Citrus Sinensis ID: 025813

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------
Protein Sequence
MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTEFSALGI
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHccccccccccccccccHHHHccc
Secondary Structure Prediction (SSPRO)
cccccHHHHHHHHHHHHHHHcccHcHccHHHHHHHHHHHcccccccccccccccEcHHHHHHHHHHHHHHccHHHccHHHHHHHHHHHEcccccEEccccccEEHHHHHHHHHHHHHHcHHHHccccccHccccccHHHHHHHHHccEcccccEEccccccEcccHHHHcccHHHHHccHHHccHHHHHHHHHccEcccccccccccccccHHHHHHHHHHHHHHcccccccccccccccHHHcccc
Coil and Loop (DISEMBL)
MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNlqqhdgsfmpihfgaekdLRFVYCAAAICFLLEDWSGMDRERAKAYILNCqsydggfgltpgseshgggtyCAVASLRLMGfiednvlskntsssiidlpLLLSWCLQRQaadggfqgrankpsdtcyAFWIGSVLRMLGGYNLIDKEALRGFLLTCQsqyggfgkcpgdlpdlyhsfygytafslleepglnplcaelgmtEFSALGI
Flexible Loop (DISEMBL)
MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGgfqgrankpSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTEFSALGI
Low Complexity Region (SEG)
MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTsssiidlplllsWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTEFSALGI
Disordered region (IsUnstruct)
*******ASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMT*******
Disordered Region (DISOPRED)
MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTEFS*L**
Disordered Region (DISEMBL)
********STYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTEFSALGI
Disordered Region (DISPRO)
MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTEFSALGI
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTEFSALGI
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	247	2.2.26 [Sep-21-2011]
P53610	377	Geranylgeranyl transferas	yes	no	0.890	0.583	0.404	5e-47
Q8BUY9	377	Geranylgeranyl transferas	yes	no	0.890	0.583	0.404	7e-47
P53609	377	Geranylgeranyl transferas	yes	no	0.890	0.583	0.4	1e-46
Q5EAD5	377	Geranylgeranyl transferas	yes	no	0.890	0.583	0.4	3e-46
Q55DA3	352	Geranylgeranyl transferas	yes	no	0.910	0.639	0.390	2e-40
B0G172	339	Probable geranylgeranyl t	no	no	0.923	0.672	0.352	5e-35
Q5E9B3	331	Geranylgeranyl transferas	no	no	0.898	0.670	0.365	1e-34
P53611	331	Geranylgeranyl transferas	no	no	0.898	0.670	0.365	1e-34
P53612	339	Geranylgeranyl transferas	no	no	0.821	0.598	0.365	5e-34
Q08603	331	Geranylgeranyl transferas	no	no	0.821	0.613	0.365	6e-34

>sp|P53610|PGTB1_RAT Geranylgeranyl transferase type-1 subunit beta OS=Rattus norvegicus GN=Pggt1b PE=1 SV=1

 Score =  187 bits (476), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 93/230 (40%), Positives = 139/230 (60%), Gaps = 10/230 (4%)

Query: 2   HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
           ++  ++A TY  L+ L  +G + + +D ++ L  +R LQ  DGSF  +  G+E D+RFVY
Sbjct: 117 YDSGHIAMTYTGLSCLIILGDDLSRVDKEACLAGLRALQLEDGSFCAVPEGSENDMRFVY 176

Query: 62  CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
           CA+ IC++L +WSGMD ++A +YI    SYD G     G ESHGG T+C +ASL LMG +
Sbjct: 177 CASCICYMLNNWSGMDMKKAISYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKL 236

Query: 122 EDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
           E+    K       +L  +  WC+ RQ    G+ GR NKP DTCY+FW+G+ L++L  + 
Sbjct: 237 EEVFSEK-------ELNRIKRWCIMRQQ--NGYHGRPNKPVDTCYSFWVGATLKLLKIFQ 287

Query: 182 LIDKEALRGFLLTCQSQ-YGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL 230
             + E  R ++L+ Q +  GGF K P   PD  H+++G    SL+EE G+
Sbjct: 288 YTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGI 337

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to a cysteine at the fourth position from the C-terminus of proteins having the C-terminal sequence Cys-aliphatic-aliphatic-X. Acts on the Rac1, Rac2, Rap1A and Rap1B proteins. The beta subunit is responsible for peptide-binding.
Rattus norvegicus (taxid: 10116)
EC: 2EC: .EC: 5EC: .EC: 1EC: .EC: 5EC: 9

>sp|Q8BUY9|PGTB1_MOUSE Geranylgeranyl transferase type-1 subunit beta OS=Mus musculus GN=Pggt1b PE=2 SV=1

 Score =  187 bits (475), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 93/230 (40%), Positives = 138/230 (60%), Gaps = 10/230 (4%)

Query: 2   HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
           ++  ++A TY  L+ L  +G +   +D ++ L  +R LQ  DGSF  +  G+E D+RFVY
Sbjct: 117 YDSGHIAMTYTGLSCLIILGDDLGRVDKEACLAGLRALQLEDGSFCAVPEGSENDMRFVY 176

Query: 62  CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
           CA+ IC++L +WSGMD ++A +YI    SYD G     G ESHGG T+C +ASL LMG +
Sbjct: 177 CASCICYMLNNWSGMDMKKAISYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKL 236

Query: 122 EDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
           E+    K       +L  +  WC+ RQ    G+ GR NKP DTCY+FW+G+ L++L  + 
Sbjct: 237 EEVFSEK-------ELNRIKRWCIMRQ--QNGYHGRPNKPVDTCYSFWVGATLKLLKIFQ 287

Query: 182 LIDKEALRGFLLTCQSQ-YGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL 230
             + E  R ++L+ Q +  GGF K P   PD  H+++G    SL+EE G+
Sbjct: 288 YTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGI 337

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to a cysteine at the fourth position from the C-terminus of proteins having the C-terminal sequence Cys-aliphatic-aliphatic-X. Acts on the Rac1, Rac2, Rap1A and Rap1B proteins. The beta subunit is responsible for peptide-binding.

Mus musculus (taxid: 10090)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 5

EC: 9

>sp|P53609|PGTB1_HUMAN Geranylgeranyl transferase type-1 subunit beta OS=Homo sapiens GN=PGGT1B PE=1 SV=2

 Score =  186 bits (472), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 92/230 (40%), Positives = 138/230 (60%), Gaps = 10/230 (4%)

Query: 2   HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
           ++  ++A TY  L+ L  +G + + ++ ++ L  +R LQ  DGSF  +  G+E D+RFVY
Sbjct: 117 YDSGHIAMTYTGLSCLVILGDDLSRVNKEACLAGLRALQLEDGSFCAVPEGSENDMRFVY 176

Query: 62  CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
           CA+ IC++L +WSGMD ++A  YI    SYD G     G ESHGG T+C +ASL LMG +
Sbjct: 177 CASCICYMLNNWSGMDMKKAITYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKL 236

Query: 122 EDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
           E+    K       +L  +  WC+ RQ    G+ GR NKP DTCY+FW+G+ L++L  + 
Sbjct: 237 EEVFSEK-------ELNRIKRWCIMRQ--QNGYHGRPNKPVDTCYSFWVGATLKLLKIFQ 287

Query: 182 LIDKEALRGFLLTCQSQ-YGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL 230
             + E  R ++L+ Q +  GGF K P   PD  H+++G    SL+EE G+
Sbjct: 288 YTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGI 337

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to a cysteine at the fourth position from the C-terminus of proteins having the C-terminal sequence Cys-aliphatic-aliphatic-X. Acts on the Rac1, Rac2, Rap1A and Rap1B proteins. The beta subunit is responsible for peptide-binding.

Homo sapiens (taxid: 9606)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 5

EC: 9

>sp|Q5EAD5|PGTB1_BOVIN Geranylgeranyl transferase type-1 subunit beta OS=Bos taurus GN=PGGT1B PE=2 SV=1

 Score =  185 bits (470), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 92/230 (40%), Positives = 138/230 (60%), Gaps = 10/230 (4%)

Query: 2   HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
           ++  ++A TY  L+ L  +G + + ++ ++ L  +R LQ  DGSF  +  G+E D+RFVY
Sbjct: 117 YDSGHIAMTYTGLSCLVILGDDLSRVNKEACLAGLRALQLEDGSFCAVPEGSENDMRFVY 176

Query: 62  CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
           CA+ IC++L +WSGMD ++A  YI    SYD G     G ESHGG T+C +ASL LMG +
Sbjct: 177 CASCICYMLNNWSGMDMKKAINYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKL 236

Query: 122 EDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
           E+    K       +L  +  WC+ RQ    G+ GR NKP DTCY+FW+G+ L++L  + 
Sbjct: 237 EEVFSEK-------ELNRIKRWCIMRQ--QNGYHGRPNKPVDTCYSFWVGATLKLLKIFQ 287

Query: 182 LIDKEALRGFLLTCQSQ-YGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL 230
             + E  R ++L+ Q +  GGF K P   PD  H+++G    SL+EE G+
Sbjct: 288 YTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGI 337

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to a cysteine at the fourth position from the C-terminus of proteins having the C-terminal sequence Cys-aliphatic-aliphatic-X. Acts on the Rac1, Rac2, Rap1A and Rap1B proteins. The beta subunit is responsible for peptide-binding.

Bos taurus (taxid: 9913)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 5

EC: 9

>sp|Q55DA3|PGTB1_DICDI Geranylgeranyl transferase type-1 subunit beta OS=Dictyostelium discoideum GN=pggt1b PE=2 SV=1

 Score =  166 bits (419), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 93/238 (39%), Positives = 139/238 (58%), Gaps = 13/238 (5%)

Query: 9   STYCALAILKAVGYNFANIDSKSILTSMRNLQQH-DGSFMPIHFGAEKDLRFVYCAAAIC 67
           +TYCAL IL+ +G +F+ ++ K+I+ S+R  Q+  DG+        + DLR ++ A AI 
Sbjct: 117 NTYCALLILRILGDDFSGVNKKAIIDSLRKRQRESDGAISGSPNVGDYDLRHLFSACAIS 176

Query: 68  FLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLS 127
           F+L+DWS +++E A  YI +C SY+  FG TP  E+HGG TYCA+ASL L+G ++  VL 
Sbjct: 177 FILDDWSAINKESAIDYIKSCLSYEFAFGQTPQQEAHGGPTYCAIASLSLLGRLD--VLE 234

Query: 128 KNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEA 187
                       L  W +++Q    GF GR NK  DTCYAFWIG+ L M+  Y+LID  +
Sbjct: 235 PFKEQ-------LTFWLVKKQIT--GFCGRTNKDPDTCYAFWIGASLMMIDRYDLIDFAS 285

Query: 188 LRGFLLTCQSQ-YGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTEFSA 244
           +  F+ + Q +  GG  K PG LPD+ HS+      S    P +  +   L +++ +A
Sbjct: 286 INAFIGSAQHEAIGGVAKEPGQLPDVMHSYLSLVGLSFGNIPSIQQVIPCLNLSKRAA 343

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to a cysteine at the fourth position from the C-terminus of proteins having the C-terminal sequence Cys-aliphatic-aliphatic-X.

Dictyostelium discoideum (taxid: 44689)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 5

EC: 9

>sp|B0G172|PGTB2_DICDI Probable geranylgeranyl transferase type-2 subunit beta OS=Dictyostelium discoideum GN=rabggtb PE=3 SV=1

 Score =  147 bits (372), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 88/250 (35%), Positives = 135/250 (54%), Gaps = 22/250 (8%)

Query: 5   SNLASTYCALAILKAVGYN-FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
            +L ST  A+ IL  + Y+    ID  S++  +  LQ+ DGSF+   +G E D RF Y A
Sbjct: 97  DHLLSTLSAVQIL--IQYDALDKIDINSVVDYVVKLQREDGSFVGDQWG-EVDTRFSYAA 153

Query: 64  AAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED 123
                LL+    ++ E+A  YIL+CQ++DGGFG  PG+ESH G  +  V +L ++  I  
Sbjct: 154 IMCLSLLKSLDKINCEKAVEYILSCQNFDGGFGSIPGAESHAGQIFTCVGALSILNEINK 213

Query: 124 NVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLI 183
                      ID+  L  W  +RQ  +GG  GR  K SD CY++W+ S L  +   + I
Sbjct: 214 -----------IDIDKLGWWLSERQLPNGGLNGRPEKSSDVCYSWWVLSALSAIDRLHWI 262

Query: 184 DKEALRGFLLTCQ-SQYGGFGKCPGDLPDLYHSFYGYTAFSLL-----EEPGLNPLCAEL 237
           D + L+ ++L CQ ++ GG    PGD+PD++H+F+G    SL+     +   ++P+ A L
Sbjct: 263 DNDKLKSYILKCQDNETGGIADKPGDIPDVFHTFFGICGLSLMGYFKDQIESIDPVYA-L 321

Query: 238 GMTEFSALGI 247
           G      LG+
Sbjct: 322 GTKTLQKLGL 331

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to both cysteines in Rab proteins with an -XXCC, -XCXC and -CCXX C-terminal.

Dictyostelium discoideum (taxid: 44689)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 6

EC: 0

>sp|Q5E9B3|PGTB2_BOVIN Geranylgeranyl transferase type-2 subunit beta OS=Bos taurus GN=RABGGTB PE=2 SV=1

 Score =  146 bits (369), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 87/238 (36%), Positives = 128/238 (53%), Gaps = 16/238 (6%)

Query: 6   NLASTYCALAILKAVGYNFAN-IDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAA 64
           +L  T  A+ IL    Y+  N ID   ++  +++LQ+ DGSF    +G E D RF +CA 
Sbjct: 94  HLLYTLSAVQILTL--YDSINVIDINKVVEYVQSLQKEDGSFAGDIWG-EIDTRFSFCAV 150

Query: 65  AICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDN 124
           A   LL     ++ E+A  ++L+C ++DGGFG  PGSESH G  YC        GF    
Sbjct: 151 ATLALLGKLDAINVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCT------GF---- 200

Query: 125 VLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLID 184
            L+  +    ++  LL  W  +RQ   GG  GR  K  D CY++W+ + L+++G  + ID
Sbjct: 201 -LAITSQLHQVNSDLLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVLASLKIIGRLHWID 259

Query: 185 KEALRGFLLTCQ-SQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTE 241
           +E LR F+L CQ  + GGF   PGD+ D +H+ +G    SLL E  + P+     M E
Sbjct: 260 REKLRSFILACQDEETGGFADRPGDMVDPFHTLFGIAGLSLLGEEQIKPVSPVFCMPE 317

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to both cysteines in Rab proteins with an -XXCC, -XCXC and -CCXX C-terminal, such as RAB1A, RAB3A and RAB5A respectively.

Bos taurus (taxid: 9913)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 6

EC: 0

>sp|P53611|PGTB2_HUMAN Geranylgeranyl transferase type-2 subunit beta OS=Homo sapiens GN=RABGGTB PE=1 SV=2

 Score =  146 bits (368), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 87/238 (36%), Positives = 127/238 (53%), Gaps = 16/238 (6%)

Query: 6   NLASTYCALAILKAVGYNFAN-IDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAA 64
           +L  T  A+ IL    Y+  N ID   ++  ++ LQ+ DGSF    +G E D RF +CA 
Sbjct: 94  HLLYTLSAVQILTL--YDSINVIDVNKVVEYVKGLQKEDGSFAGDIWG-EIDTRFSFCAV 150

Query: 65  AICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDN 124
           A   LL     ++ E+A  ++L+C ++DGGFG  PGSESH G  YC        GF    
Sbjct: 151 ATLALLGKLDAINVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCT------GF---- 200

Query: 125 VLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLID 184
            L+  +    ++  LL  W  +RQ   GG  GR  K  D CY++W+ + L+++G  + ID
Sbjct: 201 -LAITSQLHQVNSDLLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVLASLKIIGRLHWID 259

Query: 185 KEALRGFLLTCQ-SQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTE 241
           +E LR F+L CQ  + GGF   PGD+ D +H+ +G    SLL E  + P+     M E
Sbjct: 260 REKLRNFILACQDEETGGFADRPGDMVDPFHTLFGIAGLSLLGEEQIKPVNPVFCMPE 317

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to both cysteines in Rab proteins with an -XXCC, -XCXC and -CCXX C-terminal, such as RAB1A, RAB3A and RAB5A respectively.

Homo sapiens (taxid: 9606)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 6

EC: 0

>sp|P53612|PGTB2_MOUSE Geranylgeranyl transferase type-2 subunit beta OS=Mus musculus GN=Rabggtb PE=1 SV=2

 Score =  144 bits (363), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 79/216 (36%), Positives = 118/216 (54%), Gaps = 13/216 (6%)

Query: 27  IDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYIL 86
           I+   ++  +++LQ+ DGSF    +G E D RF +CA A   LL     ++ E+A  ++L
Sbjct: 122 INVDKVVAYVQSLQKEDGSFAGDIWG-EIDTRFSFCAVATLALLGKLDAINVEKAIEFVL 180

Query: 87  NCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQ 146
           +C ++DGGFG  PGSESH G  YC        GF     L+  +    ++  LL  W  +
Sbjct: 181 SCMNFDGGFGCRPGSESHAGQIYCCT------GF-----LAITSQLHQVNSDLLGWWLCE 229

Query: 147 RQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQ-SQYGGFGKC 205
           RQ   GG  GR  K  D CY++W+ + L+++G  + ID+E LR F+L CQ  + GGF   
Sbjct: 230 RQLPSGGLNGRPEKLPDVCYSWWVLASLKIIGRLHWIDREKLRSFILACQDEETGGFADR 289

Query: 206 PGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTE 241
           PGD+ D +H+ +G    SLL E  + P+     M E
Sbjct: 290 PGDMVDPFHTLFGIAGLSLLGEEQIKPVSPVFCMPE 325

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to both cysteines in Rab proteins with an -XXCC, -XCXC and -CCXX C-terminal, such as RAB1A, RAB3A and RAB5A respectively.

Mus musculus (taxid: 10090)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 6

EC: 0

>sp|Q08603|PGTB2_RAT Geranylgeranyl transferase type-2 subunit beta OS=Rattus norvegicus GN=Rabggtb PE=1 SV=1

 Score =  144 bits (363), Expect = 6e-34,   Method: Compositional matrix adjust.
 Identities = 79/216 (36%), Positives = 118/216 (54%), Gaps = 13/216 (6%)

Query: 27  IDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYIL 86
           I+   ++  +++LQ+ DGSF    +G E D RF +CA A   LL     ++ E+A  ++L
Sbjct: 114 INVDKVVAYVQSLQKEDGSFAGDIWG-EIDTRFSFCAVATLALLGKLDAINVEKAIEFVL 172

Query: 87  NCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQ 146
           +C ++DGGFG  PGSESH G  YC        GF     L+  +    ++  LL  W  +
Sbjct: 173 SCMNFDGGFGCRPGSESHAGQIYCCT------GF-----LAITSQLHQVNSDLLGWWLCE 221

Query: 147 RQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQ-SQYGGFGKC 205
           RQ   GG  GR  K  D CY++W+ + L+++G  + ID+E LR F+L CQ  + GGF   
Sbjct: 222 RQLPSGGLNGRPEKLPDVCYSWWVLASLKIIGRLHWIDREKLRSFILACQDEETGGFADR 281

Query: 206 PGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTE 241
           PGD+ D +H+ +G    SLL E  + P+     M E
Sbjct: 282 PGDMVDPFHTLFGIAGLSLLGEEQIKPVSPVFCMPE 317

Catalyzes the transfer of a geranyl-geranyl moiety from geranyl-geranyl pyrophosphate to both cysteines in Rab proteins with an -XXCC, -XCXC and -CCXX C-terminal, such as RAB1A, RAB3A and RAB5A respectively.

