bits (85), Expect = 2e-04
 Identities = 4/60 (6%), Positives = 13/60 (21%)

Query: 200 REYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY 259
           R+  + L         ++  +T     +    +    +      P   +           
Sbjct: 2   RDIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNL 61

>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 = 35.2 bits (81), Expect = 4e-04
 Identities = 10/48 (20%), Positives = 17/48 (35%), Gaps = 5/48 (10%)

Query: 203 KETLTCPSC----KVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKC 246
            + + C  C    +   +   L +C H F  +C+          CP C
Sbjct: 3   DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLG-SHSTCPLC 49

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

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]

 Score = 35.8 bits (81), Expect = 0.001
 Identities = 17/82 (20%), Positives = 28/82 (34%), Gaps = 6/82 (7%)

Query: 175 LRRKTERMKK-IEQAGTLDEVMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDC-- 231
           +R+ TE +K   E+   +    +     Y +     +         LTKC H F   C  
Sbjct: 13  IRKYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALG-PMVVGRLTKCSHAFHLLCLL 71

Query: 232 --LRTRYETRQRKCPKCNAAFG 251
                  +    +CP C   +G
Sbjct: 72  AMYCNGNKDGSLQCPSCKTIYG 93

>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 = 34.8 bits (79), Expect = 0.002
 Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 1/48 (2%)

Query: 197 EEIREYKETLTCPSCK-VKRKDAVLTKCFHVFCWDCLRTRYETRQRKC 243
             +   ++ L C  C  + R+   L  C H+FC +C+     T    C
Sbjct: 14  AALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVC 61

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	262
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.65
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.62
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.57
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.53
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.53
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.53
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.52
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.48
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.41
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.4
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.36
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.29
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.26
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.07
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.02
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.86
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.47
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	96.34
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	95.7
d1zbdb_	124	Effector domain of rabphilin-3a {Rat (Rattus norve	94.89
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	93.59
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	93.46
d2jnea1	71	Hypothetical protein YfgJ {Escherichia coli [TaxId	90.18
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	87.52
d1nnqa2	37	Rubrerythrin, C-terminal domain {Archaeon Pyrococc	87.44
d2fiya1	290	FdhE homolog PA4809 {Pseudomonas aeruginosa [TaxId	87.07
d1yuza2	36	Nigerythrin, C-terminal domain {Desulfovibrio vulg	87.02
d1wfpa_	74	Zinc finger A20 and AN1 domains containing protein	85.8
d1joca1	64	Eea1 {Human (Homo sapiens) [TaxId: 9606]}	85.67
d2dmda2	26	Zinc finger protein 64, ZFP68 {Human (Homo sapiens	85.57
d1dvpa2	72	Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7	85.12
d1vfya_	67	vps27p protein {Baker's yeast (Saccharomyces cerev	84.77
d1lkoa2	44	Rubrerythrin, C-terminal domain {Desulfovibrio vul	84.38
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	84.0
d2adra1	29	ADR1 {Synthetic, based on Saccharomyces cerevisiae	82.8
d2epqa1	32	PATZ1 {Human (Homo sapiens) [TaxId: 9606]}	82.25
d1wfla_	74	Zinc finger A20 domain containing protein 2 {Mouse	80.96

>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=99.65  E-value=1.9e-17  Score=115.27  Aligned_cols=54  Identities=26%  Similarity=0.584  Sum_probs=49.1

Q ss_pred             ccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccc
Q psy16189        204 ETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHR  257 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~  257 (262)
                      ..+.|+||.+.+.+|++++|||+||..|+..|+..+.++||.||.++...|+.+
T Consensus        22 ~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~~   75 (86)
T d1rmda2          22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLES   75 (86)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBC
T ss_pred             cCcCCccCCcchhcceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhccC
Confidence            348899999999999999999999999999999888889999999998777653

>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=99.62  E-value=1.6e-16  Score=115.17  Aligned_cols=66  Identities=26%  Similarity=0.561  Sum_probs=54.8

Q ss_pred             HHHHHHHhccccCcccccccccccceeccccccccHHHHHHHhccCC--CCccCCCcccCCCCccccc
Q psy16189        194 VMMEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQ--RKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       194 ~l~~e~~~~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~--~~CP~Cr~~~~~~d~~~iy  259 (262)
                      ....-++.+...+.||||...|.+|++++|||+||..|+..|+..+.  ..||.||.++...++.+.+
T Consensus        10 ~~~~~~~~l~~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~   77 (103)
T d1jm7a_          10 EVQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQEST   77 (103)
T ss_dssp             HHHHHHHHHHHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCC
T ss_pred             HHHHHHHhcccCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhCCcCH
Confidence            34445566667799999999999999999999999999999996543  5799999999888876654