Rattus norvegicus (taxid: 10116)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 6

EC: 0

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	247
255583055	370	geranylgeranyl transferase type I beta s	1.0	0.667	0.769	1e-113
224100967	372	predicted protein [Populus trichocarpa]	0.850	0.564	0.789	1e-112
449449990	363	PREDICTED: geranylgeranyl transferase ty	1.0	0.680	0.761	1e-111
225449493	351	PREDICTED: geranylgeranyl transferase ty	0.995	0.700	0.792	1e-111
356499650	355	PREDICTED: geranylgeranyl transferase ty	0.955	0.664	0.720	1e-105
357503187	520	Geranylgeranyl transferase type-1 subuni	0.951	0.451	0.723	1e-101
356568996	347	PREDICTED: geranylgeranyl transferase ty	0.923	0.657	0.719	1e-100
37787343	359	geranylgeranyltransferase type I beta su	0.991	0.682	0.702	1e-100
388517199	341	unknown [Lotus japonicus]	0.955	0.692	0.712	1e-100
15225494	375	geranylgeranyl transferase type-1 subuni	0.995	0.656	0.747	1e-100

>gi|255583055|ref|XP_002532295.1| geranylgeranyl transferase type I beta subunit, putative [Ricinus communis] gi|223527997|gb|EEF30079.1| geranylgeranyl transferase type I beta subunit, putative [Ricinus communis]

 Score =  413 bits (1061), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 190/247 (76%), Positives = 222/247 (89%)

Query: 1   MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFV 60
           +H  S+LAS+Y ALAILK VGYN +N+DSKSILTSMRNLQQ DGSF+PIH GAE DLRF+
Sbjct: 124 VHTLSHLASSYSALAILKIVGYNLSNLDSKSILTSMRNLQQPDGSFLPIHIGAETDLRFI 183

Query: 61  YCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGF 120
           YCAAAICF+LEDWSGMD+E+AK YI+ CQSYDGGFG+  GSESHGGGT+CAVASLRLMGF
Sbjct: 184 YCAAAICFMLEDWSGMDKEQAKEYIVRCQSYDGGFGMVSGSESHGGGTFCAVASLRLMGF 243

Query: 121 IEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGY 180
           I+D++LSK+   SIID+PLLL WCL+RQAADGGFQGR NKP+DTCYAFW+G+VLR+LGGY
Sbjct: 244 IDDDLLSKDEPPSIIDVPLLLEWCLKRQAADGGFQGRLNKPTDTCYAFWVGAVLRILGGY 303

Query: 181 NLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMT 240
             ID +ALRGFL+TCQS+YGGF K PG+LPD+YHS+YGYTAFSLLEEPGLN LC ELG+T
Sbjct: 304 KFIDGKALRGFLITCQSKYGGFSKFPGELPDIYHSYYGYTAFSLLEEPGLNSLCVELGIT 363

Query: 241 EFSALGI 247
           + +ALGI
Sbjct: 364 DVAALGI 370

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224100967|ref|XP_002312088.1| predicted protein [Populus trichocarpa] gi|222851908|gb|EEE89455.1| predicted protein [Populus trichocarpa]

 Score =  411 bits (1057), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 195/247 (78%), Positives = 217/247 (87%)

Query: 1   MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFV 60
           + N S+LASTYCAL+ILK VGYN +NIDSK I  S+RNLQQ DGSF+PIH GAE DLRF+
Sbjct: 126 IQNHSHLASTYCALSILKTVGYNLSNIDSKLISMSIRNLQQPDGSFLPIHIGAETDLRFI 185

Query: 61  YCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGF 120
           YCAAAICF+LEDWSGMDRE+ K YI  CQSYDGGFG+ PGSESHGGGTYCAVASL LMGF
Sbjct: 186 YCAAAICFMLEDWSGMDREKTKEYIFKCQSYDGGFGMIPGSESHGGGTYCAVASLCLMGF 245

Query: 121 IEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGY 180
           IED+VLSK+ +SSIID+PLLL WCLQRQAADGGFQGRANKPSDTCYAFW+G+VLR+LGG 
Sbjct: 246 IEDDVLSKSAASSIIDIPLLLEWCLQRQAADGGFQGRANKPSDTCYAFWVGAVLRILGGS 305

Query: 181 NLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMT 240
            LID  ALRGFLLTCQS+YGGF K P +LPDLYHS+YGYTA SLLEEPGLN L  ELG+T
Sbjct: 306 KLIDGTALRGFLLTCQSEYGGFSKFPNELPDLYHSYYGYTALSLLEEPGLNALSVELGIT 365

Query: 241 EFSALGI 247
            F+ALGI
Sbjct: 366 GFAALGI 372

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449449990|ref|XP_004142747.1| PREDICTED: geranylgeranyl transferase type-1 subunit beta-like [Cucumis sativus] gi|449483868|ref|XP_004156717.1| PREDICTED: geranylgeranyl transferase type-1 subunit beta-like [Cucumis sativus]

 Score =  408 bits (1048), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 188/247 (76%), Positives = 219/247 (88%)

Query: 1   MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFV 60
           +HNGS+LASTYCAL ILK +GY+F+NI+S+SI  SMRNLQQ DGSF+PIH GAE DLRFV
Sbjct: 117 IHNGSHLASTYCALVILKVIGYDFSNINSESIAISMRNLQQSDGSFVPIHIGAEADLRFV 176

Query: 61  YCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGF 120
           YCAAAIC++LE+WSGMDR++ K YILNCQSYDGGFGLTPGSESHGGGTYCA+ASLRLMGF
Sbjct: 177 YCAAAICYMLENWSGMDRQKTKTYILNCQSYDGGFGLTPGSESHGGGTYCAIASLRLMGF 236

Query: 121 IEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGY 180
           IED+ LS++  SSII++PLLL WCLQ+QAADGGFQGR NKP+DTCYAFWIGS LR+LGG 
Sbjct: 237 IEDDPLSRDNPSSIINVPLLLEWCLQKQAADGGFQGRPNKPADTCYAFWIGSTLRILGGL 296

Query: 181 NLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMT 240
           +LIDK+AL+ FLLTCQS+YGGF K P D PDLYHS+YG+TAFSLLEEP +N L  ELG+T
Sbjct: 297 DLIDKKALKAFLLTCQSKYGGFSKFPMDFPDLYHSYYGFTAFSLLEEPDINSLFVELGIT 356

Query: 241 EFSALGI 247
           + SA  I
Sbjct: 357 DVSAWRI 363

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225449493|ref|XP_002278609.1| PREDICTED: geranylgeranyl transferase type-1 subunit beta [Vitis vinifera] gi|296086228|emb|CBI31669.3| unnamed protein product [Vitis vinifera]

 Score =  406 bits (1044), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 195/246 (79%), Positives = 223/246 (90%)

Query: 1   MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFV 60
           +HNGS+LASTYCALAILK VGYNF+ I+SKSILTSMRNLQQ DGSFMP H GAE DLRFV
Sbjct: 105 IHNGSHLASTYCALAILKIVGYNFSCINSKSILTSMRNLQQPDGSFMPTHVGAETDLRFV 164

Query: 61  YCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGF 120
           +CAAAIC +LE+WSGMD+E+AK YILNCQSYDGGFGL PGSESHGGGTYCAVASL+LMGF
Sbjct: 165 FCAAAICSMLENWSGMDKEKAKEYILNCQSYDGGFGLIPGSESHGGGTYCAVASLQLMGF 224

Query: 121 IEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGY 180
           IE ++LSK++SSSII++PLLL W LQRQAADGGFQGRANK SDTCYAFW+G VLR+LGGY
Sbjct: 225 IEHDILSKSSSSSIINVPLLLDWSLQRQAADGGFQGRANKASDTCYAFWVGGVLRILGGY 284

Query: 181 NLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMT 240
            LIDK+AL GFLLTCQSQYGGF K PG LPDLYHS+YG++AFS+LEEPGL P+C ELG+ 
Sbjct: 285 KLIDKKALHGFLLTCQSQYGGFSKFPGQLPDLYHSYYGFSAFSMLEEPGLIPICVELGIA 344

Query: 241 EFSALG 246
           + +A+G
Sbjct: 345 DIAAIG 350

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356499650|ref|XP_003518650.1| PREDICTED: geranylgeranyl transferase type-1 subunit beta-like [Glycine max]

 Score =  385 bits (989), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 178/247 (72%), Positives = 211/247 (85%)

Query: 1   MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFV 60
           +HN S+LASTYCA++ILK VGY  +N+DS++I+TSMRNLQQ DGSF+PIH G E DLRFV
Sbjct: 109 IHNNSHLASTYCAISILKIVGYELSNLDSETIVTSMRNLQQPDGSFIPIHTGGETDLRFV 168

Query: 61  YCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGF 120
           YCAAAICF+L++WSGMD+E+ K YIL CQSYDGGFGL PG+ESHGG TYCA+ASLRLMGF
Sbjct: 169 YCAAAICFMLDNWSGMDKEKTKDYILRCQSYDGGFGLVPGAESHGGATYCAMASLRLMGF 228

Query: 121 IEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGY 180
           IEDN+LS   SSS+ID PLLL W LQRQ  DGGFQGR NK SDTCYAFWIG+VLR+LGG+
Sbjct: 229 IEDNILSSCASSSLIDAPLLLDWILQRQGTDGGFQGRPNKSSDTCYAFWIGAVLRILGGF 288

Query: 181 NLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMT 240
             +D +ALRGFLL+CQ +YGGF K PG+ PDLYHS+YG+TAFSLLEE GL  L +ELG+T
Sbjct: 289 KFVDNKALRGFLLSCQYKYGGFSKFPGEYPDLYHSYYGFTAFSLLEESGLKSLFSELGIT 348

Query: 241 EFSALGI 247
           E +AL +
Sbjct: 349 ENAALAL 355

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357503187|ref|XP_003621882.1| Geranylgeranyl transferase type-1 subunit beta [Medicago truncatula] gi|355496897|gb|AES78100.1| Geranylgeranyl transferase type-1 subunit beta [Medicago truncatula]

 Score =  372 bits (954), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 178/246 (72%), Positives = 209/246 (84%)

Query: 2   HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
           HN S+LASTYCALAILK VGY+ +++DS+S+ +SM+NLQQ DGSFMPIH G E DLRFVY
Sbjct: 110 HNNSHLASTYCALAILKIVGYDLSSLDSESMSSSMKNLQQPDGSFMPIHIGGETDLRFVY 169

Query: 62  CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
           CAAAICF+L++W+GMD+E+ K YILNCQSYDGGFGL PG+ESHGG TYCA+ASLRLMG++
Sbjct: 170 CAAAICFMLDNWNGMDKEKVKDYILNCQSYDGGFGLVPGAESHGGATYCAIASLRLMGYV 229

Query: 122 EDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
           EDNVLS    SS+IDLPLLL W LQRQ  DGGFQGR NK +DTCYAFWIG VLR+LGG N
Sbjct: 230 EDNVLSSCNLSSLIDLPLLLDWILQRQGTDGGFQGRPNKSTDTCYAFWIGGVLRILGGCN 289

Query: 182 LIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTE 241
            +D +ALRGFLL+CQ +YGGF K PGD PDLYHS+YG+ AFSLLEE GL  LC+ELG+T 
Sbjct: 290 FVDNKALRGFLLSCQYKYGGFSKFPGDFPDLYHSYYGFAAFSLLEESGLKSLCSELGITN 349

Query: 242 FSALGI 247
            +A GI
Sbjct: 350 MAANGI 355

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356568996|ref|XP_003552693.1| PREDICTED: geranylgeranyl transferase type-1 subunit beta-like [Glycine max]

 Score =  370 bits (951), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 172/239 (71%), Positives = 201/239 (84%)

Query: 1   MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFV 60
           +HN S+LASTYCA++ILK VGY  +N+DS++I+TSMRNLQQ DGSF+ IH G E DLRFV
Sbjct: 108 IHNNSHLASTYCAISILKIVGYELSNLDSETIVTSMRNLQQPDGSFISIHTGGETDLRFV 167

Query: 61  YCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGF 120
           YCAA ICF+L++WSGMD+E+ K YIL CQSYDGGFGL PG+ESHGG TYCA+ASLRLMGF
Sbjct: 168 YCAATICFMLDNWSGMDKEKTKDYILRCQSYDGGFGLVPGAESHGGATYCAIASLRLMGF 227

Query: 121 IEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGY 180
           I DN+LS   SSS+ID PLLL W LQRQ  DGGFQGR NK SDTCYAFWIG+VLR+LGG 
Sbjct: 228 IGDNILSSCASSSLIDAPLLLDWILQRQGTDGGFQGRPNKSSDTCYAFWIGAVLRILGGC 287

Query: 181 NLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGM 239
             +D +ALRGFLL+CQ +YGGFGK PG+ PDLYHS+YG TAFSLLEE  L  LC+ELG+
Sbjct: 288 KFVDSKALRGFLLSCQYKYGGFGKFPGEYPDLYHSYYGVTAFSLLEESALKSLCSELGI 346

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|37787343|gb|AAP50511.1| geranylgeranyltransferase type I beta subunit [Catharanthus roseus]

 Score =  370 bits (950), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 172/245 (70%), Positives = 202/245 (82%)

Query: 3   NGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYC 62
           N S+LAS+YCAL IL+ VGY+F+ ++SK IL SM+NLQQ DGSFMPIH GAE DLRFVYC
Sbjct: 113 NVSHLASSYCALTILRTVGYDFSLLNSKLILESMKNLQQQDGSFMPIHSGAETDLRFVYC 172

Query: 63  AAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIE 122
           AAAICF+  +W GMDR +AK YIL+CQSYDGGFGL PGSESHGG TYCAVASLRLMGFIE
Sbjct: 173 AAAICFMFGNWGGMDRAKAKEYILSCQSYDGGFGLIPGSESHGGATYCAVASLRLMGFIE 232

Query: 123 DNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNL 182
           +++LSK  S  IID+P+LL W LQRQ  DGGFQGR NKP+DTCYAFW+G VL++LG +  
Sbjct: 233 EDLLSKTMSPCIIDVPMLLEWSLQRQGDDGGFQGRRNKPTDTCYAFWVGGVLKILGAHKY 292

Query: 183 IDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTEF 242
           I+   LRGFLL+CQSQYGGF K PG LPDLYH++YG+ AFSLLEEP L P+  ELGMT+ 
Sbjct: 293 INDSGLRGFLLSCQSQYGGFSKFPGQLPDLYHTYYGFCAFSLLEEPDLKPIHVELGMTDI 352

Query: 243 SALGI 247
           +A G 
Sbjct: 353 AATGF 357

Source: Catharanthus roseus

Species: Catharanthus roseus

Genus: Catharanthus

Family: Apocynaceae

Order: Gentianales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388517199|gb|AFK46661.1| unknown [Lotus japonicus]

 Score =  370 bits (949), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 176/247 (71%), Positives = 214/247 (86%)

Query: 1   MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFV 60
           +HN S+LAS+YCALAILK VGY+ +++DS+ +L+SMRNLQQ DGSFMPIH G E DLRFV
Sbjct: 95  LHNNSHLASSYCALAILKIVGYDLSSLDSELMLSSMRNLQQSDGSFMPIHTGGETDLRFV 154

Query: 61  YCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGF 120
           YCAA+ICF+L++WSGMD+E+AK YIL CQSYDGGFGL PG+ESHGG TYCAVASLRLMGF
Sbjct: 155 YCAASICFMLDNWSGMDKEKAKDYILLCQSYDGGFGLVPGAESHGGATYCAVASLRLMGF 214

Query: 121 IEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGY 180
           IED++LS  +SSS+ID+PLLL W LQRQ  DGGFQGR NKPSDTCYAFWIG+VLR+LGG 
Sbjct: 215 IEDSILSSCSSSSLIDVPLLLDWTLQRQGTDGGFQGRPNKPSDTCYAFWIGAVLRILGGC 274

Query: 181 NLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMT 240
           N +DK A+R FLL CQ +YGGF K P + PDLYH++YG++AFSLLEE GL  LC+ELG+T
Sbjct: 275 NFVDKNAVREFLLACQYKYGGFSKFPEEFPDLYHTYYGFSAFSLLEESGLKSLCSELGIT 334

Query: 241 EFSALGI 247
           + +A+G+
Sbjct: 335 DLAAIGV 341

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15225494|ref|NP_181487.1| geranylgeranyl transferase type-1 subunit beta [Arabidopsis thaliana] gi|3355484|gb|AAC27846.1| putative geranylgeranyl transferase type I beta subunit [Arabidopsis thaliana] gi|27311719|gb|AAO00825.1| putative geranylgeranyl transferase type I beta subunit [Arabidopsis thaliana] gi|30725602|gb|AAP37823.1| At2g39550 [Arabidopsis thaliana] gi|330254599|gb|AEC09693.1| geranylgeranyl transferase type-1 subunit beta [Arabidopsis thaliana]

 Score =  370 bits (949), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 184/246 (74%), Positives = 212/246 (86%)

Query: 2   HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
           HNGS+LASTYCALAILK +G++ + IDSKS+L SM NLQQ DGSFMPIH G E DLRFVY
Sbjct: 130 HNGSHLASTYCALAILKVIGHDLSTIDSKSLLISMINLQQDDGSFMPIHIGGETDLRFVY 189

Query: 62  CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
           CAAAIC++L+ WSGMD+E AK YILNCQSYDGGFGL PGSESHGG TYCA+ASLRLMG+I
Sbjct: 190 CAAAICYMLDSWSGMDKESAKNYILNCQSYDGGFGLIPGSESHGGATYCAIASLRLMGYI 249

Query: 122 EDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
             ++LS ++SSSIID  LLL+WCLQRQA DGGFQGR NKPSDTCYAFWIG+VL+++GG  
Sbjct: 250 GVDLLSNDSSSSIIDPSLLLNWCLQRQANDGGFQGRTNKPSDTCYAFWIGAVLKLIGGDA 309

Query: 182 LIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTE 241
           LIDK ALR FL++CQS+YGGF K PG LPDLYHS+YGYTAFSLLEE GL+PLC ELG+  
Sbjct: 310 LIDKMALRKFLMSCQSKYGGFSKFPGQLPDLYHSYYGYTAFSLLEEQGLSPLCPELGLPL 369

Query: 242 FSALGI 247
            +A GI
Sbjct: 370 LAAPGI 375

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	247
TAIR|locus:2039752	375	PGGT-I [Arabidopsis thaliana (	0.995	0.656	0.711	4.7e-96
ZFIN|ZDB-GENE-050913-85	355	pggt1b "protein geranylgeranyl	0.931	0.647	0.416	2.6e-47
RGD|621754	377	Pggt1b "protein geranylgeranyl	0.890	0.583	0.404	1e-45
UNIPROTKB|P53610	377	Pggt1b "Geranylgeranyl transfe	0.890	0.583	0.404	1e-45
MGI|MGI:1917514	377	Pggt1b "protein geranylgeranyl	0.890	0.583	0.404	1.3e-45
UNIPROTKB|F1RLE8	318	PGGT1B "Uncharacterized protei	0.890	0.691	0.4	2.7e-45
UNIPROTKB|P53609	377	PGGT1B "Geranylgeranyl transfe	0.890	0.583	0.4	3.4e-45
UNIPROTKB|Q5EAD5	377	PGGT1B "Geranylgeranyl transfe	0.890	0.583	0.4	5.6e-45
UNIPROTKB|F1NE58	332	PGGT1B "Uncharacterized protei	0.890	0.662	0.395	1.2e-44
UNIPROTKB|E2QZU5	377	PGGT1B "Uncharacterized protei	0.890	0.583	0.395	3.1e-44

TAIR|locus:2039752 PGGT-I [Arabidopsis thaliana (taxid:3702)]

 Score = 955 (341.2 bits), Expect = 4.7e-96, P = 4.7e-96
 Identities = 175/246 (71%), Positives = 202/246 (82%)

Query:     2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
             HNGS+LASTYCALAILK +G++ + IDSKS+L SM NLQQ DGSFMPIH G E DLRFVY
Sbjct:   130 HNGSHLASTYCALAILKVIGHDLSTIDSKSLLISMINLQQDDGSFMPIHIGGETDLRFVY 189

Query:    62 CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
             CAAAIC++L+ WSGMD+E AK YILNCQSYDGGFGL PGSESHGG TYCA+ASLRLMG+I
Sbjct:   190 CAAAICYMLDSWSGMDKESAKNYILNCQSYDGGFGLIPGSESHGGATYCAIASLRLMGYI 249

Query:   122 EDNVLSKNTXXXXXXXXXXXXWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
               ++LS ++            WCLQRQA DGGFQGR NKPSDTCYAFWIG+VL+++GG  
Sbjct:   250 GVDLLSNDSSSSIIDPSLLLNWCLQRQANDGGFQGRTNKPSDTCYAFWIGAVLKLIGGDA 309

Query:   182 LIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTE 241
             LIDK ALR FL++CQS+YGGF K PG LPDLYHS+YGYTAFSLLEE GL+PLC ELG+  
Sbjct:   310 LIDKMALRKFLMSCQSKYGGFSKFPGQLPDLYHSYYGYTAFSLLEEQGLSPLCPELGLPL 369

Query:   242 FSALGI 247
              +A GI
Sbjct:   370 LAAPGI 375

GO:0003824 "catalytic activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0004662 "CAAX-protein geranylgeranyltransferase activity" evidence=IMP;IDA

GO:0005953 "CAAX-protein geranylgeranyltransferase complex" evidence=IPI

GO:0018344 "protein geranylgeranylation" evidence=IMP;IDA

GO:0046982 "protein heterodimerization activity" evidence=IPI

GO:0009414 "response to water deprivation" evidence=IMP

GO:0009733 "response to auxin stimulus" evidence=IMP

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

GO:0009788 "negative regulation of abscisic acid mediated signaling pathway" evidence=TAS

ZFIN|ZDB-GENE-050913-85 pggt1b "protein geranylgeranyltransferase type I, beta subunit" [Danio rerio (taxid:7955)]

 Score = 495 (179.3 bits), Expect = 2.6e-47, P = 2.6e-47
 Identities = 100/240 (41%), Positives = 143/240 (59%)

Query:     2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
             ++  ++  TY  LA L  +G +   +D  + ++ +R LQ  DGSF  +  G+E D+RFVY
Sbjct:   106 YDSGHVTMTYTGLACLLILGDDLGRVDRAACVSGLRALQLEDGSFYAVPEGSENDMRFVY 165

Query:    62 CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
             CAA ICF+L+DWSGMDR++   YI    S+D G G   G ESHGG T+CAVASL +MG +
Sbjct:   166 CAACICFMLDDWSGMDRQKTIDYIRRSTSFDFGIGQGAGLESHGGSTFCAVASLCMMGKL 225

Query:   122 EDNVLSKNTXXXXXXXXXXXXWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
              + V S+              WC+ RQ    GFQGR NKP DTCY+FW+G+ L++L  + 
Sbjct:   226 RE-VFSERELGRLRR------WCVLRQ--QNGFQGRPNKPVDTCYSFWVGATLQLLDVFQ 276

Query:   182 LIDKEALRGFLLTCQSQY-GGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMT 240
               + E  R ++L+ Q +  GGF K P   PD  H+++G    SL+ E GL P+ A L ++
Sbjct:   277 YTNFEKNRNYILSTQDRLVGGFAKWPDSHPDPLHTYFGICGLSLMGEAGLQPVHAALNIS 336

GO:0003824 "catalytic activity" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0016740 "transferase activity" evidence=IEA

RGD|621754 Pggt1b "protein geranylgeranyltransferase type I, beta subunit" [Rattus norvegicus (taxid:10116)]

 Score = 480 (174.0 bits), Expect = 1.0e-45, P = 1.0e-45
 Identities = 93/230 (40%), Positives = 138/230 (60%)

Query:     2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
             ++  ++A TY  L+ L  +G + + +D ++ L  +R LQ  DGSF  +  G+E D+RFVY
Sbjct:   117 YDSGHIAMTYTGLSCLIILGDDLSRVDKEACLAGLRALQLEDGSFCAVPEGSENDMRFVY 176

Query:    62 CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
             CA+ IC++L +WSGMD ++A +YI    SYD G     G ESHGG T+C +ASL LMG +
Sbjct:   177 CASCICYMLNNWSGMDMKKAISYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKL 236

Query:   122 EDNVLSKNTXXXXXXXXXXXXWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
             E+ V S+              WC+ RQ    G+ GR NKP DTCY+FW+G+ L++L  + 
Sbjct:   237 EE-VFSEKELNRIKR------WCIMRQ--QNGYHGRPNKPVDTCYSFWVGATLKLLKIFQ 287

Query:   182 LIDKEALRGFLLTCQSQY-GGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL 230
               + E  R ++L+ Q +  GGF K P   PD  H+++G    SL+EE G+
Sbjct:   288 YTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGI 337

GO:0004662 "CAAX-protein geranylgeranyltransferase activity" evidence=IDA;TAS

GO:0005515 "protein binding" evidence=IPI

GO:0005953 "CAAX-protein geranylgeranyltransferase complex" evidence=IDA;TAS

GO:0008284 "positive regulation of cell proliferation" evidence=IMP

GO:0018344 "protein geranylgeranylation" evidence=TAS

GO:0034097 "response to cytokine stimulus" evidence=IMP

GO:0045787 "positive regulation of cell cycle" evidence=IMP

GO:0046872 "metal ion binding" evidence=IEA

GO:0051771 "negative regulation of nitric-oxide synthase biosynthetic process" evidence=IMP

GO:0008144 "drug binding" evidence=IDA

GO:0008270 "zinc ion binding" evidence=IDA

GO:0019840 "isoprenoid binding" evidence=IDA

GO:0042277 "peptide binding" evidence=IDA

UNIPROTKB|P53610 Pggt1b "Geranylgeranyl transferase type-1 subunit beta" [Rattus norvegicus (taxid:10116)]

 Score = 480 (174.0 bits), Expect = 1.0e-45, P = 1.0e-45
 Identities = 93/230 (40%), Positives = 138/230 (60%)

Query:     2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
             ++  ++A TY  L+ L  +G + + +D ++ L  +R LQ  DGSF  +  G+E D+RFVY
Sbjct:   117 YDSGHIAMTYTGLSCLIILGDDLSRVDKEACLAGLRALQLEDGSFCAVPEGSENDMRFVY 176

Query:    62 CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
             CA+ IC++L +WSGMD ++A +YI    SYD G     G ESHGG T+C +ASL LMG +
Sbjct:   177 CASCICYMLNNWSGMDMKKAISYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKL 236

Query:   122 EDNVLSKNTXXXXXXXXXXXXWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
             E+ V S+              WC+ RQ    G+ GR NKP DTCY+FW+G+ L++L  + 
Sbjct:   237 EE-VFSEKELNRIKR------WCIMRQ--QNGYHGRPNKPVDTCYSFWVGATLKLLKIFQ 287

Query:   182 LIDKEALRGFLLTCQSQY-GGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL 230
               + E  R ++L+ Q +  GGF K P   PD  H+++G    SL+EE G+
Sbjct:   288 YTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGI 337

GO:0005515 "protein binding" evidence=IPI

MGI|MGI:1917514 Pggt1b "protein geranylgeranyltransferase type I, beta subunit" [Mus musculus (taxid:10090)]

 Score = 479 (173.7 bits), Expect = 1.3e-45, P = 1.3e-45
 Identities = 93/230 (40%), Positives = 137/230 (59%)

Query:     2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
             ++  ++A TY  L+ L  +G +   +D ++ L  +R LQ  DGSF  +  G+E D+RFVY
Sbjct:   117 YDSGHIAMTYTGLSCLIILGDDLGRVDKEACLAGLRALQLEDGSFCAVPEGSENDMRFVY 176

Query:    62 CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
             CA+ IC++L +WSGMD ++A +YI    SYD G     G ESHGG T+C +ASL LMG +
Sbjct:   177 CASCICYMLNNWSGMDMKKAISYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKL 236

Query:   122 EDNVLSKNTXXXXXXXXXXXXWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
             E+ V S+              WC+ RQ    G+ GR NKP DTCY+FW+G+ L++L  + 
Sbjct:   237 EE-VFSEKELNRIKR------WCIMRQ--QNGYHGRPNKPVDTCYSFWVGATLKLLKIFQ 287

Query:   182 LIDKEALRGFLLTCQSQY-GGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL 230
               + E  R ++L+ Q +  GGF K P   PD  H+++G    SL+EE G+
Sbjct:   288 YTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGI 337

GO:0003824 "catalytic activity" evidence=IEA

GO:0004659 "prenyltransferase activity" evidence=IEA

GO:0004662 "CAAX-protein geranylgeranyltransferase activity" evidence=ISO

GO:0005953 "CAAX-protein geranylgeranyltransferase complex" evidence=ISO

GO:0008144 "drug binding" evidence=ISO

GO:0008270 "zinc ion binding" evidence=ISO

GO:0008284 "positive regulation of cell proliferation" evidence=ISO

GO:0016740 "transferase activity" evidence=IEA

GO:0019840 "isoprenoid binding" evidence=ISO

GO:0034097 "response to cytokine stimulus" evidence=ISO

GO:0042277 "peptide binding" evidence=ISO

GO:0045787 "positive regulation of cell cycle" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0051771 "negative regulation of nitric-oxide synthase biosynthetic process" evidence=ISO

UNIPROTKB|F1RLE8 PGGT1B "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 476 (172.6 bits), Expect = 2.7e-45, P = 2.7e-45
 Identities = 92/230 (40%), Positives = 138/230 (60%)

Query:     2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
             ++  ++A TY  L+ L  +G + + ++ ++ L  +R LQ  DGSF  +  G+E D+RFVY
Sbjct:    58 YDSGHIAMTYTGLSCLVILGDDLSRVNKEACLAGLRALQLEDGSFCAVPEGSENDMRFVY 117

Query:    62 CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
             CA+ IC++L +WSGMD ++A +YI    SYD G     G ESHGG T+C +ASL LMG +
Sbjct:   118 CASCICYMLNNWSGMDMKKAISYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKL 177

Query:   122 EDNVLSKNTXXXXXXXXXXXXWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
             E+ V S+              WC+ RQ    G+ GR NKP DTCY+FW+G+ L++L  + 
Sbjct:   178 EE-VFSEKELNRIKR------WCIMRQ--QNGYHGRPNKPVDTCYSFWVGATLKLLKIFQ 228

Query:   182 LIDKEALRGFLLTCQSQY-GGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL 230
               + E  R ++L+ Q +  GGF K P   PD  H+++G    SL+EE G+
Sbjct:   229 YTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGI 278

GO:0003824 "catalytic activity" evidence=IEA

UNIPROTKB|P53609 PGGT1B "Geranylgeranyl transferase type-1 subunit beta" [Homo sapiens (taxid:9606)]

 Score = 475 (172.3 bits), Expect = 3.4e-45, P = 3.4e-45
 Identities = 92/230 (40%), Positives = 137/230 (59%)

Query:     2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
             ++  ++A TY  L+ L  +G + + ++ ++ L  +R LQ  DGSF  +  G+E D+RFVY
Sbjct:   117 YDSGHIAMTYTGLSCLVILGDDLSRVNKEACLAGLRALQLEDGSFCAVPEGSENDMRFVY 176

Query:    62 CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
             CA+ IC++L +WSGMD ++A  YI    SYD G     G ESHGG T+C +ASL LMG +
Sbjct:   177 CASCICYMLNNWSGMDMKKAITYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKL 236

Query:   122 EDNVLSKNTXXXXXXXXXXXXWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
             E+ V S+              WC+ RQ    G+ GR NKP DTCY+FW+G+ L++L  + 
Sbjct:   237 EE-VFSEKELNRIKR------WCIMRQ--QNGYHGRPNKPVDTCYSFWVGATLKLLKIFQ 287

Query:   182 LIDKEALRGFLLTCQSQY-GGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL 230
               + E  R ++L+ Q +  GGF K P   PD  H+++G    SL+EE G+
Sbjct:   288 YTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGI 337

GO:0046872 "metal ion binding" evidence=IEA

GO:0004662 "CAAX-protein geranylgeranyltransferase activity" evidence=IEA

GO:0005953 "CAAX-protein geranylgeranyltransferase complex" evidence=IEA

GO:0008284 "positive regulation of cell proliferation" evidence=IEA

GO:0034097 "response to cytokine stimulus" evidence=IEA

GO:0045787 "positive regulation of cell cycle" evidence=IEA

GO:0051771 "negative regulation of nitric-oxide synthase biosynthetic process" evidence=IEA

GO:0018344 "protein geranylgeranylation" evidence=TAS

UNIPROTKB|Q5EAD5 PGGT1B "Geranylgeranyl transferase type-1 subunit beta" [Bos taurus (taxid:9913)]

 Score = 473 (171.6 bits), Expect = 5.6e-45, P = 5.6e-45
 Identities = 92/230 (40%), Positives = 137/230 (59%)

Query:     2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
             ++  ++A TY  L+ L  +G + + ++ ++ L  +R LQ  DGSF  +  G+E D+RFVY
Sbjct:   117 YDSGHIAMTYTGLSCLVILGDDLSRVNKEACLAGLRALQLEDGSFCAVPEGSENDMRFVY 176

Query:    62 CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
             CA+ IC++L +WSGMD ++A  YI    SYD G     G ESHGG T+C +ASL LMG +
Sbjct:   177 CASCICYMLNNWSGMDMKKAINYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKL 236

Query:   122 EDNVLSKNTXXXXXXXXXXXXWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
             E+ V S+              WC+ RQ    G+ GR NKP DTCY+FW+G+ L++L  + 
Sbjct:   237 EE-VFSEKELNRIKR------WCIMRQ--QNGYHGRPNKPVDTCYSFWVGATLKLLKIFQ 287

Query:   182 LIDKEALRGFLLTCQSQY-GGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL 230
               + E  R ++L+ Q +  GGF K P   PD  H+++G    SL+EE G+
Sbjct:   288 YTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGI 337

GO:0004662 "CAAX-protein geranylgeranyltransferase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|F1NE58 PGGT1B "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 470 (170.5 bits), Expect = 1.2e-44, P = 1.2e-44
 Identities = 91/230 (39%), Positives = 137/230 (59%)

Query:     2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
             ++  ++A TY  L+ L  +G + + ++  ++L  +R LQ  DGSF  +  G+E D+RFVY
Sbjct:    71 YDSGHIAMTYTGLSCLVILGDDLSRVNKDALLAGLRALQLEDGSFCAVLEGSENDMRFVY 130

Query:    62 CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
             CA+ IC++L++WSGMD ++A  YI    SYD G     G ESHGG T+C +ASL LMG +
Sbjct:   131 CASCICYMLDNWSGMDMKKAIDYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKL 190

Query:   122 EDNVLSKNTXXXXXXXXXXXXWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
             E+ V S+              WC+ RQ    G+ GR NKP DTCY+FW+G+ L++L  + 
Sbjct:   191 EE-VFSEKELSRIGR------WCVMRQ--QNGYHGRPNKPVDTCYSFWVGATLKLLNLFQ 241

Query:   182 LIDKEALRGFLLTCQSQY-GGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL 230
               + E  R ++L+ Q +  GGF K P   PD  H+++G    SL+ E G+
Sbjct:   242 YTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLIGEAGI 291

GO:0003824 "catalytic activity" evidence=IEA

UNIPROTKB|E2QZU5 PGGT1B "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 466 (169.1 bits), Expect = 3.1e-44, P = 3.1e-44
 Identities = 91/230 (39%), Positives = 136/230 (59%)

Query:     2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
             ++  ++A TY  L+ L  +G + + ++ ++ L  +R LQ  DGSF  +  G+E D+RFVY
Sbjct:   117 YDSGHIAMTYTGLSCLVILGDDLSRVNKEACLAGLRALQLEDGSFCAVPEGSENDMRFVY 176

Query:    62 CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
             CA+ IC++L +WSGMD ++A  YI    SYD G     G ESHGG T+C +ASL LM  +
Sbjct:   177 CASCICYMLNNWSGMDMKKAINYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMDKL 236

Query:   122 EDNVLSKNTXXXXXXXXXXXXWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
             E+ V S+              WC+ RQ    G+ GR NKP DTCY+FW+G+ L++L  + 
Sbjct:   237 EE-VFSEKELNRIKR------WCIMRQ--QNGYHGRPNKPVDTCYSFWVGATLKLLKIFQ 287

Query:   182 LIDKEALRGFLLTCQSQY-GGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL 230
               + E  R ++L+ Q +  GGF K P   PD  H+++G    SL+EE G+
Sbjct:   288 YTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGI 337

GO:0003824 "catalytic activity" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
4th Layer	2.5.1.58	LOW CONFIDENCE prediction!
3rd Layer	2.5.1	0.691

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	estExt_fgenesh4_pm.C_LG_VIII0194	hypothetical protein (372 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	eugene3.00070186	farnesyltranstransferase (EC-2.5.1.29) (330 aa)					•	•	•		0.494

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	247
cd02895	307	cd02895, GGTase-I, Geranylgeranyltransferase types	1e-99
cd02890	286	cd02890, PTase, Protein prenyltransferase (PTase)	3e-87
COG5029	342	COG5029, CAL1, Prenyltransferase, beta subunit [Po	7e-61
cd02894	287	cd02894, GGTase-II, Geranylgeranyltransferase type	9e-58
cd02893	299	cd02893, FTase, Protein farnesyltransferase (FTase	1e-49
PLN03201	316	PLN03201, PLN03201, RAB geranylgeranyl transferase	8e-48
cd00688	300	cd00688, ISOPREN_C2_like, This group contains clas	3e-42
PLN02710	439	PLN02710, PLN02710, farnesyltranstransferase subun	1e-31
cd02890	286	cd02890, PTase, Protein prenyltransferase (PTase)	6e-18
COG5029	342	COG5029, CAL1, Prenyltransferase, beta subunit [Po	1e-14
pfam13249	112	pfam13249, Prenyltrans_2, Prenyltransferase-like	2e-13
pfam00432	44	pfam00432, Prenyltrans, Prenyltransferase and squa	9e-13
cd02894	287	cd02894, GGTase-II, Geranylgeranyltransferase type	1e-12
pfam13249	112	pfam13249, Prenyltrans_2, Prenyltransferase-like	4e-11
cd02893	299	cd02893, FTase, Protein farnesyltransferase (FTase	3e-10
cd00688	300	cd00688, ISOPREN_C2_like, This group contains clas	7e-10
pfam00432	44	pfam00432, Prenyltrans, Prenyltransferase and squa	2e-09
pfam00432	44	pfam00432, Prenyltrans, Prenyltransferase and squa	6e-08
pfam13249	112	pfam13249, Prenyltrans_2, Prenyltransferase-like	1e-06
PLN03201	316	PLN03201, PLN03201, RAB geranylgeranyl transferase	2e-06
pfam13249	112	pfam13249, Prenyltrans_2, Prenyltransferase-like	6e-06
cd02895	307	cd02895, GGTase-I, Geranylgeranyltransferase types	2e-05
PLN02710	439	PLN02710, PLN02710, farnesyltranstransferase subun	4e-05
cd02890	286	cd02890, PTase, Protein prenyltransferase (PTase)	2e-04
COG1689	274	COG1689, COG1689, Uncharacterized protein conserve	0.003

>gnl|CDD|239225 cd02895, GGTase-I, Geranylgeranyltransferase types I (GGTase-I)-like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

 Score =  292 bits (749), Expect = 1e-99
 Identities = 105/229 (45%), Positives = 139/229 (60%), Gaps = 13/229 (5%)

Query: 2   HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHF--GAEKDLRF 59
           ++  NLA TY AL  L  +G + + +D K+IL  +  LQ  DGSF  +    G E D+RF
Sbjct: 87  YDTGNLAMTYFALLSLLILGDDLSRVDRKAILNFLSKLQLPDGSFGSVLDSEGGENDMRF 146