>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=99.57  E-value=1.4e-15  Score=104.49  Aligned_cols=51  Identities=25%  Similarity=0.610  Sum_probs=46.1

Q ss_pred             CcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCcc
Q psy16189        206 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYH  256 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~  256 (262)
                      ..|+||.+.+.+|++++|||+||..|+..|+..+...||.||.++...+..
T Consensus        24 ~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~i   74 (79)
T d1fbva4          24 QLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI   74 (79)
T ss_dssp             TBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCCS
T ss_pred             CCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCcee
Confidence            569999999999999999999999999999987888899999999765443

>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=99.53  E-value=1.1e-15  Score=97.95  Aligned_cols=54  Identities=15%  Similarity=0.193  Sum_probs=48.6

Q ss_pred             Ccccccccccccceec-cccccccHHHHHHHhccCCCCccCCCcccCCCCcccccc
Q psy16189        206 LTCPSCKVKRKDAVLT-KCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      +.|+||++.+.+||++ .|||+||..||..|+.. +..||.||.++...|+.++.-
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~-~~~CP~c~~~l~~~dLipik~   55 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKD-TGNDPITNEPLSIEEIVEIVP   55 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHH-HSBCTTTCCBCCGGGCEECCC
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhh-ccCCCccCCcCCHHhceeCCC
Confidence            4699999999999987 59999999999999985 567999999999999988753

>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=99.53  E-value=1.5e-15  Score=104.69  Aligned_cols=56  Identities=5%  Similarity=-0.043  Sum_probs=50.3

Q ss_pred             cccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCcccc
Q psy16189        203 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRL  258 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~i  258 (262)
                      -..+.||||+..|.+||+++|||+||..||..|+..+...||.||.++...++.+.
T Consensus         5 P~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~pN   60 (80)
T d2c2la2           5 PDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPN   60 (80)
T ss_dssp             CSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEEC
T ss_pred             CccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCCccCCCccccccccccccH
Confidence            45689999999999999999999999999999998778889999999987776653

>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=99.53  E-value=3.2e-15  Score=102.54  Aligned_cols=58  Identities=17%  Similarity=0.356  Sum_probs=51.9

Q ss_pred             ccccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCCCccccc
Q psy16189        202 YKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLY  259 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy  259 (262)
                      +-..+.|+||...|.+||+++|||+||..|+..|+..+...||.|+.++...++.+.+
T Consensus         5 iP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~pN~   62 (78)
T d1t1ha_           5 FPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNY   62 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECT
T ss_pred             CCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCCCCCCcccccCCcccccchH
Confidence            3456999999999999999999999999999999988788899999999888876643

>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=99.52  E-value=2.6e-15  Score=99.20  Aligned_cols=56  Identities=20%  Similarity=0.648  Sum_probs=47.0

Q ss_pred             cCcccccccccc-c----ceeccccccccHHHHHHHhccCCCCccCCCcccCCCCcccccc
Q psy16189        205 TLTCPSCKVKRK-D----AVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYL  260 (262)
Q Consensus       205 ~~~C~iC~~~~~-~----~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~iy~  260 (262)
                      ...||||.+.+. +    .++++|||+||..|+..|+..+...||.||.++..++++..+|
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~~~~~~f   63 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQLF   63 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCCEEECC
T ss_pred             CCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccccccccCC
Confidence            478999998642 2    2567999999999999999877778999999999998877665

>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=99.48  E-value=6.5e-15  Score=105.28  Aligned_cols=62  Identities=21%  Similarity=0.478  Sum_probs=51.6

Q ss_pred             HHHHHHHhccccCcccccccccccceec-cccccccHHHHHHHhccCCCCccCCCcccCCCCcccc
Q psy16189        194 VMMEEIREYKETLTCPSCKVKRKDAVLT-KCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRL  258 (262)
Q Consensus       194 ~l~~e~~~~~~~~~C~iC~~~~~~~v~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~i  258 (262)
                      .....++.+...+.|+||...|.+|+.+ +|||+||..|+..|+.   ..||.||.++...++.+.
T Consensus        11 ~~~~~l~~l~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~~~~l~~n   73 (97)
T d1jm7b_          11 HSRAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG---TGCPVCYTPAWIQDLKIN   73 (97)
T ss_dssp             HHHHHHHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT---TBCSSSCCBCSCSSCCCC
T ss_pred             hHHHHHHhhhhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHh---ccccccCCcCchhhCccc
Confidence            3445566677789999999999999875 8999999999999985   359999999988777653

>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=99.41  E-value=1.7e-14  Score=91.97  Aligned_cols=46  Identities=30%  Similarity=0.777  Sum_probs=40.2