Query: 60  VYCAAAICFLLEDWS--GMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRL 117
            YCA AIC++L+DWS   +D+E+   YI + QSYDGGFG  PG ESHGG T+CA+ASL L
Sbjct: 147 CYCAVAICYMLDDWSEEDIDKEKLIDYIKSSQSYDGGFGQGPGLESHGGSTFCAIASLSL 206

Query: 118 MGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRML 177
           +G +E          S   L  L  W + RQ +  GF GR NKP+DTCY+FW+G+ L++L
Sbjct: 207 LGKLE--------ELSEKFLERLKRWLVHRQVSGTGFNGRPNKPADTCYSFWVGASLKLL 258

Query: 178 GGYNLIDKEALRGFLLTCQSQ-YGGFGKCPGDLPDLYHSFYGYTAFSLL 225
             + LID E  R +LL+ Q    GGF K P   PD  HS+ G  A SL+
Sbjct: 259 DAFQLIDFEKNRNYLLSTQQSLVGGFAKNPDSHPDPLHSYLGLAALSLI 307

GGTase-I s are a subgroup of the protein prenyltransferase family of lipid-modifying enzymes PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids (geranylgeranyl (20-carbon) in the case of GGTase-I ). GGTase-I prenylates the cysteine in the terminal sequence, "CAAX" when X is Leu or Phe. Substrates for GTTase-I include the gamma subunit of neural G-proteins and several Ras-related G-proteins. PTases are heterodimeric with both alpha and beta subunits required for catalytic activity. Length = 307

>gnl|CDD|239220 cd02890, PTase, Protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

 Score =  260 bits (666), Expect = 3e-87
 Identities = 107/227 (47%), Positives = 141/227 (62%), Gaps = 15/227 (6%)

Query: 2   HNGSNLASTYCALAILKAVGYN-FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFV 60
               +LASTY A+  L  +G +  + ID + I   + +LQ  DGSF     G E D RFV
Sbjct: 72  GQDPHLASTYAAVLSLAILGDDALSRIDREKIYKFLSSLQNPDGSFRGDLGG-EVDTRFV 130

Query: 61  YCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGF 120
           YCA +I  LL   + +D+E+   YIL+CQ+YDGGFG  PG+ESHGG T+CAVASL L+G 
Sbjct: 131 YCALSILSLLNILTDIDKEKLIDYILSCQNYDGGFGGVPGAESHGGYTFCAVASLALLG- 189

Query: 121 IEDNVLSKNTSSSIIDLPLLLSWCLQRQAADG-GFQGRANKPSDTCYAFWIGSVLRMLGG 179
                        +ID   LL W ++RQ A G GF GR NK  DTCY+FW+G+ L++LG 
Sbjct: 190 ----------RLDLIDKERLLRWLVERQLASGGGFNGRPNKLVDTCYSFWVGASLKILGR 239

Query: 180 YNLIDKEALRGFLL-TCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLL 225
            +LID+E LR ++L   QS+ GGF   PG  PDLYH++YG +  SLL
Sbjct: 240 LHLIDQEKLREYILSCQQSEVGGFSDKPGKPPDLYHTYYGLSGLSLL 286

The protein prenyltransferase family of lipid-modifying enzymes includes protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I and GGTase-II). They catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between the C1 atom of farnesyl (15-carbon by FTase) or geranylgeranyl (20-carbon by GGTase-I, II) isoprenoid lipids and cysteine residues at or near the C-terminus of protein acceptors. FTase and GGTase-I prenylate the cysteine in the terminal sequence, "CAAX"; and GGTase-II prenylates both cysteines in the "CC" (or "CXC") terminal sequence. These enzymes are heterodimeric with both alpha and beta subunits required for catalytic activity. In contrast to other prenyltransferases, GGTase-II does not recognize its protein acceptor directly but requires Rab to complex with REP (Rab escort protein) before prenylation can occur. These enzymes are found exclusively in eukaryotes. Length = 286

>gnl|CDD|227362 COG5029, CAL1, Prenyltransferase, beta subunit [Posttranslational modification, protein turnover, chaperones]

 Score =  194 bits (495), Expect = 7e-61
 Identities = 90/239 (37%), Positives = 131/239 (54%), Gaps = 14/239 (5%)

Query: 5   SNLASTYCALAILKAVG--YNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYC 62
           S+LAST  A+  L  +      + ID  S+ + +  L+  DGSF     G E D RF+Y 
Sbjct: 102 SHLASTVFAIQSLAMLDSLDVLSRIDRDSLASFISGLKNPDGSFRSDLEG-EVDTRFLYI 160

Query: 63  AAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIE 122
           A +I  LL D      E A  Y+  CQ+Y+GGFGL P +E+H G T+CA+A+L L+G ++
Sbjct: 161 ALSILSLLGDLDKELFEGAVDYLKKCQNYEGGFGLCPYAEAHAGYTFCALAALALLGKLD 220

Query: 123 DNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNL 182
                      + D+  L+ W  +RQ + GG  GR+NK  DTCY+FW+ S L +LG  + 
Sbjct: 221 ----------KLSDVEKLIRWLAERQLSSGGLNGRSNKLVDTCYSFWVLSSLAILGKLDF 270

Query: 183 IDKEALRGFLL-TCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMT 240
           I+ E L  ++L   Q   GGF   PG+ PD+YH+ +G    SL+E   LNP+     + 
Sbjct: 271 INTEELTDYILDCQQETSGGFSDRPGEEPDVYHTCFGLAGLSLIEYKYLNPVDPIYCLP 329

Length = 342

>gnl|CDD|239224 cd02894, GGTase-II, Geranylgeranyltransferase type II (GGTase-II)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

 Score =  184 bits (470), Expect = 9e-58
 Identities = 81/223 (36%), Positives = 121/223 (54%), Gaps = 14/223 (6%)

Query: 5   SNLASTYCALAILKAVG-YNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
            ++ ST  A+ IL      N  + + + I   ++ LQ  DGSF    +G E D RF YCA
Sbjct: 77  PHILSTLSAIQILALYDLLNKIDENKEKIAKFIKGLQNEDGSFSGDKWG-EVDTRFSYCA 135

Query: 64  AAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED 123
                LL     +D ++A  Y+L+C ++DGGFG  PG+ESH G  +C V +L ++G    
Sbjct: 136 VLCLTLLGKLDLIDVDKAVDYLLSCYNFDGGFGCRPGAESHAGQIFCCVGALAILG---- 191

Query: 124 NVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLI 183
                  S  +ID   L  W  +RQ   GG  GR  K  D CY++W+ S L+++G  + I
Sbjct: 192 -------SLDLIDRDRLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVLSSLKIIGRLHWI 244

Query: 184 DKEALRGFLLTCQSQ-YGGFGKCPGDLPDLYHSFYGYTAFSLL 225
           +K  L+ F+L CQ +  GGF   PG++ D++H+F+G    SLL
Sbjct: 245 NKNKLKNFILACQDEEDGGFADRPGNMVDVFHTFFGLAGLSLL 287

GGTase-IIs are a subgroup of the protein prenyltransferase family of lipid-modifying enzymes. PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids (geranylgeranyl (20-carbon) in the case of GGTase-II ). GGTase-II catalyzes alkylation of both cysteine residues in Rab proteins containing carboxy-terminal "CC", "CXCX" or "CXC" motifs. PTases are heterodimeric with both alpha and beta subunits required for catalytic activity. In contrast to other prenyltransferases, GGTas-II requires an escort protein to bring the substrate protein to the catalytic heterodimer and to escort the geryanylgeranylated product to the membrane. Length = 287

>gnl|CDD|239223 cd02893, FTase, Protein farnesyltransferase (FTase)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

 Score =  164 bits (417), Expect = 1e-49
 Identities = 90/237 (37%), Positives = 128/237 (54%), Gaps = 41/237 (17%)

Query: 5   SNLASTY---CALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
            +LA+TY    ALAI+      +  ID +++   + +L+Q DGSF  +H G E D+R  Y
Sbjct: 74  PHLATTYAAVNALAIIGTEEA-YDVIDREALYKFLLSLKQPDGSFR-MHVGGEVDVRGTY 131

Query: 62  CAAAICFLL-----EDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLR 116
           CA ++  LL     E + G+       YIL+CQ+Y+GGFG  PG+E+HGG T+CA+A+L 
Sbjct: 132 CAISVASLLNILTDELFEGVAE-----YILSCQTYEGGFGGVPGNEAHGGYTFCALAALA 186

Query: 117 LMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQ-AADGGFQGRANKPSDTCYAFWIGSVLR 175
           ++G               +DL  LL W + RQ   +GGFQGR NK  D CY+FW+G  L 
Sbjct: 187 ILG-----------KPDKLDLESLLRWLVARQMRFEGGFQGRTNKLVDGCYSFWVGGSLP 235

Query: 176 MLGGY-------------NLIDKEALRGFLL-TCQSQYGGFGKCPGDLPDLYHSFYG 218
           +L                 L D+EAL+ ++L  CQS+ GG    PG   D YH+ Y 
Sbjct: 236 ILEAILNAEKKFDDSAEGTLFDQEALQEYILLCCQSEEGGLRDKPGKPRDFYHTCYA 292

FTases are a subgroup of PTase family of lipid-modifying enzymes. PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. These proteins are heterodimers of alpha and beta subunits. Both subunits are required for catalytic activity. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids. Ftase attaches a 15-carbon farnesyl group to the cysteine within the C-terminal CaaX motif of substrate proteins when X is Ala, Met, Ser, Cys or Gln. Protein farnesylation has been shown to play critical roles in a variety of cellular processes including Ras/mitogen activated protein kinase signaling pathways in mammals and, abscisic acid signal transduction in Arabidopsis. Length = 299

>gnl|CDD|215630 PLN03201, PLN03201, RAB geranylgeranyl transferase beta-subunit; Provisional

 Score =  160 bits (406), Expect = 8e-48
 Identities = 79/208 (37%), Positives = 113/208 (54%), Gaps = 13/208 (6%)

Query: 27  IDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYIL 86
           +D+  + + +  LQ  DGSF    +G E D RF YCA     LL+    ++ E+A  YI+
Sbjct: 104 LDADKVASYVAGLQNEDGSFSGDEWG-EIDTRFSYCALCCLSLLKRLDKINVEKAVDYIV 162

Query: 87  NCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQ 146
           +C+++DGGFG TPG ESH G  +C V +L + G           S   +D  LL  W  +
Sbjct: 163 SCKNFDGGFGCTPGGESHAGQIFCCVGALAITG-----------SLHHVDKDLLGWWLCE 211

Query: 147 RQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQ-SQYGGFGKC 205
           RQ   GG  GR  K  D CY++W+ S L ++   + IDK+ L  F+L CQ  + GG    
Sbjct: 212 RQVKSGGLNGRPEKLPDVCYSWWVLSSLIIIDRVHWIDKDKLAKFILDCQDDENGGISDR 271

Query: 206 PGDLPDLYHSFYGYTAFSLLEEPGLNPL 233
           P D  D++H+F+G    SLL  PGL P+
Sbjct: 272 PDDAVDVFHTFFGVAGLSLLGYPGLKPI 299

Length = 316

>gnl|CDD|238362 cd00688, ISOPREN_C2_like, This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate complement

 Score =  145 bits (367), Expect = 3e-42
 Identities = 84/237 (35%), Positives = 105/237 (44%), Gaps = 26/237 (10%)

Query: 2   HNGSNLASTYCALAILKAVGYNFA--NIDSKSILTSMRNLQQHDGSF------MPIHFGA 53
           ++  +L  T  AL  L   G   A   ID    L  + +LQ  DG F           G 
Sbjct: 77  NDYPSLWLTAYALKALLLAGDYIAVDRIDLARALNWLLSLQNEDGGFREDGPGNHRIGGD 136

Query: 54  EKDLRFVYCAAAICFLLEDWS-GMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAV 112
           E D+R    A     LL         E+A  Y+L+CQ+YDGGFG  PG ESHG GT CA 
Sbjct: 137 ESDVRLTAYALIALALLGKLDPDPLIEKALDYLLSCQNYDGGFG--PGGESHGYGTACAA 194

Query: 113 ASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGR---ANKPSDTCYAFW 169
           A+L L+G                D    L W L RQ  DGG+       NK SD+CY  W
Sbjct: 195 AALALLG-----------DLDSPDAKKALRWLLSRQRPDGGWGEGRDRTNKLSDSCYTEW 243

Query: 170 IGSVLRMLGGY-NLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLL 225
               L  LG   +L D E L  +LL+ Q++ GGF   PG   D  H+ +   A SL 
Sbjct: 244 AAYALLALGKLGDLEDAEKLVKWLLSQQNEDGGFSSKPGKSYDTQHTVFALLALSLY 300

Class II terpene cyclases include squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY), these integral membrane proteins catalyze a cationic cyclization cascade converting linear triterpenes to fused ring compounds. The protein prenyltransferases include protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I and GGTase-II) which catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Alpha (2)-M is a major carrier protein in serum and involved in the immobilization and entrapment of proteases. PZP is a pregnancy associated protein. Alpha (2)-M and PZP are known to bind to and, may modulate, the activity of placental protein-14 in T-cell growth and cytokine production thereby protecting the allogeneic fetus from attack by the maternal immune system. Length = 300

>gnl|CDD|215380 PLN02710, PLN02710, farnesyltranstransferase subunit beta

 Score =  119 bits (301), Expect = 1e-31
 Identities = 65/176 (36%), Positives = 100/176 (56%), Gaps = 20/176 (11%)

Query: 7   LASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAA 64
           LA+TY A+  L  +G     ++I+ + + T +  ++   G F  +H G E D+R  Y A 
Sbjct: 121 LATTYAAVNTLVTIGGERALSSINREKLYTFLLRMKDPSGGFR-MHDGGEMDVRACYTAI 179

Query: 65  AICFLLEDWSGMDRERAKA---YILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
           ++  LL     +D E  K    YIL+CQ+Y+GG G  PG+E+HGG T+C +A++ L+  +
Sbjct: 180 SVASLLNI---LDDELVKGVGDYILSCQTYEGGIGGEPGAEAHGGYTFCGLAAMILINEV 236

Query: 122 EDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRML 177
           +            +DLP L++W + RQ  +GGFQGR NK  D CY+FW G V  +L
Sbjct: 237 DR-----------LDLPSLINWVVFRQGVEGGFQGRTNKLVDGCYSFWQGGVFALL 281

Length = 439

>gnl|CDD|239220 cd02890, PTase, Protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

 Score = 80.3 bits (199), Expect = 6e-18
 Identities = 55/170 (32%), Positives = 80/170 (47%), Gaps = 21/170 (12%)

Query: 61  YCAAAICFLLEDWSGMDRERAKAYILNCQSY-DGGFGLTPGSESHGGGTYCAVASLRLMG 119
           +  +++  L ED    +++    +I +CQ   DGGFG  PG + H   TY AV SL ++G
Sbjct: 32  WILSSLDLLGEDLDDENKDEIIDFIYSCQVNEDGGFGGGPGQDPHLASTYAAVLSLAILG 91

Query: 120 FIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDT----CYAFWIGSVLR 175
              D+ LS+      ID   +  +    Q  DG F+G      DT    C      S+L 
Sbjct: 92  ---DDALSR------IDREKIYKFLSSLQNPDGSFRGDLGGEVDTRFVYCAL----SILS 138

Query: 176 MLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLL 225
           +L     IDKE L  ++L+CQ+  GGFG  PG      H  Y + A + L
Sbjct: 139 LLNILTDIDKEKLIDYILSCQNYDGGFGGVPGAES---HGGYTFCAVASL 185

The protein prenyltransferase family of lipid-modifying enzymes includes protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I and GGTase-II). They catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between the C1 atom of farnesyl (15-carbon by FTase) or geranylgeranyl (20-carbon by GGTase-I, II) isoprenoid lipids and cysteine residues at or near the C-terminus of protein acceptors. FTase and GGTase-I prenylate the cysteine in the terminal sequence, "CAAX"; and GGTase-II prenylates both cysteines in the "CC" (or "CXC") terminal sequence. These enzymes are heterodimeric with both alpha and beta subunits required for catalytic activity. In contrast to other prenyltransferases, GGTase-II does not recognize its protein acceptor directly but requires Rab to complex with REP (Rab escort protein) before prenylation can occur. These enzymes are found exclusively in eukaryotes. Length = 286

>gnl|CDD|227362 COG5029, CAL1, Prenyltransferase, beta subunit [Posttranslational modification, protein turnover, chaperones]

 Score = 71.7 bits (176), Expect = 1e-14
 Identities = 47/161 (29%), Positives = 73/161 (45%), Gaps = 11/161 (6%)

Query: 65  AICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDN 124
           ++  L      +D+ER  +++L C    GGFG  PG +SH   T  A+ SL ++  + D 
Sbjct: 64  SLWMLKRYDKTVDKERKISFVLGCVGPSGGFGGGPGQDSHLASTVFAIQSLAMLDSL-DV 122

Query: 125 VLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLID 184
           +       S ID   L S+    +  DG F+       DT + +   S+L +LG  +   
Sbjct: 123 L-------SRIDRDSLASFISGLKNPDGSFRSDLEGEVDTRFLYIALSILSLLGDLDKEL 175

Query: 185 KEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLL 225
            E    +L  CQ+  GGFG CP       H+ Y + A + L
Sbjct: 176 FEGAVDYLKKCQNYEGGFGLCPYAEA---HAGYTFCALAAL 213

Length = 342

>gnl|CDD|222007 pfam13249, Prenyltrans_2, Prenyltransferase-like

 Score = 64.7 bits (158), Expect = 2e-13
 Identities = 36/124 (29%), Positives = 56/124 (45%), Gaps = 17/124 (13%)

Query: 83  AYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLS 142
            Y+L+ Q+ DGG+G   G  S    T  A+ +L  +G                D+   L+
Sbjct: 2   DYLLSQQNPDGGWGAAVGGGSDVAMTALALLALAALG-------------ETPDVKKALA 48

Query: 143 WCLQRQAADGGFQGRANKPSDTCYAFWIG-SVLRMLGGYNLID--KEALRGFLLTCQSQY 199
           W L +Q  DGGF       S    +     + L +LGG    +  ++A+  +LL+CQ+  
Sbjct: 49  WLLSQQNPDGGFGYDPQSNSPDLSSTAYALAALELLGGEPDDEAVEKAVD-YLLSCQNPD 107

Query: 200 GGFG 203
           GGFG
Sbjct: 108 GGFG 111

Length = 112

>gnl|CDD|109488 pfam00432, Prenyltrans, Prenyltransferase and squalene oxidase repeat

 Score = 60.6 bits (148), Expect = 9e-13
 Identities = 23/44 (52%), Positives = 32/44 (72%)

Query: 76  MDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMG 119
           +D+E+   Y+L+CQ+ DGGFG  PG ES    TYCA+A+L L+G
Sbjct: 1   IDKEKLVDYLLSCQNPDGGFGGRPGGESDTYYTYCALAALALLG 44

Length = 44

>gnl|CDD|239224 cd02894, GGTase-II, Geranylgeranyltransferase type II (GGTase-II)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

 Score = 65.4 bits (160), Expect = 1e-12
 Identities = 45/151 (29%), Positives = 67/151 (44%), Gaps = 19/151 (12%)

Query: 62  CAAAICFLLEDWSGMDRERAKAYILNCQSY-DGGFGLTPGSESHGGGTYCAV---ASLRL 117
            A  +   LE    ++RE    ++ +CQ   DGGFG +PG + H   T  A+   A   L
Sbjct: 38  TALDLLGQLER---LNREEIIEFVKSCQDNEDGGFGGSPGHDPHILSTLSAIQILALYDL 94

Query: 118 MGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRML 177
           +  I++N      +  I  L          Q  DG F G      DT +++     L +L
Sbjct: 95  LNKIDENKE--KIAKFIKGL----------QNEDGSFSGDKWGEVDTRFSYCAVLCLTLL 142

Query: 178 GGYNLIDKEALRGFLLTCQSQYGGFGKCPGD 208
           G  +LID +    +LL+C +  GGFG  PG 
Sbjct: 143 GKLDLIDVDKAVDYLLSCYNFDGGFGCRPGA 173

GGTase-IIs are a subgroup of the protein prenyltransferase family of lipid-modifying enzymes. PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids (geranylgeranyl (20-carbon) in the case of GGTase-II ). GGTase-II catalyzes alkylation of both cysteine residues in Rab proteins containing carboxy-terminal "CC", "CXCX" or "CXC" motifs. PTases are heterodimeric with both alpha and beta subunits required for catalytic activity. In contrast to other prenyltransferases, GGTas-II requires an escort protein to bring the substrate protein to the catalytic heterodimer and to escort the geryanylgeranylated product to the membrane. Length = 287

>gnl|CDD|222007 pfam13249, Prenyltrans_2, Prenyltransferase-like

 Score = 58.1 bits (141), Expect = 4e-11
 Identities = 33/94 (35%), Positives = 43/94 (45%), Gaps = 4/94 (4%)

Query: 4   GSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
           GS++A T  AL  L A+G      D K  L  + + Q  DG F         DL     A
Sbjct: 21  GSDVAMTALALLALAALGET---PDVKKALAWLLSQQNPDGGFGYDPQSNSPDLSSTAYA 77

Query: 64  AAICFLLEDWSGMDR-ERAKAYILNCQSYDGGFG 96
            A   LL      +  E+A  Y+L+CQ+ DGGFG
Sbjct: 78  LAALELLGGEPDDEAVEKAVDYLLSCQNPDGGFG 111

Length = 112

>gnl|CDD|239223 cd02893, FTase, Protein farnesyltransferase (FTase)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

 Score = 58.8 bits (143), Expect = 3e-10
 Identities = 39/134 (29%), Positives = 60/134 (44%), Gaps = 14/134 (10%)

Query: 78  RERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDL 137
            +   +++  CQ+  GGFG  PG   H   TY AV +L ++G  E           +ID 
Sbjct: 49  ADDVISFLRRCQNPSGGFGGGPGQLPHLATTYAAVNALAIIGTEEAY--------DVIDR 100

Query: 138 PLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRG---FLLT 194
             L  + L  +  DG F+       D    +   SV  +L   N++  E   G   ++L+
Sbjct: 101 EALYKFLLSLKQPDGSFRMHVGGEVDVRGTYCAISVASLL---NILTDELFEGVAEYILS 157

Query: 195 CQSQYGGFGKCPGD 208
           CQ+  GGFG  PG+
Sbjct: 158 CQTYEGGFGGVPGN 171

FTases are a subgroup of PTase family of lipid-modifying enzymes. PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. These proteins are heterodimers of alpha and beta subunits. Both subunits are required for catalytic activity. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids. Ftase attaches a 15-carbon farnesyl group to the cysteine within the C-terminal CaaX motif of substrate proteins when X is Ala, Met, Ser, Cys or Gln. Protein farnesylation has been shown to play critical roles in a variety of cellular processes including Ras/mitogen activated protein kinase signaling pathways in mammals and, abscisic acid signal transduction in Arabidopsis. Length = 299

>gnl|CDD|238362 cd00688, ISOPREN_C2_like, This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate complement

 Score = 57.6 bits (139), Expect = 7e-10
 Identities = 51/217 (23%), Positives = 73/217 (33%), Gaps = 31/217 (14%)

Query: 29  SKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLE------DWSGMDRERAK 82
            +  L  +      DG +     G     +    A  +  LL            D    K
Sbjct: 1   IEKHLKYLLRYPYGDGHWYQSLCG----EQTWSTAWPLLALLLLLAATGIRDKADENIEK 56

Query: 83  AY--ILNCQSYDGGFGLTPGS-ESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPL 139
               +L+ Q  DGGF    G+       T  A+ +L L             +   IDL  
Sbjct: 57  GIQRLLSYQLSDGGFSGWGGNDYPSLWLTAYALKALLL--------AGDYIAVDRIDLAR 108

Query: 140 LLSWCLQRQAADGGFQ-------GRANKPSDTCYAFWIGSVLRMLGGYNL-IDKEALRGF 191
            L+W L  Q  DGGF+             SD     +    L +LG  +     E    +
Sbjct: 109 ALNWLLSLQNEDGGFREDGPGNHRIGGDESDVRLTAYALIALALLGKLDPDPLIEKALDY 168

Query: 192 LLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP 228
           LL+CQ+  GGFG  PG     Y +     A +LL + 
Sbjct: 169 LLSCQNYDGGFG--PGGESHGYGTACAAAALALLGDL 203

Class II terpene cyclases include squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY), these integral membrane proteins catalyze a cationic cyclization cascade converting linear triterpenes to fused ring compounds. The protein prenyltransferases include protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I and GGTase-II) which catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Alpha (2)-M is a major carrier protein in serum and involved in the immobilization and entrapment of proteases. PZP is a pregnancy associated protein. Alpha (2)-M and PZP are known to bind to and, may modulate, the activity of placental protein-14 in T-cell growth and cytokine production thereby protecting the allogeneic fetus from attack by the maternal immune system. Length = 300

>gnl|CDD|109488 pfam00432, Prenyltrans, Prenyltransferase and squalene oxidase repeat

 Score = 51.8 bits (125), Expect = 2e-09
 Identities = 20/44 (45%), Positives = 27/44 (61%)

Query: 183 IDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLE 226
           IDKE L  +LL+CQ+  GGFG  PG   D Y+++    A +LL 
Sbjct: 1   IDKEKLVDYLLSCQNPDGGFGGRPGGESDTYYTYCALAALALLG 44

Length = 44

>gnl|CDD|109488 pfam00432, Prenyltrans, Prenyltransferase and squalene oxidase repeat

 Score = 47.5 bits (114), Expect = 6e-08
 Identities = 18/44 (40%), Positives = 23/44 (52%)

Query: 135 IDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLG 178
           ID   L+ + L  Q  DGGF GR    SDT Y +   + L +LG
Sbjct: 1   IDKEKLVDYLLSCQNPDGGFGGRPGGESDTYYTYCALAALALLG 44

Length = 44

>gnl|CDD|222007 pfam13249, Prenyltrans_2, Prenyltransferase-like

 Score = 45.4 bits (108), Expect = 1e-06
 Identities = 26/84 (30%), Positives = 35/84 (41%), Gaps = 3/84 (3%)

Query: 143 WCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGF 202
           + L +Q  DGG+       SD          L  LG     D +    +LL+ Q+  GGF
Sbjct: 3   YLLSQQNPDGGWGAAVGGGSDVAMTALALLALAALGETP--DVKKALAWLLSQQNPDGGF 60

Query: 203 GKCP-GDLPDLYHSFYGYTAFSLL 225
           G  P  + PDL  + Y   A  LL
Sbjct: 61  GYDPQSNSPDLSSTAYALAALELL 84

Length = 112

>gnl|CDD|215630 PLN03201, PLN03201, RAB geranylgeranyl transferase beta-subunit; Provisional

 Score = 47.8 bits (114), Expect = 2e-06
 Identities = 39/139 (28%), Positives = 64/139 (46%), Gaps = 11/139 (7%)

Query: 69  LLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSK 128
           LL     +DR+   ++++ CQ   GGFG   G + H   T  AV  L L  F   ++L  
Sbjct: 49  LLGKLDDVDRDEVVSWVMRCQHESGGFGGNTGHDPHILYTLSAVQILAL--FDRLDLLDA 106

Query: 129 NTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEAL 188
           +  +S +         LQ +  DG F G      DT +++     L +L   + I+ E  
Sbjct: 107 DKVASYVA-------GLQNE--DGSFSGDEWGEIDTRFSYCALCCLSLLKRLDKINVEKA 157

Query: 189 RGFLLTCQSQYGGFGKCPG 207
             ++++C++  GGFG  PG
Sbjct: 158 VDYIVSCKNFDGGFGCTPG 176

Length = 316

>gnl|CDD|222007 pfam13249, Prenyltrans_2, Prenyltransferase-like

 Score = 43.9 bits (104), Expect = 6e-06
 Identities = 28/94 (29%), Positives = 42/94 (44%), Gaps = 11/94 (11%)

Query: 63  AAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHG-GGTYCAVASLRLMGFI 121
           A A+  L       D ++A A++L+ Q+ DGGFG  P S S     T  A+A+L L+G  
Sbjct: 28  ALALLALAALGETPDVKKALAWLLSQQNPDGGFGYDPQSNSPDLSSTAYALAALELLG-- 85

Query: 122 EDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQ 155
                 +    ++        + L  Q  DGGF 
Sbjct: 86  -GEPDDEAVEKAV-------DYLLSCQNPDGGFG 111

Length = 112

>gnl|CDD|239225 cd02895, GGTase-I, Geranylgeranyltransferase types I (GGTase-I)-like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

 Score = 44.2 bits (105), Expect = 2e-05
 Identities = 44/198 (22%), Positives = 77/198 (38%), Gaps = 35/198 (17%)

Query: 61  YCAAAICFL--LEDWSGMDRERAKAYILNCQSY----DGGFGLTPGSESHGG-------- 106
           +  + +  L  L+     +++    +I + Q       GGF  +      G         
Sbjct: 32  FALSGLDLLGALDSILVEEKDDIIEWIYSLQVLSNLPRGGFRGSSTLGLPGTASKYDTGN 91

Query: 107 --GTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKP--- 161
              TY A+ SL ++G   D++       S +D   +L++  + Q  DG F    +     
Sbjct: 92  LAMTYFALLSLLILG---DDL-------SRVDRKAILNFLSKLQLPDGSFGSVLDSEGGE 141

Query: 162 SDTCYAFWIGSVLRMLGG--YNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGY 219
           +D  + +   ++  ML       IDKE L  ++ + QS  GGFG+ PG      H    +
Sbjct: 142 NDMRFCYCAVAICYMLDDWSEEDIDKEKLIDYIKSSQSYDGGFGQGPGLES---HGGSTF 198

Query: 220 TAFSLLEEPG-LNPLCAE 236
            A + L   G L  L  +
Sbjct: 199 CAIASLSLLGKLEELSEK 216

GGTase-I s are a subgroup of the protein prenyltransferase family of lipid-modifying enzymes PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids (geranylgeranyl (20-carbon) in the case of GGTase-I ). GGTase-I prenylates the cysteine in the terminal sequence, "CAAX" when X is Leu or Phe. Substrates for GTTase-I include the gamma subunit of neural G-proteins and several Ras-related G-proteins. PTases are heterodimeric with both alpha and beta subunits required for catalytic activity. Length = 307

>gnl|CDD|215380 PLN02710, PLN02710, farnesyltranstransferase subunit beta

 Score = 44.0 bits (104), Expect = 4e-05
 Identities = 45/146 (30%), Positives = 69/146 (47%), Gaps = 20/146 (13%)

Query: 88  CQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQR 147
           CQ  +GG+G  PG   H   TY AV +L  +G   +  LS       I+   L ++ L+ 
Sbjct: 104 CQDPNGGYGGGPGQLPHLATTYAAVNTLVTIG--GERALSS------INREKLYTFLLRM 155

Query: 148 QAADGGFQGRANKPSDT--CY-AFWIGSVLRMLGGYNLIDKEALRG---FLLTCQSQYGG 201
           +   GGF+       D   CY A  + S+L      N++D E ++G   ++L+CQ+  GG
Sbjct: 156 KDPSGGFRMHDGGEMDVRACYTAISVASLL------NILDDELVKGVGDYILSCQTYEGG 209

Query: 202 FGKCPGDLPDLYHSFYGYTAFSLLEE 227
            G  PG      ++F G  A  L+ E
Sbjct: 210 IGGEPGAEAHGGYTFCGLAAMILINE 235

Length = 439

>gnl|CDD|239220 cd02890, PTase, Protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

 Score = 41.0 bits (97), Expect = 2e-04
 Identities = 22/70 (31%), Positives = 33/70 (47%), Gaps = 8/70 (11%)

Query: 158 ANKPSDTCYAFWIGSVLRMLGGYNL-IDKEALRGFLLTCQ-SQYGGFGKCPGDLPDLYHS 215
           A++       +WI S L +LG      +K+ +  F+ +CQ ++ GGFG  PG  P   H 
Sbjct: 24  ASRLW---LLYWILSSLDLLGEDLDDENKDEIIDFIYSCQVNEDGGFGGGPGQDP---HL 77

Query: 216 FYGYTAFSLL 225
              Y A   L
Sbjct: 78  ASTYAAVLSL 87

The protein prenyltransferase family of lipid-modifying enzymes includes protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I and GGTase-II). They catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between the C1 atom of farnesyl (15-carbon by FTase) or geranylgeranyl (20-carbon by GGTase-I, II) isoprenoid lipids and cysteine residues at or near the C-terminus of protein acceptors. FTase and GGTase-I prenylate the cysteine in the terminal sequence, "CAAX"; and GGTase-II prenylates both cysteines in the "CC" (or "CXC") terminal sequence. These enzymes are heterodimeric with both alpha and beta subunits required for catalytic activity. In contrast to other prenyltransferases, GGTase-II does not recognize its protein acceptor directly but requires Rab to complex with REP (Rab escort protein) before prenylation can occur. These enzymes are found exclusively in eukaryotes. Length = 286

>gnl|CDD|224603 COG1689, COG1689, Uncharacterized protein conserved in archaea [Function unknown]

 Score = 37.5 bits (87), Expect = 0.003
 Identities = 19/99 (19%), Positives = 29/99 (29%), Gaps = 7/99 (7%)

Query: 143 WCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGF 202
             ++     G          +T   +     L   G      KE +R F L C   +GGF
Sbjct: 147 KVIEFVREFGIGDAYGVTHPNTTMTYQALYTLGSKG-----PKEEVRHFELCCGD-WGGF 200

Query: 203 GKCPGDLPD-LYHSFYGYTAFSLLEEPGLNPLCAELGMT 240
            + P   P  +  +FY      LL              +
Sbjct: 201 TEVPNSYPPYIEPTFYALRGLELLGGKYCISDHIRFIRS 239

Length = 274

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	247
KOG0366	329	consensus Protein geranylgeranyltransferase type I	100.0
PLN03201	316	RAB geranylgeranyl transferase beta-subunit; Provi	100.0
COG5029	342	CAL1 Prenyltransferase, beta subunit [Posttranslat	100.0
KOG0367	347	consensus Protein geranylgeranyltransferase Type I	100.0
cd02895	307	GGTase-I Geranylgeranyltransferase types I (GGTase	100.0
PLN02710	439	farnesyltranstransferase subunit beta	100.0
cd02894	287	GGTase-II Geranylgeranyltransferase type II (GGTas	100.0
cd02893	299	FTase Protein farnesyltransferase (FTase)_like pro	100.0
PLN02710	439	farnesyltranstransferase subunit beta	100.0
cd02895	307	GGTase-I Geranylgeranyltransferase types I (GGTase	100.0
cd02893	299	FTase Protein farnesyltransferase (FTase)_like pro	100.0
cd02894	287	GGTase-II Geranylgeranyltransferase type II (GGTas	100.0
PLN03201	316	RAB geranylgeranyl transferase beta-subunit; Provi	100.0
cd02890	286	PTase Protein prenyltransferase (PTase) domain, be	100.0
cd02890	286	PTase Protein prenyltransferase (PTase) domain, be	100.0
KOG0365	423	consensus Beta subunit of farnesyltransferase [Pos	100.0
KOG0366	329	consensus Protein geranylgeranyltransferase type I	100.0
COG5029	342	CAL1 Prenyltransferase, beta subunit [Posttranslat	100.0
KOG0365	423	consensus Beta subunit of farnesyltransferase [Pos	100.0
KOG0367	347	consensus Protein geranylgeranyltransferase Type I	100.0
cd00688	300	ISOPREN_C2_like This group contains class II terpe	99.95
cd00688	300	ISOPREN_C2_like This group contains class II terpe	99.93
TIGR03463	634	osq_cycl 2,3-oxidosqualene cyclase. This model ide	99.89
TIGR01507	635	hopene_cyclase squalene-hopene cyclase. SHC is an	99.88
PLN03012	759	Camelliol C synthase	99.88
PLN02993	763	lupeol synthase	99.88
cd02892	634	SQCY_1 Squalene cyclase (SQCY) domain subgroup 1;	99.86
PF13249	113	Prenyltrans_2: Prenyltransferase-like; PDB: 1O6R_B	99.86
cd02889	348	SQCY Squalene cyclase (SQCY) domain; found in clas	99.85
TIGR01507	635	hopene_cyclase squalene-hopene cyclase. SHC is an	99.85
TIGR01787	621	squalene_cyclas squalene/oxidosqualene cyclases. T	99.84
PF13249	113	Prenyltrans_2: Prenyltransferase-like; PDB: 1O6R_B	99.84
TIGR03463	634	osq_cycl 2,3-oxidosqualene cyclase. This model ide	99.84
cd02892	634	SQCY_1 Squalene cyclase (SQCY) domain subgroup 1;	99.82
cd02889	348	SQCY Squalene cyclase (SQCY) domain; found in clas	99.82
TIGR01787	621	squalene_cyclas squalene/oxidosqualene cyclases. T	99.81
PLN03012	759	Camelliol C synthase	99.78
COG1689	274	Uncharacterized protein conserved in archaea [Func	99.77
PLN02993	763	lupeol synthase	99.73
cd02897	292	A2M_2 Proteins similar to alpha2-macroglobulin (al	99.61
KOG0497	760	consensus Oxidosqualene-lanosterol cyclase and rel	99.6
COG1689	274	Uncharacterized protein conserved in archaea [Func	99.6
cd02896	297	complement_C3_C4_C5 Proteins similar to C3, C4 and	99.51
) (2,3-epoxysqualene-cycloartenol cyclase) is a plant enzyme that catalyzes the cyclization of (S)-2,3-epoxysqualene to cycloartenol.; GO: 0003824 catalytic activity; PDB: 2IEJ_B 1LD7_B 1LD8_B 2H6G_B 1TN6_B 1S63_B 1MZC_B 2H6I_B 2H6F_B 1JCQ_B ...." target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF00432">PF00432	44	Prenyltrans: Prenyltransferase and squalene oxidas	99.44
KOG0497	760	consensus Oxidosqualene-lanosterol cyclase and rel	99.44
) (2,3-epoxysqualene-cycloartenol cyclase) is a plant enzyme that catalyzes the cyclization of (S)-2,3-epoxysqualene to cycloartenol.; GO: 0003824 catalytic activity; PDB: 2IEJ_B 1LD7_B 1LD8_B 2H6G_B 1TN6_B 1S63_B 1MZC_B 2H6I_B 2H6F_B 1JCQ_B ...." target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF00432">PF00432	44	Prenyltrans: Prenyltransferase and squalene oxidas	99.39
cd02896	297	complement_C3_C4_C5 Proteins similar to C3, C4 and	99.38
PF13243	109	Prenyltrans_1: Prenyltransferase-like; PDB: 3SDR_A	99.32
PF13243	109	Prenyltrans_1: Prenyltransferase-like; PDB: 3SDR_A	99.27
cd02891	282	A2M_like Proteins similar to alpha2-macroglobulin	99.13
cd02897	292	A2M_2 Proteins similar to alpha2-macroglobulin (al	99.09
cd02891	282	A2M_like Proteins similar to alpha2-macroglobulin	99.01
PF07678	246	A2M_comp: A-macroglobulin complement component; In	98.9
COG1657	517	SqhC Squalene cyclase [Lipid metabolism]	98.75
COG1657	517	SqhC Squalene cyclase [Lipid metabolism]	98.47
PF07678	246	A2M_comp: A-macroglobulin complement component; In	98.24
TIGR02474	290	pec_lyase pectate lyase, PelA/Pel-15E family. Memb	97.74
PLN02279	784	ent-kaur-16-ene synthase	96.98
PLN02592	800	ent-copalyl diphosphate synthase	96.96
TIGR02474	290	pec_lyase pectate lyase, PelA/Pel-15E family. Memb	96.94
KOG1366	1436	consensus Alpha-macroglobulin [Posttranslational m	95.27
PF01122	326	Cobalamin_bind: Eukaryotic cobalamin-binding prote	94.3
PF05817	636	Ribophorin_II: Oligosaccharyltransferase subunit R	94.24
PF09492	289	Pec_lyase: Pectic acid lyase; InterPro: IPR012669	93.48
PLN02592	800	ent-copalyl diphosphate synthase	91.68
PF05817	636	Ribophorin_II: Oligosaccharyltransferase subunit R	91.0
PF09492	289	Pec_lyase: Pectic acid lyase; InterPro: IPR012669	90.39
PLN02279	784	ent-kaur-16-ene synthase	87.28
KOG1366	1436	consensus Alpha-macroglobulin [Posttranslational m	84.62
PF01122	326	Cobalamin_bind: Eukaryotic cobalamin-binding prote	81.02