Q ss_pred             ccCcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccCCC
Q psy16189        204 ETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN  253 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  253 (262)
                      ..+.|+||++.+.+|++++|||+||..|+..    ....||.||.++...
T Consensus         5 ~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~----~~~~CP~Cr~~~~~~   50 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEA----SGMQCPICQAPWPLG   50 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCCSBTTTCSS----SSSSCSSCCSSSSCC
T ss_pred             CCCCCcccCcccCCCEEecCCCHHhHHHHHc----CCCcCcCCCCcccCC
Confidence            3478999999999999999999999999875    356799999999654

>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=99.40  E-value=7.1e-14  Score=87.91  Aligned_cols=47  Identities=19%  Similarity=0.472  Sum_probs=39.9

Q ss_pred             Ccccccccccccc----eeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        206 LTCPSCKVKRKDA----VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       206 ~~C~iC~~~~~~~----v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      +.||||.+.|...    ..++|||.||..|+..|+......||.||.+|..
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            4699999988442    4459999999999999998777789999999974

>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=99.36  E-value=9.7e-14  Score=92.37  Aligned_cols=45  Identities=24%  Similarity=0.742  Sum_probs=39.4

Q ss_pred             Ccccccccccccc-eeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        206 LTCPSCKVKRKDA-VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       206 ~~C~iC~~~~~~~-v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      -.|+||.+.+.++ ++++|||+||..|+..|+.. .+.||.||.++.
T Consensus         6 d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~-~~~CP~CR~~i~   51 (68)
T d1chca_           6 ERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVE   51 (68)
T ss_dssp             CCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHH-SCSTTTTCCCCC
T ss_pred             CCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHh-CCcCCCCCcchH
Confidence            4699999999776 55799999999999999985 568999999875

>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=99.29  E-value=7e-13  Score=84.15  Aligned_cols=49  Identities=20%  Similarity=0.559  Sum_probs=39.9

Q ss_pred             ccccCcccccccccccc---eec-cccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        202 YKETLTCPSCKVKRKDA---VLT-KCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~---v~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      +++...|+||+..|...   +.+ +|||.||..|+..|+.. ...||.||.++.
T Consensus         2 ~ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i~   54 (55)
T d1iyma_           2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV   54 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT-CCSCSSSCCCSC
T ss_pred             CCCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHh-CCcCCCCCCEeE
Confidence            44567899999999653   333 79999999999999985 668999999764

>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=99.26  E-value=1.7e-12  Score=92.42  Aligned_cols=55  Identities=7%  Similarity=0.000  Sum_probs=47.9

Q ss_pred             cccCcccccccccccceeccccc-cccHHHHHHHhccCCCCccCCCcccCCCCcccc
Q psy16189        203 KETLTCPSCKVKRKDAVLTKCFH-VFCWDCLRTRYETRQRKCPKCNAAFGANDYHRL  258 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~v~l~CgH-~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~d~~~i  258 (262)
                      -..+.||||...|.+||+++||| +||..||..|+. +...||.||.++...++.+.
T Consensus        20 P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~-~~~~~P~~~~~l~~~~L~pN   75 (98)
T d1wgma_          20 CDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLL-SDQTDPFNRSPLTMDQIRPN   75 (98)
T ss_dssp             CTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTT-TSCBCTTTCSBCCTTTSEEC
T ss_pred             cHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHH-hcCCcccccccccchhhcch
Confidence            34699999999999999998875 899999999997 56789999999988877654

>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=99.07  E-value=3.1e-11  Score=88.25  Aligned_cols=49  Identities=33%  Similarity=0.639  Sum_probs=39.4

Q ss_pred             cCccccccccccc------------------ceeccccccccHHHHHHHhccC----CCCccCCCcccCCC
Q psy16189        205 TLTCPSCKVKRKD------------------AVLTKCFHVFCWDCLRTRYETR----QRKCPKCNAAFGAN  253 (262)
Q Consensus       205 ~~~C~iC~~~~~~------------------~v~l~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~~~  253 (262)
                      ...|+||+..+..                  ..+++|||.||..||..|+..+    ..+||.||+.++..
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccC
Confidence            3569999998743                  2467999999999999999754    34799999998654

>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=99.02  E-value=8.1e-11  Score=81.91  Aligned_cols=46  Identities=24%  Similarity=0.549  Sum_probs=37.5

Q ss_pred             Cccccccccccc------------------ceeccccccccHHHHHHHhccCCCCccCCCcccCC
Q psy16189        206 LTCPSCKVKRKD------------------AVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGA  252 (262)
Q Consensus       206 ~~C~iC~~~~~~------------------~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  252 (262)
                      -.|+||...+..                  ++.++|||.||..||..|+.. +..||.||++|..
T Consensus        22 d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~   85 (88)
T d3dplr1          22 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWEF   85 (88)
T ss_dssp             CCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT-CSBCSSSCSBCCE
T ss_pred             CcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHH-CCcCCCCCCcccc
Confidence            458999876633                  355799999999999999985 5679999999864