>KOG0366 consensus Protein geranylgeranyltransferase type II, beta subunit [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.4e-54  Score=359.91  Aligned_cols=227  Identities=37%  Similarity=0.727  Sum_probs=218.8

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHHHH
Q 025813            3 NGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAK   82 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~~~   82 (247)
                      ++||+..|.+|+|+|.+++ .++.+|+++...||...|+|||+|..-.| +|.|+|++|||++.|++|+..+.+++++++
T Consensus        91 hd~hll~TlsAvQiL~~yd-si~~~d~d~v~~yi~gLq~edGsF~gD~w-GEvDTRfs~~av~~L~lLg~ld~~nve~aV  168 (329)
T KOG0366|consen   91 HDPHLLYTLSAVQILALYD-SINVLDRDKVASYIKGLQQEDGSFSGDIW-GEVDTRFSYCAVACLALLGKLDTINVEKAV  168 (329)
T ss_pred             CChHHHHHHHHHHHHHHHc-ccccccHHHHHHHHHhhcCcCCcccCCcc-cccchhhhHHHHHHHHHHhhHHHhhHHHHH
Confidence            5799999999999999999 47788999999999999999999987666 899999999999999999998899999999


Q ss_pred             HHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCC
Q 025813           83 AYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPS  162 (247)
Q Consensus        83 ~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~  162 (247)
                      +|+++|-|-|||||..|+.|||.+..||++.+|+++|+.+           .+|++++-.||..+|.+.||.+|||.|.+
T Consensus       169 d~~~~CyN~DGGFG~~pGaESHagqifcCvgaLai~~~L~-----------~vd~d~lgwwlceRQ~~sGGLNGRpeKlp  237 (329)
T KOG0366|consen  169 DFVLSCYNFDGGFGCRPGAESHAGQIFCCVGALAITGKLH-----------LVDRDLLGWWLCERQLPSGGLNGRPEKLP  237 (329)
T ss_pred             HHHHhhcccCCCcCCCCCcccccceehhhHHHHHHccchh-----------hcCHHHHHHHHHhccCCCCCCCCCcccCc
Confidence            9999999999999999999999999999999999999987           78999999999999999999999999999


Q ss_pred             chhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCC-CCCCcCCCCCCCccHHHHHHHHHHHHhcCCCCCCCCCccccccc
Q 025813          163 DTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQS-QYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTE  241 (247)
Q Consensus       163 D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~-~~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~~~~~~~~~~~~  241 (247)
                      |+||+||++++|.++|++..+|.+++.+||+.||. +.|||++||+..+|++||++++++|+++|+++++++||.+|||+
T Consensus       238 DVCYSwWvlsSL~iigrl~wId~ekL~~FIl~cQd~~~GGfsDRpgd~~D~fHt~FgiAGLSLlg~~~l~~idP~fcmp~  317 (329)
T KOG0366|consen  238 DVCYSWWVLSSLAIIGRLHWIDREKLTKFILACQDEETGGFSDRPGDEVDIFHTLFGIAGLSLLGYPGLKPIDPIFCMPK  317 (329)
T ss_pred             chhhHHHHHhHHHHhhhhhhccHHHHHHHHHhcCCCCCCCcCCCCCCcccHHHHHHHHhhHhhhCCCCceecCCcccCcH
Confidence            99999999999999999999999999999999998 68999999999999999999999999999999999999999997


Q ss_pred             c
Q 025813          242 F  242 (247)
Q Consensus       242 ~  242 (247)
                      .
T Consensus       318 ~  318 (329)
T KOG0366|consen  318 E  318 (329)
T ss_pred             H
Confidence            4

>PLN03201 RAB geranylgeranyl transferase beta-subunit; Provisional

Probab=100.00  E-value=1.5e-53  Score=376.93  Aligned_cols=228  Identities=36%  Similarity=0.678  Sum_probs=214.5

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHHHH
Q 025813            3 NGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAK   82 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~~~   82 (247)
                      +++|+..||+|+++|.+++ .++.+|++++++||.++|++||||...+ +++.|++.+|||++++.+++..+.+++++++
T Consensus        81 ~~~h~~~Ty~al~~L~ll~-~~~~id~~~~~~~l~s~Q~~dGgF~~~~-~ge~D~r~ty~a~a~l~LL~~~~~i~~~~~~  158 (316)
T PLN03201         81 HDPHILYTLSAVQILALFD-RLDLLDADKVASYVAGLQNEDGSFSGDE-WGEIDTRFSYCALCCLSLLKRLDKINVEKAV  158 (316)
T ss_pred             CcccHHHHHHHHHHHHHhh-hhhhhhHHHHHHHHHHhcCCCCCccCCC-CCCccHHHHHHHHHHHHHhCccchhHHHHHH
Confidence            4689999999999999997 4677899999999999999999998644 4899999999999999999977778899999


Q ss_pred             HHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCC
Q 025813           83 AYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPS  162 (247)
Q Consensus        83 ~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~  162 (247)
                      +||++||++||||+..|+.|+|..+||||+++|.++|..+           .+|++++.+||.++|.++|||++||+|++
T Consensus       159 ~~i~scq~~dGGF~~~p~~esh~g~T~caiaaL~llg~~~-----------~~d~~~l~~wL~~rQ~~~GGf~grp~k~~  227 (316)
T PLN03201        159 DYIVSCKNFDGGFGCTPGGESHAGQIFCCVGALAITGSLH-----------HVDKDLLGWWLCERQVKSGGLNGRPEKLP  227 (316)
T ss_pred             HHHHHhcCCCCCcCCCCCCCCccceehHHHHHHHHcCccc-----------cCCHHHHHHHHHHhCCCCCCcCCCCCCCC
Confidence            9999999999999999999999999999999999999765           56889999999999999999999999999


Q ss_pred             chhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCC-CCCcCCCCCCCccHHHHHHHHHHHHhcCCCCCCCCCccccccc
Q 025813          163 DTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQ-YGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTE  241 (247)
Q Consensus       163 D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~-~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~~~~~~~~~~~~  241 (247)
                      |+||+||++++|.+|+....+|.+++.+||++||+. .|||+++|++.||++||||++++|+++++.++.++||.+|+|.
T Consensus       228 D~cys~w~~a~L~ll~~~~~~d~~~l~~~i~~~q~~~~GGf~~~p~~~~D~~ht~~~l~~lsl~~~~~l~~~~p~~~~~~  307 (316)
T PLN03201        228 DVCYSWWVLSSLIIIDRVHWIDKDKLAKFILDCQDDENGGISDRPDDAVDVFHTFFGVAGLSLLGYPGLKPIDPAYALPV  307 (316)
T ss_pred             chHHHHHHHHHHHHhccccccCHHHHHHHHHHHcCCCCCCcCCCcCCCCChhHHHHHHHHHHhcCCCCCCCCCCcccCCH
Confidence            999999999999999988889999999999999985 7999999999999999999999999999999999999999996


Q ss_pred             cc
Q 025813          242 FS  243 (247)
Q Consensus       242 ~~  243 (247)
                      -.
T Consensus       308 ~~  309 (316)
T PLN03201        308 DV  309 (316)
T ss_pred             HH
Confidence            43

>COG5029 CAL1 Prenyltransferase, beta subunit [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=8.6e-54  Score=363.87  Aligned_cols=227  Identities=39%  Similarity=0.699  Sum_probs=214.5

Q ss_pred             CCCcHHHHHHHHHHHHHhCC--CCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHH
Q 025813            3 NGSNLASTYCALAILKAVGY--NFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRER   80 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~--~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~   80 (247)
                      +.+|+.+||+||++|.+++.  -+..++|+.+..||.++|+|||+|..... +++|.+..|+|+.+++++|..+..+.+.
T Consensus       100 ~~~hL~sT~~Ai~~L~~~d~~~~~~~idr~~l~~fi~~lk~pdGsF~~~~~-gevDtr~~Y~al~ilsllg~~~~~~~e~  178 (342)
T COG5029         100 QDSHLASTVFAIQSLAMLDSLDVLSRIDRDSLASFISGLKNPDGSFRSDLE-GEVDTRFLYIALSILSLLGDLDKELFEG  178 (342)
T ss_pred             cchhHHHHHHHHHHHHHhccccccchhhHHHHHHHHHhccCCCCceecccC-CcchHHHHHHHHHHHHHHhhcchhhhHH
Confidence            57899999999999999983  35667888999999999999999987665 8999999999999999999888889999


Q ss_pred             HHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCC-HHHHHHHHHhcCCCCCccccccC
Q 025813           81 AKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIID-LPLLLSWCLQRQAADGGFQGRAN  159 (247)
Q Consensus        81 ~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~-~~~~~~~l~~~Q~~dGgf~~~~~  159 (247)
                      .++||++|||.|||||..|+.|+|.++|+||+++|+++++.+           .++ +++++.||.++|.+.|||+||++
T Consensus       179 ~vdyl~kCqnyeGGFg~~p~aEaHag~tFcalaalalL~~Ld-----------~ls~~E~l~~Wl~~RQ~ssgGl~GR~n  247 (342)
T COG5029         179 AVDYLKKCQNYEGGFGLCPYAEAHAGYTFCALAALALLGKLD-----------KLSDVEKLIRWLAERQLSSGGLNGRSN  247 (342)
T ss_pred             HHHHHHHhhccCCcccCCCchhhccchHHHHHHHHHHHhccc-----------ccchHHHHHHHHHHcccccCCcCCCcc
Confidence            999999999999999999999999999999999999999986           455 79999999999999999999999


Q ss_pred             CCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCC-CCCcCCCCCCCccHHHHHHHHHHHHhcCCCCCCCCCcccc
Q 025813          160 KPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQ-YGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELG  238 (247)
Q Consensus       160 ~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~-~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~~~~~~~~~  238 (247)
                      |.+|+||+||++++|++|+....+|.+++.+||+.||.+ .|||+++|+.++|++||++++++|++++..++.||||.+|
T Consensus       248 Kl~D~CYs~WvlsSl~il~~~~~in~e~L~~yiL~c~q~~sGGfsdrp~~~~D~yHt~~~lagLsl~~~k~l~~v~p~~c  327 (342)
T COG5029         248 KLVDTCYSFWVLSSLAILGKLDFINTEELTDYILDCQQETSGGFSDRPGEEPDVYHTCFGLAGLSLIEYKYLNPVDPIYC  327 (342)
T ss_pred             cCccchhhhhhcchHHhcchhhhcCHHHHHHHHHhhcccCCCCCCCCCcccchHHHHHHHHHHHHHhccCCCCCCCCccc
Confidence            999999999999999999998899999999999998876 8999999999999999999999999999999999999999


Q ss_pred             ccc
Q 025813          239 MTE  241 (247)
Q Consensus       239 ~~~  241 (247)
                      ||+
T Consensus       328 lP~  330 (342)
T COG5029         328 LPQ  330 (342)
T ss_pred             CCH
Confidence            996

>KOG0367 consensus Protein geranylgeranyltransferase Type I, beta subunit [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=6.9e-53  Score=355.16  Aligned_cols=235  Identities=52%  Similarity=0.941  Sum_probs=221.8

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHHH
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERA   81 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~~   81 (247)
                      +|.||++.||.++..|..+|.+++.+||+.+++++..+|+|||+|.+.+.|+++|+|++|||++++.||+.++.+|++++
T Consensus       100 ~~~~~lA~Ty~sl~~L~~lGddLsrlDrksil~~v~~~Q~~dGsF~~~~~GSe~DmRFvYcA~aI~ymLd~~s~iD~ek~  179 (347)
T KOG0367|consen  100 YNEPHLAMTYTSLACLVILGDDLSRLDRKSILRFVSACQRPDGSFVSINVGSESDMRFVYCAVAICYMLDFWSGIDKEKL  179 (347)
T ss_pred             CcchhHHHHHHHHHHHHHHcchHhhhhHHHHHHHHHHhcCCCCceeecCCCCchhhHHHHHHHHHHHHhccccccCHHHH
Confidence            68899999999999999999999999999999999999999999998888899999999999999999998889999999


Q ss_pred             HHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCC
Q 025813           82 KAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKP  161 (247)
Q Consensus        82 ~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~  161 (247)
                      +.||+++|+.||||+..|+.|+|..+|||||++|+++|+.-++-.     ++..+++++++|++++|..+|||+||++|+
T Consensus       180 ~~yI~~~q~YdgGfg~~pg~EsHgG~TfCAlAsL~L~~~l~~e~l-----~~~~~~erlirWli~RQ~~sgGfqGR~NKp  254 (347)
T KOG0367|consen  180 IGYIRSSQRYDGGFGQHPGGESHGGATFCALASLALMGKLIPEEL-----SNTSKVERLIRWLIQRQVSSGGFQGRTNKP  254 (347)
T ss_pred             HHHHHHhhccccccccCCCCCCCcchhHHHHHHHHHHhhhhhhhh-----ccccCHHHHHHHHHHHhhccCCcCCCCCCC
Confidence            999999999999999999999999999999999999999733222     124568999999999999999999999999


Q ss_pred             CchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCC-CCcCCCCCCCccHHHHHHHHHHHHhcCCCCCCCCCcccccc
Q 025813          162 SDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQY-GGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMT  240 (247)
Q Consensus       162 ~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~-GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~~~~~~~~~~~  240 (247)
                      +|+||+||+.++|.+|+....++.+....||.+||..- |||++-|+..||+.|||++++||++++++.+.||+|.+-|+
T Consensus       255 ~DTCYaFWigasLklL~~~~~~d~~~lr~fll~~Q~~~iGGFsK~P~~~pD~~HsylG~~alal~ee~~~~~v~p~l~~s  334 (347)
T KOG0367|consen  255 VDTCYAFWIGASLKLLDADWLIDKQVLRKFLLSTQDKLIGGFSKWPEEDPDLLHSYLGLAALALLEEKGLSPVCPSLNMS  334 (347)
T ss_pred             chhHHHHHHHHHHHHccchHhhhHHHHHHHHHHhhhhhcCcccCCCccCchHHHHHHHHHHHHHhcCCCCCCCCcccccc
Confidence            99999999999999999988899999999999999875 99999999999999999999999999999999999999887


Q ss_pred             c
Q 025813          241 E  241 (247)
Q Consensus       241 ~  241 (247)
                      .
T Consensus       335 ~  335 (347)
T KOG0367|consen  335 M  335 (347)
T ss_pred             H
Confidence            5

>cd02895 GGTase-I Geranylgeranyltransferase types I (GGTase-I)-like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

Probab=100.00  E-value=9.8e-52  Score=364.12  Aligned_cols=216  Identities=49%  Similarity=0.883  Sum_probs=199.2

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccC--CCCCcchHHHHHHHHHHHHhcCCC--ccc
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIH--FGAEKDLRFVYCAAAICFLLEDWS--GMD   77 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~--~~~~~d~~~ty~al~~l~ll~~~~--~~~   77 (247)
                      ++.+|+..||+|+++|.+|+.+.+.+|++++++||+++|++||||...+  .++++|++.||||++++.+|+..+  .++
T Consensus        87 ~~~~~l~~ty~Al~~L~lL~~~~~~idr~~i~~~l~~~q~~dGgF~~~~~~~~~e~d~r~ty~Av~~l~lL~~~~~~~~d  166 (307)
T cd02895          87 YDTGNLAMTYFALLSLLILGDDLSRVDRKAILNFLSKLQLPDGSFGSVLDSEGGENDMRFCYCAVAICYMLDDWSEEDID  166 (307)
T ss_pred             CCcccHHHHHHHHHHHHHhCCchhhhhHHHHHHHHHHhCCCCCCccCCcCCcCCCccHHHHHHHHHHHHHhCCCcccccc
Confidence            3689999999999999999976666899999999999999999998765  358999999999999999999765  578


Q ss_pred             HHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccc
Q 025813           78 RERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGR  157 (247)
Q Consensus        78 ~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~  157 (247)
                      ++++++||++||++||||+..|+.|+|+.+||||+++|.+++..+.        .+.++++++++||.++|+.+|||++|
T Consensus       167 ~~~li~~l~s~Q~~dGGF~~~~~~Esh~g~Tyca~asL~lL~~~~~--------~~~~~~~~l~~wL~~rQ~~~GGF~gr  238 (307)
T cd02895         167 KEKLIDYIKSSQSYDGGFGQGPGLESHGGSTFCAIASLSLLGKLEE--------LSEKFLERLKRWLVHRQVSGTGFNGR  238 (307)
T ss_pred             HHHHHHHHHHccCCCCCccCCCCCCccccHHHHHHHHHHHcCCccc--------cccccHHHHHHHHHHhcCCCCCcCCC
Confidence            9999999999999999999999999999999999999999998641        01468999999999999999999999


Q ss_pred             cCCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCC-CCCCcCCCCCCCccHHHHHHHHHHHHhc
Q 025813          158 ANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQS-QYGGFGKCPGDLPDLYHSFYGYTAFSLL  225 (247)
Q Consensus       158 ~~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~-~~GGf~~~p~~~~d~~~T~~al~~L~ll  225 (247)
                      |++++|+||+||++++|.+|+....+|.+++.+||++||+ .+|||+++|++.||++||||++++|+++
T Consensus       239 ~~k~~D~cysfw~~a~L~iL~~~~~id~~~l~~~l~~~q~~~~GGf~~~p~~~~D~~ht~~~la~Lsl~  307 (307)
T cd02895         239 PNKPADTCYSFWVGASLKLLDAFQLIDFEKNRNYLLSTQQSLVGGFAKNPDSHPDPLHSYLGLAALSLI  307 (307)
T ss_pred             CCCCCccchhhHHHHHHHHcCcccccCHHHHHHHHHHHcCCCCCCcCCCCCCCCChhHHHHHHHHHHhC
Confidence            9999999999999999999998888999999999999885 5899999999999999999999999875

GGTase-I s are a subgroup of the protein prenyltransferase family of lipid-modifying enzymes PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids (geranylgeranyl (20-carbon) in the case of GGTase-I ). GGTase-I prenylates the cysteine in the terminal sequence, "CAAX" when X is Leu or Phe. Substrates for GTTase-I include the gamma subunit of neural G-proteins and several Ras-related G-proteins. PTases are heterodimeric with both alpha and beta subunits r

>PLN02710 farnesyltranstransferase subunit beta

Probab=100.00  E-value=7.4e-51  Score=368.63  Aligned_cols=215  Identities=35%  Similarity=0.671  Sum_probs=198.0

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCC--CCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHH
Q 025813            2 HNGSNLASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRE   79 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~--~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~   79 (247)
                      .+.+|+..||+|+.+|.+||.+  ++.+|++++++||+++|++||||...+ ++++|++.||||++++.+|+..+..+.+
T Consensus       116 g~~~hl~~TY~Av~~L~iLg~~~~l~~Idr~~l~~fl~s~q~~dGgF~~~~-~gE~D~R~tYcAlail~LL~~l~~~~~e  194 (439)
T PLN02710        116 GQLPHLATTYAAVNTLVTIGGERALSSINREKLYTFLLRMKDPSGGFRMHD-GGEMDVRACYTAISVASLLNILDDELVK  194 (439)
T ss_pred             CCCccHHHHHHHHHHHHHcCCchhhcccCHHHHHHHHHHcCCCCCCcccCC-CCCCCcCCcHHHHHHHHHhCcCchhhHH
Confidence            3679999999999999999963  677899999999999999999998754 5899999999999999999987777899


Q ss_pred             HHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccC
Q 025813           80 RAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRAN  159 (247)
Q Consensus        80 ~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~  159 (247)
                      ++++||++||+.||||++.|+.|+|..+||||+++|.++|..+           .+|.+++++||.++|..+|||+|||+
T Consensus       195 ~~~~~I~scQ~~dGGF~g~P~~EaH~gyTfcavAsL~LLg~l~-----------~id~~~l~~WL~~rQ~~~GGF~GR~n  263 (439)
T PLN02710        195 GVGDYILSCQTYEGGIGGEPGAEAHGGYTFCGLAAMILINEVD-----------RLDLPSLINWVVFRQGVEGGFQGRTN  263 (439)
T ss_pred             HHHHHHHHhCCCCCCCCCCCCCCCchHHHHHHHHHHHHcCCcc-----------ccCHHHHHHHHHHhcCcCCCcCCCCC
Confidence            9999999999999999999999999999999999999999875           67899999999999999999999999


Q ss_pred             CCCchhhHHHHHHHHHHhcCCC----------------------------------------------------------
Q 025813          160 KPSDTCYAFWIGSVLRMLGGYN----------------------------------------------------------  181 (247)
Q Consensus       160 ~~~D~~~~y~a~~~L~lL~~~~----------------------------------------------------------  181 (247)
                      |.+|+||+||++++|+||++..                                                          
T Consensus       264 Kl~D~CYSfW~~a~L~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  343 (439)
T PLN02710        264 KLVDGCYSFWQGGVFALLQQLVTIVDEQLQTGGSSIMFEELEDDACETSSSGKDDAGDTDSADYSKVGFDFIKASNQQMG  343 (439)
T ss_pred             CCCCchhhHHHHHHHHHHHHHhhccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9999999999999999998531                                                          


Q ss_pred             -CCCHHHHHHHHHhcC-CCCCCcCCCCCCCccHHHHHHHHHHHHhcCCC
Q 025813          182 -LIDKEALRGFLLTCQ-SQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP  228 (247)
Q Consensus       182 -~~~~~~~~~~L~~~Q-~~~GGf~~~p~~~~d~~~T~~al~~L~ll~~~  228 (247)
                       .+|.+++.+||+.|| ..+|||+++|++.+|.+||+|++++|+++++.
T Consensus       344 ~~~d~~aL~~yIL~c~q~~~GG~~DkPgk~~D~YHT~y~LsGLSl~q~~  392 (439)
T PLN02710        344 PLFHSIALQQYILLCSQVLDGGLRDKPGKSRDYYHTCYCLSGLSVAQYS  392 (439)
T ss_pred             cccCHHHHHHHHHHHcCCCCCCcCCCCCCCCchhHHHHHHHHHHHHhhc
Confidence             256778999998765 56899999999999999999999999999885

>cd02894 GGTase-II Geranylgeranyltransferase type II (GGTase-II)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

Probab=100.00  E-value=1e-48  Score=342.55  Aligned_cols=210  Identities=38%  Similarity=0.765  Sum_probs=196.2

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCCCCC--HHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHH
Q 025813            3 NGSNLASTYCALAILKAVGYNFANID--SKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRER   80 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~~~~~~~--~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~   80 (247)
                      +++|+..||+|+.+|.+++. ++.++  ++++++||+++|++||||...+ ++++|++.||+|++++.+++..+.+++++
T Consensus        75 ~~~~~~~t~~a~~~L~ll~~-~~~i~~~~~~~~~~i~~~q~~dGgf~~~~-~~e~d~~~ty~a~~~l~ll~~~~~i~~~~  152 (287)
T cd02894          75 HDPHILSTLSAIQILALYDL-LNKIDENKEKIAKFIKGLQNEDGSFSGDK-WGEVDTRFSYCAVLCLTLLGKLDLIDVDK  152 (287)
T ss_pred             CcchHHHHHHHHHHHHHhhh-hhhccHHHHHHHHHHHHHcCCCCCeecCC-CCCchHHHHHHHHHHHHHhCCcchhhHHH
Confidence            46899999999999999973 45567  8999999999999999998755 48999999999999999999777789999


Q ss_pred             HHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCC
Q 025813           81 AKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANK  160 (247)
Q Consensus        81 ~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~  160 (247)
                      +++||++||++||||+..|+.++|+.+||||+++|.++|..+           .++++++++||.++|.++|||+++|++
T Consensus       153 ~~~~l~~~q~~dGGF~~~~~~es~~~~t~cavasL~llg~~~-----------~~~~~~~~~~L~~~q~~~GGf~gr~~k  221 (287)
T cd02894         153 AVDYLLSCYNFDGGFGCRPGAESHAGQIFCCVGALAILGSLD-----------LIDRDRLGWWLCERQLPSGGLNGRPEK  221 (287)
T ss_pred             HHHHHHHcCCCCCCcCCCCCCCCchhHHHHHHHHHHHcCccc-----------ccCHHHHHHHHHHhCCCCCCcCCCCCC
Confidence            999999999999999999999999999999999999999875           468999999999999999999999999


Q ss_pred             CCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcC-CCCCCcCCCCCCCccHHHHHHHHHHHHhc
Q 025813          161 PSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQ-SQYGGFGKCPGDLPDLYHSFYGYTAFSLL  225 (247)
Q Consensus       161 ~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q-~~~GGf~~~p~~~~d~~~T~~al~~L~ll  225 (247)
                      ++|+||+||++++|++|+....+|.+++.+||++|| ..+|||+++|++.+|++||+|++++|+++
T Consensus       222 ~~D~~ysf~~~a~l~~l~~~~~~~~~~l~~~l~~~q~~~~GGf~~~p~~~~D~~ht~~~l~~Lsl~  287 (287)
T cd02894         222 LPDVCYSWWVLSSLKIIGRLHWINKNKLKNFILACQDEEDGGFADRPGNMVDVFHTFFGLAGLSLL  287 (287)
T ss_pred             CCchhHhhHHHHHHHHhccccccCHHHHHHHHHHhcCCCCCCcCCCCCCCCChhHHHHHHHHHHhC
Confidence            999999999999999999877889999999999999 47899999999999999999999999975

GGTase-IIs are a subgroup of the protein prenyltransferase family of lipid-modifying enzymes. PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids (geranylgeranyl (20-carbon) in the case of GGTase-II ). GGTase-II catalyzes alkylation of both cysteine residues in Rab proteins containing carboxy-terminal "CC", "CXCX" or "CXC" motifs. PTases are heterodimeric with both alpha and beta subunits required for catalytic activity. In contrast to other prenyltr

>cd02893 FTase Protein farnesyltransferase (FTase)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

Probab=100.00  E-value=2.7e-48  Score=341.27  Aligned_cols=211  Identities=42%  Similarity=0.774  Sum_probs=195.0

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCC--CCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHH
Q 025813            2 HNGSNLASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRE   79 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~--~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~   79 (247)
                      ++++|+..||+|+++|.+++.+  ++.++++++++||+++|++||||...+ ++++|++.||||++++.+|+..+..+++
T Consensus        71 ~~~~h~~~Ty~A~~~L~ll~~~~~~~~id~~~~~~~l~~~q~~dGgf~~~~-~~e~D~r~tycava~~~lL~~~~~~~~~  149 (299)
T cd02893          71 GQLPHLATTYAAVNALAIIGTEEAYDVIDREALYKFLLSLKQPDGSFRMHV-GGEVDVRGTYCAISVASLLNILTDELFE  149 (299)
T ss_pred             CCCccHHHHHHHHHHHHHhCCchhhhHhhHHHHHHHHHHhcCCCCCeeCCC-CCCchHhHHHHHHHHHHHhCCCchhhHH
Confidence            4689999999999999999963  566899999999999999999999765 5899999999999999999987777899


Q ss_pred             HHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCC-CCcccccc
Q 025813           80 RAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAA-DGGFQGRA  158 (247)
Q Consensus        80 ~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~-dGgf~~~~  158 (247)
                      ++++||++||++||||+..|+.|+|..+||||+++|.+++..+           .+|++++++||.++|.+ +|||++||
T Consensus       150 ~~~~~l~~cQ~~dGGF~~~p~~e~h~~yTfcavasL~llg~~~-----------~~d~~~l~~wl~~~q~~~~GGf~grp  218 (299)
T cd02893         150 GVAEYILSCQTYEGGFGGVPGNEAHGGYTFCALAALAILGKPD-----------KLDLESLLRWLVARQMRFEGGFQGRT  218 (299)
T ss_pred             HHHHHHHHcCCCCCCcCCCCCCCCCccHHHHHHHHHHHcCCcc-----------ccCHHHHHHHHHhhcCCCCCCcCCCC
Confidence            9999999999999999999999999999999999999999865           57899999999999988 99999999


Q ss_pred             CCCCchhhHHHHHHHHHHhcCC-------------CCCCHHHHHHHHHhc-CCCCCCcCCCCCCCccHHHHHHHHHHHHh
Q 025813          159 NKPSDTCYAFWIGSVLRMLGGY-------------NLIDKEALRGFLLTC-QSQYGGFGKCPGDLPDLYHSFYGYTAFSL  224 (247)
Q Consensus       159 ~~~~D~~~~y~a~~~L~lL~~~-------------~~~~~~~~~~~L~~~-Q~~~GGf~~~p~~~~d~~~T~~al~~L~l  224 (247)
                      +|++|+||+||++++|+++++.             ..+|.+++.+||+.| |+.+|||+++|++.+|++||++++++|++
T Consensus       219 ~k~~D~cys~w~~a~l~ll~~~~~~~~~~~~~~~~~~~~~~~l~~~il~~~q~~~GGf~~~p~~~~D~yHT~~~l~~Lsl  298 (299)
T cd02893         219 NKLVDGCYSFWVGGSLPILEAILNAEKKFDDSAEGTLFDQEALQEYILLCCQSEEGGLRDKPGKPRDFYHTCYALSGLSI  298 (299)
T ss_pred             CCCCccHHHHHHHHHHHHHHHHhcccccccccccccccCHHHHHHHHHHhcCCCCCCcCCCCCCCCCchhHHHHHHHHhc
Confidence            9999999999999999999863             357899999999965 56789999999999999999999999987

FTases are a subgroup of PTase family of lipid-modifying enzymes. PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. These proteins are heterodimers of alpha and beta subunits. Both subunits are required for catalytic activity. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids. Ftase attaches a 15-carbon farnesyl group to the cysteine within the C-terminal CaaX motif of substrate proteins when X is Ala, Met, Ser, Cys or Gln. Protein farnesylation has been shown to play critical roles in a variety of cellular pro

>PLN02710 farnesyltranstransferase subunit beta

Probab=100.00  E-value=1.5e-48  Score=353.52  Aligned_cols=216  Identities=19%  Similarity=0.272  Sum_probs=202.1

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcC---CCcccH
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLED---WSGMDR   78 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~---~~~~~~   78 (247)
                      .|.++++.|||++.+|.+||.+++..+++++++||++||++||||...+ +.++|+..||+|+.+|.+|+.   ++.+++
T Consensus        67 lDa~r~~~~Yw~L~sL~lLg~~l~~~~~~~ii~~l~~cQ~~dGGFgg~p-g~~~hl~~TY~Av~~L~iLg~~~~l~~Idr  145 (439)
T PLN02710         67 LDANRPWLCYWILHSIALLGESLDDELENDTIDFLSRCQDPNGGYGGGP-GQLPHLATTYAAVNTLVTIGGERALSSINR  145 (439)
T ss_pred             hhhhhHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHhcCCCcCCCCCC-CCCccHHHHHHHHHHHHHcCCchhhcccCH
Confidence            5778999999999999999976666678999999999999999999765 578999999999999999985   356799


Q ss_pred             HHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCcccccc
Q 025813           79 ERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRA  158 (247)
Q Consensus        79 ~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~  158 (247)
                      +++++||++||++||||+..++.|+|++.||||++++.+++..+           ..+.+++++||.+||+.||||+++|
T Consensus       146 ~~l~~fl~s~q~~dGgF~~~~~gE~D~R~tYcAlail~LL~~l~-----------~~~~e~~~~~I~scQ~~dGGF~g~P  214 (439)
T PLN02710        146 EKLYTFLLRMKDPSGGFRMHDGGEMDVRACYTAISVASLLNILD-----------DELVKGVGDYILSCQTYEGGIGGEP  214 (439)
T ss_pred             HHHHHHHHHcCCCCCCcccCCCCCCCcCCcHHHHHHHHHhCcCc-----------hhhHHHHHHHHHHhCCCCCCCCCCC
Confidence            99999999999999999999999999999999999999998764           3578999999999999999999999


Q ss_pred             CCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHHhcCCCC
Q 025813          159 NKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPG  229 (247)
Q Consensus       159 ~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~  229 (247)
                      ++|+|++||||++++|.+|+..+.+|.+++++||.+||+.+|||++||+|.+|.||+||++++|+++++..
T Consensus       215 ~~EaH~gyTfcavAsL~LLg~l~~id~~~l~~WL~~rQ~~~GGF~GR~nKl~D~CYSfW~~a~L~lL~~~~  285 (439)
T PLN02710        215 GAEAHGGYTFCGLAAMILINEVDRLDLPSLINWVVFRQGVEGGFQGRTNKLVDGCYSFWQGGVFALLQQLV  285 (439)
T ss_pred             CCCCchHHHHHHHHHHHHcCCccccCHHHHHHHHHHhcCcCCCcCCCCCCCCCchhhHHHHHHHHHHHHHh
Confidence            99999999999999999999888899999999999999999999999999999999999999999999863

>cd02895 GGTase-I Geranylgeranyltransferase types I (GGTase-I)-like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

Probab=100.00  E-value=1.9e-47  Score=336.93  Aligned_cols=223  Identities=25%  Similarity=0.273  Sum_probs=201.3

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCC--CCCCHHHHHHHHHhcc----cCCCCccccCCC---------CCcchHHHHHHHHH
Q 025813            2 HNGSNLASTYCALAILKAVGYNF--ANIDSKSILTSMRNLQ----QHDGSFMPIHFG---------AEKDLRFVYCAAAI   66 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~--~~~~~~~~i~~l~~~q----~~dGgf~~~~~~---------~~~d~~~ty~al~~   66 (247)
                      +|.++++.|||++.+|.+||.+.  ...+++++++||+++|    ++||||...+..         +++|++.||+|+.+
T Consensus        22 ~d~~r~~~~yf~l~~L~lL~~~~~~~~~~r~~~i~~i~~~q~~~~~~~GgF~~~~~~~~~~~~~~~~~~~l~~ty~Al~~  101 (307)
T cd02895          22 LDTNRLTIAFFALSGLDLLGALDSILVEEKDDIIEWIYSLQVLSNLPRGGFRGSSTLGLPGTASKYDTGNLAMTYFALLS  101 (307)
T ss_pred             hhhhhHHHHHHHHHHHHHhCCCccccHHHHHHHHHHHHHHhcccCCCCCCCCCCCCCccccccccCCcccHHHHHHHHHH
Confidence            57899999999999999999755  4578899999999999    999999875521         47999999999999


Q ss_pred             HHHhcCC-CcccHHHHHHHHHhcCCCCCCccCCC---CCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHH
Q 025813           67 CFLLEDW-SGMDRERAKAYILNCQSYDGGFGLTP---GSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLS  142 (247)
Q Consensus        67 l~ll~~~-~~~~~~~~~~~l~~~Q~~dGGFg~~p---~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~  142 (247)
                      |.+|+.. +.++++++++||++||++||||+..+   +.|+|++.|||||++|.+++..+++         .++++++++
T Consensus       102 L~lL~~~~~~idr~~i~~~l~~~q~~dGgF~~~~~~~~~e~d~r~ty~Av~~l~lL~~~~~~---------~~d~~~li~  172 (307)
T cd02895         102 LLILGDDLSRVDRKAILNFLSKLQLPDGSFGSVLDSEGGENDMRFCYCAVAICYMLDDWSEE---------DIDKEKLID  172 (307)
T ss_pred             HHHhCCchhhhhHHHHHHHHHHhCCCCCCccCCcCCcCCCccHHHHHHHHHHHHHhCCCccc---------cccHHHHHH
Confidence            9999853 35689999999999999999999997   8899999999999999999976421         368999999


Q ss_pred             HHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCCC---CCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHH
Q 025813          143 WCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN---LIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGY  219 (247)
Q Consensus       143 ~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~~---~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al  219 (247)
                      ||.++|++||||...|+.|+|++||||++++|.+|+...   .++.+++++||.+||+.+|||+++|++++|.+||||++
T Consensus       173 ~l~s~Q~~dGGF~~~~~~Esh~g~Tyca~asL~lL~~~~~~~~~~~~~l~~wL~~rQ~~~GGF~gr~~k~~D~cysfw~~  252 (307)
T cd02895         173 YIKSSQSYDGGFGQGPGLESHGGSTFCAIASLSLLGKLEELSEKFLERLKRWLVHRQVSGTGFNGRPNKPADTCYSFWVG  252 (307)
T ss_pred             HHHHccCCCCCccCCCCCCccccHHHHHHHHHHHcCCccccccccHHHHHHHHHHhcCCCCCcCCCCCCCCccchhhHHH
Confidence            999999999999999999999999999999999999864   68899999999999999999999999999999999999


Q ss_pred             HHHHhcCCCCCCCC
Q 025813          220 TAFSLLEEPGLNPL  233 (247)
Q Consensus       220 ~~L~ll~~~~~~~~  233 (247)
                      ++|.++++....+.
T Consensus       253 a~L~iL~~~~~id~  266 (307)
T cd02895         253 ASLKLLDAFQLIDF  266 (307)
T ss_pred             HHHHHcCcccccCH
Confidence            99999998755443

GGTase-I s are a subgroup of the protein prenyltransferase family of lipid-modifying enzymes PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids (geranylgeranyl (20-carbon) in the case of GGTase-I ). GGTase-I prenylates the cysteine in the terminal sequence, "CAAX" when X is Leu or Phe. Substrates for GTTase-I include the gamma subunit of neural G-proteins and several Ras-related G-proteins. PTases are heterodimeric with both alpha and beta subunits r

>cd02893 FTase Protein farnesyltransferase (FTase)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

Probab=100.00  E-value=4.8e-47  Score=333.34  Aligned_cols=216  Identities=25%  Similarity=0.347  Sum_probs=200.1

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcC---CCcccH
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLED---WSGMDR   78 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~---~~~~~~   78 (247)
                      .|.++++.|||++.+|.+|+..+...+++++++||+++|++||||...+ +.++|+..||+|+.+|.+++.   .+.+++
T Consensus        22 ~d~~~~~~~y~~l~~l~lL~~~~~~~~~~~~i~~i~~~q~~~GgF~~~~-~~~~h~~~Ty~A~~~L~ll~~~~~~~~id~  100 (299)
T cd02893          22 LDASRPWLLYWILHSLELLGEELDQSYADDVISFLRRCQNPSGGFGGGP-GQLPHLATTYAAVNALAIIGTEEAYDVIDR  100 (299)
T ss_pred             cccccHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHhcCCCCCCCCCC-CCCccHHHHHHHHHHHHHhCCchhhhHhhH
Confidence            4678999999999999999975556678999999999999999999755 478999999999999999986   345788