>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=98.86  E-value=7.4e-10  Score=71.18  Aligned_cols=49  Identities=18%  Similarity=0.491  Sum_probs=40.6

Q ss_pred             ccCcccccccccccceeccc-----cccccHHHHHHHhcc-CCCCccCCCcccCC
Q psy16189        204 ETLTCPSCKVKRKDAVLTKC-----FHVFCWDCLRTRYET-RQRKCPKCNAAFGA  252 (262)
Q Consensus       204 ~~~~C~iC~~~~~~~v~l~C-----gH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~  252 (262)
                      +...|+||.+.+.++.+.+|     +|.|+..|+..|+.. +..+||.||++|..
T Consensus         5 d~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           5 DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             SCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            34779999998887766655     599999999999864 56789999999864

>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=98.47  E-value=3.4e-08  Score=69.03  Aligned_cols=45  Identities=22%  Similarity=0.518  Sum_probs=34.4

Q ss_pred             cCccccccccccc---ceeccccccccHHHHHHHhccC-------CCCccCCCcc
Q psy16189        205 TLTCPSCKVKRKD---AVLTKCFHVFCWDCLRTRYETR-------QRKCPKCNAA  249 (262)
Q Consensus       205 ~~~C~iC~~~~~~---~v~l~CgH~fC~~Ci~~~~~~~-------~~~CP~Cr~~  249 (262)
                      ...|+||...+..   +++++|||.||..|+..|+...       ..+||.|+-+
T Consensus         5 ~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   59 (94)
T d1wima_           5 SSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP   59 (94)
T ss_dssp             BCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCS
T ss_pred             CCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCCC
Confidence            4679999998754   3556899999999999988632       2369987643

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.34  E-value=0.00054  Score=43.33  Aligned_cols=34  Identities=29%  Similarity=0.798  Sum_probs=29.8

Q ss_pred             cCcccccccccccceeccc----cccccHHHHHHHhcc
Q psy16189        205 TLTCPSCKVKRKDAVLTKC----FHVFCWDCLRTRYET  238 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~C----gH~fC~~Ci~~~~~~  238 (262)
                      .+.|.+|.+...+..+..|    +|-||+.|....++.
T Consensus         8 ~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           8 PLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             SCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             ceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHh
Confidence            4889999999999988888    799999999887764

>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Cysteine-rich domain
superfamily: Cysteine-rich domain
family: TFIIH p44 subunit cysteine-rich domain
domain: TFIIH p44 subunit cysteine-rich domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.70  E-value=0.0049  Score=37.59  Aligned_cols=43  Identities=30%  Similarity=0.666  Sum_probs=32.3

Q ss_pred             cccCcccccccccccce---eccccccccHHHHHHHhccCCCCccCC
Q psy16189        203 KETLTCPSCKVKRKDAV---LTKCFHVFCWDCLRTRYETRQRKCPKC  246 (262)
Q Consensus       203 ~~~~~C~iC~~~~~~~v---~l~CgH~fC~~Ci~~~~~~~~~~CP~C  246 (262)
                      .....|.-|...+++..   ...|++.||.+| +-++...-..||.|
T Consensus        13 ~~~~~C~gC~~~l~~~~~y~C~~C~~~FC~dC-D~fiHe~lh~CpgC   58 (59)
T d1z60a1          13 NGERFCYGCQGELKDQHVYVCAVCQNVFCVDC-DVFVHDSLHSCPGC   58 (59)
T ss_dssp             CSCCEETTTTEECTTSEEECCTTTTCCBCHHH-HHTTTTTSCSSSTT
T ss_pred             CCCCCccCCCCcCCCCceEECcCCCCcccccc-chhhhhhhcCCCCC
Confidence            34578999998887653   348999999999 44444456779998

>d1zbdb_ g.50.1.1 (B:) Effector domain of rabphilin-3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Effector domain of rabphilin-3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.89  E-value=0.007  Score=43.28  Aligned_cols=44  Identities=20%  Similarity=0.325  Sum_probs=29.3

Q ss_pred             cCccccccccccc---c--eeccccccccHHHHHHHhcc---CCCCccCCCc
Q psy16189        205 TLTCPSCKVKRKD---A--VLTKCFHVFCWDCLRTRYET---RQRKCPKCNA  248 (262)
Q Consensus       205 ~~~C~iC~~~~~~---~--v~l~CgH~fC~~Ci~~~~~~---~~~~CP~Cr~  248 (262)
                      ...|++|...|..   .  ....||+.||..|.......   ..+.|..|..
T Consensus        48 ~~~C~~C~~~f~~~~~~~~~C~~C~~~~C~~C~~~~~~~~~~~~w~C~~C~k   99 (124)
T d1zbdb_          48 VNRCILCGEQLGMLGSASVVCEDCKKNVCTKCGVETSNNRPHPVWLCKICLE   99 (124)
T ss_dssp             SSBCSSSCCBCSTTSCCEEECTTTCCEEETTSEEECCCSSSSCCEEEHHHHH
T ss_pred             CCcCcccCCcccCCCCCCCcCccCCcccccCCCCCccCCCCCCCEECccCcc
Confidence            4679999997642   2  45699999999996432211   2355888854

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=93.59  E-value=0.038  Score=35.99  Aligned_cols=47  Identities=17%  Similarity=0.489  Sum_probs=36.3

Q ss_pred             cCccccccccccc----ceec---cccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        205 TLTCPSCKVKRKD----AVLT---KCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       205 ~~~C~iC~~~~~~----~v~l---~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      ...|.||.+..--    -+++   -|+-..|..|..=-.+.+...||.|++++.
T Consensus        16 ~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Yk   69 (93)
T d1weoa_          16 GQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYK   69 (93)
T ss_dssp             SCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCC
T ss_pred             cchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhh
Confidence            3679999997632    1333   778888999998766777888999999984

>d1y02a2 g.50.1.1 (A:20-70) Rififylin (FYVE-RING finger protein Sakura) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Rififylin (FYVE-RING finger protein Sakura)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.46  E-value=0.0033  Score=37.65  Aligned_cols=41  Identities=24%  Similarity=0.567  Sum_probs=27.6

Q ss_pred             ccccccccccc----ceeccccccccHHHHHHHhccCCCCccCCCc
Q psy16189        207 TCPSCKVKRKD----AVLTKCFHVFCWDCLRTRYETRQRKCPKCNA  248 (262)
Q Consensus       207 ~C~iC~~~~~~----~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~  248 (262)
                      .|.+|...|.-    ...-.||++||..|..... ..++.|..|..
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~-~~~RvC~~C~~   46 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVG-NGPRLCLLCQR   46 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC-----CCEEHHHHH
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCCC-CCCeECHhHhh
Confidence            48889888743    2345899999999976532 34567888843

>d2jnea1 g.41.18.1 (A:1-71) Hypothetical protein YfgJ {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: Rubredoxin-like
superfamily: YfgJ-like
family: YfgJ-like
domain: Hypothetical protein YfgJ
species: Escherichia coli [TaxId: 562]

Probab=90.18  E-value=0.0086  Score=37.75  Aligned_cols=40  Identities=25%  Similarity=0.573  Sum_probs=26.6

Q ss_pred             CcccccccccccceeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        206 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       206 ~~C~iC~~~~~~~v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      +.||.|...+..    .=||.+|..|-..+-.  ...||.|+.++.
T Consensus         3 ~~CP~C~~eL~~----~~~~~~C~~C~~~~~~--~a~CPdC~~~Le   42 (71)
T d2jnea1           3 LHCPQCQHVLDQ----DNGHARCRSCGEFIEM--KALCPDCHQPLQ   42 (71)
T ss_dssp             CBCSSSCSBEEE----ETTEEEETTTCCEEEE--EEECTTTCSBCE
T ss_pred             CcCCCccCcccc----cCCCEehhhhhhhhee--EEeCCccccHHH
Confidence            689999986432    2278888888554222  345888888763

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.52  E-value=0.26  Score=31.74  Aligned_cols=48  Identities=23%  Similarity=0.353  Sum_probs=32.8

Q ss_pred             ccccCcccccccccccceecc---ccccccHHHHHHHh-ccC--------------CCCccCCCccc
Q psy16189        202 YKETLTCPSCKVKRKDAVLTK---CFHVFCWDCLRTRY-ETR--------------QRKCPKCNAAF  250 (262)
Q Consensus       202 ~~~~~~C~iC~~~~~~~v~l~---CgH~fC~~Ci~~~~-~~~--------------~~~CP~Cr~~~  250 (262)
                      ..++..|+|| ..|....++|   |+..|-..|+.+.- ..+              ...|+.|..-+
T Consensus        12 v~~D~mC~vC-~v~t~~~l~pCRvCtRv~H~~CL~r~gyl~~e~a~e~~e~A~T~~GWSC~~C~nl~   77 (89)
T d1wila_          12 VVNDEMCDVC-EVWTAESLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYCDNIN   77 (89)
T ss_dssp             CCCSCCCTTT-CCCCSSCCSSCSSSSSCCCHHHHHHHTSCCCCCCCSCSCCCSSSSSCCCTTTCCCC
T ss_pred             CCcCcccccc-CcccccceecceeecchhhHHHHHHhcccccHHHHHHHHhhcCCCCcchhhhcchh
Confidence            3456789999 5666655665   47888899999873 211              24599997643

>d1nnqa2 g.41.5.1 (A:135-171) Rubrerythrin, C-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubrerythrin, C-terminal domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=87.44  E-value=0.12  Score=28.29  Aligned_cols=24  Identities=21%  Similarity=0.311  Sum_probs=15.0

Q ss_pred             eeccccccccHHHHHHHhccCCCCccCCCccc
Q psy16189        219 VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF  250 (262)
Q Consensus       219 v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  250 (262)
                      +...|||++=.        .-+-.||+|+.+-
T Consensus         7 ~C~vCG~i~~g--------~~P~~CPvCg~~~   30 (37)
T d1nnqa2           7 ICPICGYTAVD--------EAPEYCPVCGAPK   30 (37)
T ss_dssp             ECTTTCCEEES--------CCCSBCTTTCCBG
T ss_pred             ECCCCCCEecC--------CCCCcCCCCCCcH
Confidence            34567776532        1245799998864

>d2fiya1 e.59.1.1 (A:19-308) FdhE homolog PA4809 {Pseudomonas aeruginosa [TaxId: 287]}

class: Multi-domain proteins (alpha and beta)
fold: FdhE-like
superfamily: FdhE-like
family: FdhE-like
domain: FdhE homolog PA4809
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=87.07  E-value=0.057  Score=44.03  Aligned_cols=44  Identities=18%  Similarity=0.402  Sum_probs=31.1

Q ss_pred             cCcccccccccccceecc----cc--ccccHHHHHHHhccCCCCccCCCcc
Q psy16189        205 TLTCPSCKVKRKDAVLTK----CF--HVFCWDCLRTRYETRQRKCPKCNAA  249 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~l~----Cg--H~fC~~Ci~~~~~~~~~~CP~Cr~~  249 (262)
                      .-.||||.....-.++..    =|  |.+|+-|-..|-- ...+||+|+..
T Consensus       164 ~~~CPvCGs~P~~s~l~~~~~~~G~R~l~C~~C~teW~~-~R~~C~~Cg~~  213 (290)
T d2fiya1         164 RTLCPACGSPPMAGMIRQGGKETGLRYLSCSLCACEWHY-VRIKCSHCEES  213 (290)
T ss_dssp             CSSCTTTCCCEEEEEEEC----CCEEEEEETTTCCEEEC-CTTSCSSSCCC
T ss_pred             CCcCCCCCCcchhheeeccCCCCCceEEECCCCCCcccc-ccccCCCCCCC
Confidence            356999999776555542    34  5569999888644 45679999764

>d1yuza2 g.41.5.1 (A:167-202) Nigerythrin, C-terminal domain {Desulfovibrio vulgaris [TaxId: 881]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Nigerythrin, C-terminal domain
species: Desulfovibrio vulgaris [TaxId: 881]

Probab=87.02  E-value=0.13  Score=27.89  Aligned_cols=24  Identities=21%  Similarity=0.293  Sum_probs=15.2

Q ss_pred             eeccccccccHHHHHHHhccCCCCccCCCccc
Q psy16189        219 VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF  250 (262)
Q Consensus       219 v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  250 (262)
                      +...|||++=.        .-+-+||+|+++-
T Consensus         7 vC~vCGyi~~g--------~~Pe~CPvCg~~~   30 (36)
T d1yuza2           7 LCPICGYIHKG--------EDFEKCPICFRPK   30 (36)
T ss_dssp             ECSSSCCEEES--------SCCSBCTTTCCBG
T ss_pred             ECCCCCCEeeC--------CCCCcCCCCCCcH
Confidence            44578886522        1245799998864

>d1wfpa_ g.80.1.1 (A:) Zinc finger A20 and AN1 domains containing protein At1g12440 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: Zinc finger A20 and AN1 domains containing protein At1g12440
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=85.80  E-value=0.11  Score=32.99  Aligned_cols=40  Identities=20%  Similarity=0.325  Sum_probs=27.2

Q ss_pred             cCccccccccccccee-ccccccccHHHHHHHhccCCCCccCCCc
Q psy16189        205 TLTCPSCKVKRKDAVL-TKCFHVFCWDCLRTRYETRQRKCPKCNA  248 (262)
Q Consensus       205 ~~~C~iC~~~~~~~v~-l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~  248 (262)
                      ..+|.+|...+.-+.+ =.||+.||...-.+    ....|++-=.
T Consensus        25 k~RC~~C~KKl~l~~~~CrCg~~FC~~HR~p----e~H~C~fDyK   65 (74)
T d1wfpa_          25 ATRCLSCNKKVGVTGFKCRCGSTFCGTHRYP----ESHECQFDFK   65 (74)
T ss_dssp             CCBCSSSCCBCTTTCEECTTSCEECTTTCST----TTSCCCSCTT
T ss_pred             CCcChhcCCccCCCceecCCCChhhhccCCc----cCcCCCCcch
Confidence            5789999987654433 39999999976332    3455776533

>d1joca1 g.50.1.1 (A:1348-1411) Eea1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Eea1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.67  E-value=0.17  Score=31.25  Aligned_cols=31  Identities=19%  Similarity=0.501  Sum_probs=23.4

Q ss_pred             cCcccccccccccc----eeccccccccHHHHHHH
Q psy16189        205 TLTCPSCKVKRKDA----VLTKCFHVFCWDCLRTR  235 (262)
Q Consensus       205 ~~~C~iC~~~~~~~----v~l~CgH~fC~~Ci~~~  235 (262)
                      ...|.+|...|.-.    ..-.||++||..|....
T Consensus         8 ~~~C~~C~~~F~~~~rrHHCR~CG~v~C~~Cs~~~   42 (64)
T d1joca1           8 VQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAKN   42 (64)
T ss_dssp             CCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCEE
T ss_pred             CCcCcCcCCcccCCccccchhhhCCeecccccCCc
Confidence            35799999988432    34589999999997653

>d2dmda2 g.37.1.1 (A:8-33) Zinc finger protein 64, ZFP68 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger protein 64, ZFP68
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.57  E-value=0.097  Score=25.30  Aligned_cols=15  Identities=33%  Similarity=0.784  Sum_probs=12.0

Q ss_pred             CCccCCCcccCCCCc
Q psy16189        241 RKCPKCNAAFGANDY  255 (262)
Q Consensus       241 ~~CP~Cr~~~~~~d~  255 (262)
                      .+||+|+.-|+..|-
T Consensus         2 hkc~~c~kcfsrkdk   16 (26)
T d2dmda2           2 HKCEVCGKCFSRKDK   16 (26)
T ss_dssp             CCBTTTTBCCCCHHH
T ss_pred             CccchhhhHhcchhH
Confidence            579999999987653

>d1dvpa2 g.50.1.1 (A:149-220) Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Hrs
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=85.12  E-value=0.13  Score=32.59  Aligned_cols=30  Identities=27%  Similarity=0.560  Sum_probs=23.2

Q ss_pred             cCccccccccccc----ceeccccccccHHHHHH
Q psy16189        205 TLTCPSCKVKRKD----AVLTKCFHVFCWDCLRT  234 (262)
Q Consensus       205 ~~~C~iC~~~~~~----~v~l~CgH~fC~~Ci~~  234 (262)
                      ...|.+|...|.-    ...-.||++||..|...
T Consensus        13 ~~~C~~C~~~F~~~~rrhhCr~CG~~~C~~C~~~   46 (72)
T d1dvpa2          13 GRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTAK   46 (72)
T ss_dssp             CSBCTTTCCBCCSSSCCEECTTTCCEECSTTSCE
T ss_pred             CCccccCCCcccCccccccccccCCeeChhhhCC
Confidence            3569999998843    24459999999999754

>d1vfya_ g.50.1.1 (A:) vps27p protein {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: vps27p protein
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.77  E-value=0.19  Score=31.24  Aligned_cols=30  Identities=23%  Similarity=0.319  Sum_probs=22.6

Q ss_pred             Ccccccccccccc----eeccccccccHHHHHHH
Q psy16189        206 LTCPSCKVKRKDA----VLTKCFHVFCWDCLRTR  235 (262)
Q Consensus       206 ~~C~iC~~~~~~~----v~l~CgH~fC~~Ci~~~  235 (262)
                      ..|.+|...|.-.    ..-.||.+||..|....
T Consensus         6 ~~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~   39 (67)
T d1vfya_           6 DACMICSKKFSLLNRKHHCRSCGGVFCQEHSSNS   39 (67)
T ss_dssp             SBCTTTCCBCBTTBCCEECTTTCCEECGGGSCEE
T ss_pred             cccccCCCcccCcccccccccCCCEecccccCCc
Confidence            4699999988432    33489999999997543

>d1lkoa2 g.41.5.1 (A:148-191) Rubrerythrin, C-terminal domain {Desulfovibrio vulgaris [TaxId: 881]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubrerythrin, C-terminal domain
species: Desulfovibrio vulgaris [TaxId: 881]

Probab=84.38  E-value=0.19  Score=28.43  Aligned_cols=26  Identities=19%  Similarity=0.264  Sum_probs=18.0

Q ss_pred             eeccccccccHHHHHHHhccCCCCccCCCcccC
Q psy16189        219 VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFG  251 (262)
Q Consensus       219 v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~  251 (262)
                      +.+.|||++-..       .-+..||+|+.+-+
T Consensus        10 ~C~~CGyi~~g~-------~aP~~CPvC~~p~~   35 (44)
T d1lkoa2          10 RCRNCGYVHEGT-------GAPELCPACAHPKA   35 (44)
T ss_dssp             EETTTCCEEEEE-------ECCSBCTTTCCBGG
T ss_pred             EcCCCCcEEECC-------CCCCcCCCCCCcHH
Confidence            567899987542       23557999988643

>d1ibia2 g.39.1.3 (A:145-175) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=84.00  E-value=0.16  Score=25.59  Aligned_cols=28  Identities=18%  Similarity=0.522  Sum_probs=21.8

Q ss_pred             Ccccccccccccce-eccccccccHHHHH
Q psy16189        206 LTCPSCKVKRKDAV-LTKCFHVFCWDCLR  233 (262)
Q Consensus       206 ~~C~iC~~~~~~~v-~l~CgH~fC~~Ci~  233 (262)
                      ++|..|.....+.. .-+=|.+||..|..
T Consensus         1 frca~cgk~lestt~adkdgeiyck~cya   29 (31)
T d1ibia2           1 FRCAKCGKSLESTTLTEKEGEIYCKGCYA   29 (31)
T ss_dssp             EECSSSCCEECSSCSEEETTEEECHHHHH
T ss_pred             CccccccCccccceeeccCCcEEEeeeee
Confidence            46999998876653 44889999999964

>d2adra1 g.37.1.1 (A:102-130) ADR1 {Synthetic, based on Saccharomyces cerevisiae sequence}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: ADR1
species: Synthetic, based on Saccharomyces cerevisiae sequence

Probab=82.80  E-value=0.27  Score=25.18  Aligned_cols=15  Identities=33%  Similarity=0.682  Sum_probs=11.7

Q ss_pred             CCCCccCCCcccCCC
Q psy16189        239 RQRKCPKCNAAFGAN  253 (262)
Q Consensus       239 ~~~~CP~Cr~~~~~~  253 (262)
                      ++..||.|+..|...
T Consensus         1 kp~~C~~C~k~F~~~   15 (29)
T d2adra1           1 RSFVCEVCTRAFARQ   15 (29)
T ss_dssp             CCBCCTTTCCCBSCH
T ss_pred             CcCCCCCCCCCCCCc
Confidence            356799999999754

>d2epqa1 g.37.1.1 (A:380-411) PATZ1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: PATZ1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.25  E-value=0.19  Score=25.48  Aligned_cols=11  Identities=36%  Similarity=1.044  Sum_probs=5.8

Q ss_pred             Ccccccccccc
Q psy16189        206 LTCPSCKVKRK  216 (262)
Q Consensus       206 ~~C~iC~~~~~  216 (262)
                      +.||||..+|+
T Consensus         4 ~~cpic~qrfk   14 (32)
T d2epqa1           4 YSCPVCGLRFK   14 (32)
T ss_dssp             SEETTTTEECS
T ss_pred             cccchHHHHhh
Confidence            45555555554

>d1wfla_ g.80.1.1 (A:) Zinc finger A20 domain containing protein 2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: Zinc finger A20 domain containing protein 2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.96  E-value=0.16  Score=32.17  Aligned_cols=38  Identities=21%  Similarity=0.378  Sum_probs=25.1

Q ss_pred             cCccccccccccc-ceeccccccccHHHHHHHhccCCCCccCC
Q psy16189        205 TLTCPSCKVKRKD-AVLTKCFHVFCWDCLRTRYETRQRKCPKC  246 (262)
Q Consensus       205 ~~~C~iC~~~~~~-~v~l~CgH~fC~~Ci~~~~~~~~~~CP~C  246 (262)
                      ..+|.+|...+.- ++.=.||++||.....+    ....|++-
T Consensus        25 ~~RC~~C~KKl~l~~~~CrCg~~FC~~HR~p----e~H~CtfD   63 (74)
T d1wfla_          25 KNRCFMCRKKVGLTGFDCRCGNLFCGLHRYS----DKHNCPYD   63 (74)
T ss_dssp             TTBCSSSCCBCGGGCEECTTSCEECSSSCST----TTTTCCCC
T ss_pred             CCcChhhCCcccceeeEccCCCEehhhcCCC----cCcCCCCc
Confidence            4689999987643 23348999999865322    33457654