Q ss_pred             HHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCcccccc
Q 025813           79 ERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRA  158 (247)
Q Consensus        79 ~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~  158 (247)
                      +++++||++||++||||+..|+.|+|++.||||++++.+++..+           ..+++++++||.+||++||||+++|
T Consensus       101 ~~~~~~l~~~q~~dGgf~~~~~~e~D~r~tycava~~~lL~~~~-----------~~~~~~~~~~l~~cQ~~dGGF~~~p  169 (299)
T cd02893         101 EALYKFLLSLKQPDGSFRMHVGGEVDVRGTYCAISVASLLNILT-----------DELFEGVAEYILSCQTYEGGFGGVP  169 (299)
T ss_pred             HHHHHHHHHhcCCCCCeeCCCCCCchHhHHHHHHHHHHHhCCCc-----------hhhHHHHHHHHHHcCCCCCCcCCCC
Confidence            99999999999999999999999999999999999999998764           3568999999999999999999999


Q ss_pred             CCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCC-CCCcCCCCCCCccHHHHHHHHHHHHhcCCCC
Q 025813          159 NKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQ-YGGFGKCPGDLPDLYHSFYGYTAFSLLEEPG  229 (247)
Q Consensus       159 ~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~-~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~  229 (247)
                      ++++|++||||++++|.+|+..+.++.+++++||.+||.. +|||+++|++.+|+|||||++++|.++++..
T Consensus       170 ~~e~h~~yTfcavasL~llg~~~~~d~~~l~~wl~~~q~~~~GGf~grp~k~~D~cys~w~~a~l~ll~~~~  241 (299)
T cd02893         170 GNEAHGGYTFCALAALAILGKPDKLDLESLLRWLVARQMRFEGGFQGRTNKLVDGCYSFWVGGSLPILEAIL  241 (299)
T ss_pred             CCCCCccHHHHHHHHHHHcCCccccCHHHHHHHHHhhcCCCCCCcCCCCCCCCccHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999988788999999999999988 9999999999999999999999999998864

FTases are a subgroup of PTase family of lipid-modifying enzymes. PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. These proteins are heterodimers of alpha and beta subunits. Both subunits are required for catalytic activity. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids. Ftase attaches a 15-carbon farnesyl group to the cysteine within the C-terminal CaaX motif of substrate proteins when X is Ala, Met, Ser, Cys or Gln. Protein farnesylation has been shown to play critical roles in a variety of cellular pro

>cd02894 GGTase-II Geranylgeranyltransferase type II (GGTase-II)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

Probab=100.00  E-value=6.9e-47  Score=331.05  Aligned_cols=216  Identities=25%  Similarity=0.401  Sum_probs=199.8

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcc-cCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCccc--H
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQ-QHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMD--R   78 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q-~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~--~   78 (247)
                      +|.++++.|||++.+|.+||. .+.++++++++||+++| +++|+|...+ +.++++..||+|+.++.+++..+.++  +
T Consensus        25 ~~~~r~~~~y~~l~~l~lL~~-~~~~~~~~~i~fl~~~q~~~~GgF~~~~-~~~~~~~~t~~a~~~L~ll~~~~~i~~~~  102 (287)
T cd02894          25 TEHLRMSGIYWGLTALDLLGQ-LERLNREEIIEFVKSCQDNEDGGFGGSP-GHDPHILSTLSAIQILALYDLLNKIDENK  102 (287)
T ss_pred             HHhhHHHHHHHHHHHHHHhCC-CchhhHHHHHHHHHHHhcCCCCCCCCCC-CCcchHHHHHHHHHHHHHhhhhhhccHHH
Confidence            567899999999999999995 55678999999999999 7899999765 46789999999999999997655566  8


Q ss_pred             HHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCcccccc
Q 025813           79 ERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRA  158 (247)
Q Consensus        79 ~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~  158 (247)
                      +++++||++||++||||+..|+.++|+.+||+|+++|.+++..+           .++++++++||.++|++||||++++
T Consensus       103 ~~~~~~i~~~q~~dGgf~~~~~~e~d~~~ty~a~~~l~ll~~~~-----------~i~~~~~~~~l~~~q~~dGGF~~~~  171 (287)
T cd02894         103 EKIAKFIKGLQNEDGSFSGDKWGEVDTRFSYCAVLCLTLLGKLD-----------LIDVDKAVDYLLSCYNFDGGFGCRP  171 (287)
T ss_pred             HHHHHHHHHHcCCCCCeecCCCCCchHHHHHHHHHHHHHhCCcc-----------hhhHHHHHHHHHHcCCCCCCcCCCC
Confidence            99999999999999999999999999999999999999998654           5689999999999999999999999


Q ss_pred             CCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHHhcCCCCC
Q 025813          159 NKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL  230 (247)
Q Consensus       159 ~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~  230 (247)
                      ++++|++||||++++|.+|+..+.++++++++||.+||+.+|||+++|++++|++||||++++|.+++....
T Consensus       172 ~~es~~~~t~cavasL~llg~~~~~~~~~~~~~L~~~q~~~GGf~gr~~k~~D~~ysf~~~a~l~~l~~~~~  243 (287)
T cd02894         172 GAESHAGQIFCCVGALAILGSLDLIDRDRLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVLSSLKIIGRLHW  243 (287)
T ss_pred             CCCCchhHHHHHHHHHHHcCcccccCHHHHHHHHHHhCCCCCCcCCCCCCCCchhHhhHHHHHHHHhccccc
Confidence            999999999999999999998878899999999999999999999999999999999999999999998743

GGTase-IIs are a subgroup of the protein prenyltransferase family of lipid-modifying enzymes. PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids (geranylgeranyl (20-carbon) in the case of GGTase-II ). GGTase-II catalyzes alkylation of both cysteine residues in Rab proteins containing carboxy-terminal "CC", "CXCX" or "CXC" motifs. PTases are heterodimeric with both alpha and beta subunits required for catalytic activity. In contrast to other prenyltr

>PLN03201 RAB geranylgeranyl transferase beta-subunit; Provisional

Probab=100.00  E-value=8.9e-47  Score=333.70  Aligned_cols=215  Identities=21%  Similarity=0.368  Sum_probs=200.6

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHHHH
Q 025813            3 NGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAK   82 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~~~   82 (247)
                      +...++.+||++.+|.+|+. .+.++++++++||.+||++||||...+ +.++|+..||+|+.+|.+++..+.+++++++
T Consensus        33 ~~~r~~~~y~~l~~L~lL~~-~~~~~~~~~i~~l~~cq~~~GGF~~~~-~~~~h~~~Ty~al~~L~ll~~~~~id~~~~~  110 (316)
T PLN03201         33 EHLRMNGAYWGLTALDLLGK-LDDVDRDEVVSWVMRCQHESGGFGGNT-GHDPHILYTLSAVQILALFDRLDLLDADKVA  110 (316)
T ss_pred             ccchHHHHHHHHHHHHHhCC-CccccHHHHHHHHHHhcCCCCCcCCCC-CCcccHHHHHHHHHHHHHhhhhhhhhHHHHH
Confidence            56788899999999999995 566789999999999999999999765 4678999999999999999877778899999


Q ss_pred             HHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCC
Q 025813           83 AYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPS  162 (247)
Q Consensus        83 ~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~  162 (247)
                      +||.++|++||||+..++.|+|++.||||+++|.+++..+           .++++++++||.+||++||||+++|++|+
T Consensus       111 ~~l~s~Q~~dGgF~~~~~ge~D~r~ty~a~a~l~LL~~~~-----------~i~~~~~~~~i~scq~~dGGF~~~p~~es  179 (316)
T PLN03201        111 SYVAGLQNEDGSFSGDEWGEIDTRFSYCALCCLSLLKRLD-----------KINVEKAVDYIVSCKNFDGGFGCTPGGES  179 (316)
T ss_pred             HHHHHhcCCCCCccCCCCCCccHHHHHHHHHHHHHhCccc-----------hhHHHHHHHHHHHhcCCCCCcCCCCCCCC
Confidence            9999999999999999999999999999999999998754           46789999999999999999999999999


Q ss_pred             chhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHHhcCCCCC
Q 025813          163 DTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL  230 (247)
Q Consensus       163 D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~  230 (247)
                      |++||||++++|.+++..+.+|.+++++||.+||..+|||+++|++.+|.|||||++++|.++++...
T Consensus       180 h~g~T~caiaaL~llg~~~~~d~~~l~~wL~~rQ~~~GGf~grp~k~~D~cys~w~~a~L~ll~~~~~  247 (316)
T PLN03201        180 HAGQIFCCVGALAITGSLHHVDKDLLGWWLCERQVKSGGLNGRPEKLPDVCYSWWVLSSLIIIDRVHW  247 (316)
T ss_pred             ccceehHHHHHHHHcCccccCCHHHHHHHHHHhCCCCCCcCCCCCCCCchHHHHHHHHHHHHhccccc
Confidence            99999999999999998888899999999999999999999999999999999999999999998754

>cd02890 PTase Protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

Probab=100.00  E-value=5.9e-46  Score=324.95  Aligned_cols=212  Identities=50%  Similarity=0.907  Sum_probs=197.0

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCC-CCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHH
Q 025813            2 HNGSNLASTYCALAILKAVGYN-FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRER   80 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~-~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~   80 (247)
                      .+++++..||+|+.+|.+++.+ .+.++++++++||+++|++||||...+ ++++|++.||+++.++.+++.....++++
T Consensus        72 ~~~~~~~~T~~al~~l~llg~~~~~~~~~~~~~~~l~~~q~~dGgf~~~~-~~~~d~~~ty~al~~l~ll~~~~~~~~~~  150 (286)
T cd02890          72 GQDPHLASTYAAVLSLAILGDDALSRIDREKIYKFLSSLQNPDGSFRGDL-GGEVDTRFVYCALSILSLLNILTDIDKEK  150 (286)
T ss_pred             CCCccHHHHHHHHHHHHHcCccccchhhHHHHHHHHHHhcCCCCCcccCC-CCCchHHHHHHHHHHHHHhCCchhhhHHH
Confidence            3689999999999999999964 466789999999999999999998655 48899999999999999999766678999


Q ss_pred             HHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCC-ccccccC
Q 025813           81 AKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADG-GFQGRAN  159 (247)
Q Consensus        81 ~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dG-gf~~~~~  159 (247)
                      +++||++||++||||+..|+.++|+..||||+++|.++|..+           .++++++++||.++|+++| ||.++++
T Consensus       151 ~~~~l~~~Q~~dGGf~~~~~~es~~~~t~~av~sL~~l~~~~-----------~~~~~~~~~~L~~~q~~~ggGf~g~~~  219 (286)
T cd02890         151 LIDYILSCQNYDGGFGGVPGAESHGGYTFCAVASLALLGRLD-----------LIDKERLLRWLVERQLASGGGFNGRPN  219 (286)
T ss_pred             HHHHHHHhCCCCCCcCCCCCCCCCccHhHHHHHHHHHcCCCc-----------ccCHHHHHHHHHHhCCCCCCCcCCCCC
Confidence            999999999999999999999999999999999999999875           4689999999999999988 9999999


Q ss_pred             CCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHH-hcCCCCCCcCCCCCCCccHHHHHHHHHHHHhc
Q 025813          160 KPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLL-TCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLL  225 (247)
Q Consensus       160 ~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~-~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~ll  225 (247)
                      +++|+||+||++++|.+|+...+++.+++.+||. .+|..+|||+++|++.+|++||+|++++|+++
T Consensus       220 ~~~d~~yt~~~~~~l~~l~~~~~~~~~~l~~~l~~~~q~~~Ggf~~~~~~~~d~~~T~~~l~~lsl~  286 (286)
T cd02890         220 KLVDTCYSFWVGASLKILGRLHLIDQEKLREYILSCQQSEVGGFSDKPGKPPDLYHTYYGLSGLSLL  286 (286)
T ss_pred             CCCccchhhHHHHHHHHcccccccCHHHHHHHHHhhcCCCCCCcCCCCCCCCCchhHHHHHHHHHcC
Confidence            9999999999999999999876789999999999 67889999999999999999999999999874

The protein prenyltransferase family of lipid-modifying enzymes includes protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I and GGTase-II). They catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between the C1 atom of farnesyl (15-carbon by FTase) or geranylgeranyl (20-carbon by GGTase-I, II) isoprenoid lipids and cysteine residues at or near the C-terminus of protein acceptors. FTase and GGTase-I prenylate the cysteine in the terminal sequence, "CAAX"; and GGTase-II prenylates both cysteines in the "CC" (or "CXC") terminal sequence. These enzymes are heterodimeric with both alpha and beta subunits re

>cd02890 PTase Protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold)

Probab=100.00  E-value=5e-45  Score=319.11  Aligned_cols=215  Identities=30%  Similarity=0.426  Sum_probs=201.4

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcc-cCCCCccccCCCCCcchHHHHHHHHHHHHhcC--CCcccH
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQ-QHDGSFMPIHFGAEKDLRFVYCAAAICFLLED--WSGMDR   78 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q-~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~--~~~~~~   78 (247)
                      +++++++.|||++.+|.+||..++..+++++++||+++| ++||+|...+ ++++|+..||+|+.++.+++.  .+..++
T Consensus        22 ~~~~~~~~~y~~l~~l~ll~~~~~~~~~~~~i~~l~~~q~~~~Ggf~~~~-~~~~~~~~T~~al~~l~llg~~~~~~~~~  100 (286)
T cd02890          22 LDASRLWLLYWILSSLDLLGEDLDDENKDEIIDFIYSCQVNEDGGFGGGP-GQDPHLASTYAAVLSLAILGDDALSRIDR  100 (286)
T ss_pred             HHhhHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHhhcCCCCCCCCCC-CCCccHHHHHHHHHHHHHcCccccchhhH
Confidence            578899999999999999997666778999999999999 9999998754 478999999999999999997  467788


Q ss_pred             HHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCcccccc
Q 025813           79 ERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRA  158 (247)
Q Consensus        79 ~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~  158 (247)
                      +++++||.++|++||||+..|..++|+..||+|+++|.+++...           .++++++++||.++|++||||+++|
T Consensus       101 ~~~~~~l~~~q~~dGgf~~~~~~~~d~~~ty~al~~l~ll~~~~-----------~~~~~~~~~~l~~~Q~~dGGf~~~~  169 (286)
T cd02890         101 EKIYKFLSSLQNPDGSFRGDLGGEVDTRFVYCALSILSLLNILT-----------DIDKEKLIDYILSCQNYDGGFGGVP  169 (286)
T ss_pred             HHHHHHHHHhcCCCCCcccCCCCCchHHHHHHHHHHHHHhCCch-----------hhhHHHHHHHHHHhCCCCCCcCCCC
Confidence            99999999999999999999999999999999999999999864           3578999999999999999999999


Q ss_pred             CCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCC-CcCCCCCCCccHHHHHHHHHHHHhcCCC
Q 025813          159 NKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYG-GFGKCPGDLPDLYHSFYGYTAFSLLEEP  228 (247)
Q Consensus       159 ~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~G-Gf~~~p~~~~d~~~T~~al~~L~ll~~~  228 (247)
                      ++++|+++|||++++|.+|+..+.++++++++||.+||+.+| ||+++|++.+|++||||++++|.+++..
T Consensus       170 ~~es~~~~t~~av~sL~~l~~~~~~~~~~~~~~L~~~q~~~ggGf~g~~~~~~d~~yt~~~~~~l~~l~~~  240 (286)
T cd02890         170 GAESHGGYTFCAVASLALLGRLDLIDKERLLRWLVERQLASGGGFNGRPNKLVDTCYSFWVGASLKILGRL  240 (286)
T ss_pred             CCCCCccHhHHHHHHHHHcCCCcccCHHHHHHHHHHhCCCCCCCcCCCCCCCCccchhhHHHHHHHHcccc
Confidence            999999999999999999998878899999999999999987 9999999999999999999999999987

The protein prenyltransferase family of lipid-modifying enzymes includes protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I and GGTase-II). They catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between the C1 atom of farnesyl (15-carbon by FTase) or geranylgeranyl (20-carbon by GGTase-I, II) isoprenoid lipids and cysteine residues at or near the C-terminus of protein acceptors. FTase and GGTase-I prenylate the cysteine in the terminal sequence, "CAAX"; and GGTase-II prenylates both cysteines in the "CC" (or "CXC") terminal sequence. These enzymes are heterodimeric with both alpha and beta subunits re

>KOG0365 consensus Beta subunit of farnesyltransferase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=4.2e-45  Score=313.43  Aligned_cols=216  Identities=38%  Similarity=0.712  Sum_probs=197.4

Q ss_pred             CCCcHHHHHHHHHHHHHhCCC--CCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHH
Q 025813            3 NGSNLASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRER   80 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~~--~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~   80 (247)
                      +.||++.||+||.+|-++|.+  ++.|||+++.+||.++++|||||. ...++|.|+|.+|||+....+++.+..+-.+-
T Consensus       145 Ql~HLA~TYAAVnaL~~~~~e~A~~~InR~~l~~fL~slK~~dGgFr-mh~~GE~DvRs~YcA~svasllni~~deL~eG  223 (423)
T KOG0365|consen  145 QLPHLAPTYAAVNALCLCGSEDAYSSINREKLYQFLFSLKDPDGGFR-MHVEGEVDVRSAYCALSVASLLNIPMDELFEG  223 (423)
T ss_pred             cchhhhHHHHHHHHHHhcCcHHHHHHhhHHHHHHHHHHhcCCCCCeE-eecCCcchHHHHHHHHHHHHHHCCCcHHHHHH
Confidence            679999999999999999963  678999999999999999999998 45569999999999999999999876666688


Q ss_pred             HHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCC-CCCccccccC
Q 025813           81 AKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQA-ADGGFQGRAN  159 (247)
Q Consensus        81 ~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~-~dGgf~~~~~  159 (247)
                      ..+||.+||+.+||||+.|+.|+|..+||||+++|++++..+           ..|.+++.+|..++|- .+|||+||.+
T Consensus       224 ~~~wi~~CQtyEGG~GG~P~~EAHGGYTFCalAalalLn~~d-----------~ln~~~Ll~W~~~RQm~~E~GFqGRtN  292 (423)
T KOG0365|consen  224 TLDWIASCQTYEGGFGGEPGVEAHGGYTFCALAALALLNEMD-----------QLNLEKLLEWAVRRQMRFEGGFQGRTN  292 (423)
T ss_pred             HHHHHHhcccccCCcCCCccccccCCeeHHHHHHHHHHhhhh-----------hhCHHHHHHHHHHhhhhhhcccccccc
Confidence            899999999999999999999999999999999999999886           6899999999999996 8999999999


Q ss_pred             CCCchhhHHHHHHHHHHhcCC----------CCCCHHHHHHHHH-hcCCCCCCcCCCCCCCccHHHHHHHHHHHHhcCCC
Q 025813          160 KPSDTCYAFWIGSVLRMLGGY----------NLIDKEALRGFLL-TCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP  228 (247)
Q Consensus       160 ~~~D~~~~y~a~~~L~lL~~~----------~~~~~~~~~~~L~-~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~ll~~~  228 (247)
                      |.+|.||+||+.+...+|...          -.+|.+++.+||+ .||..+|||+++|+|++|.+||+|++.+|++..++
T Consensus       293 KLVDGCYSFWvga~~~il~~~~~~~~~s~~~~~F~~~~LqeYIL~CcQ~~~GGlrDKP~K~~DfYHTCYcLsGLSiAq~y  372 (423)
T KOG0365|consen  293 KLVDGCYSFWVGASAPILQAFYSSAGHSLEHLLFNKEALQEYILLCCQSPSGGLRDKPGKPRDFYHTCYCLSGLSIAQHY  372 (423)
T ss_pred             chhhhhHHHHhcchHHHHHHHhcccccchhhhhcCHHHHHHHHHhhccCCCCCccCCCCCCcchhhhhhHhcchhHHhhh
Confidence            999999999999999888541          1568999999975 69999999999999999999999999999987765


Q ss_pred             CC
Q 025813          229 GL  230 (247)
Q Consensus       229 ~~  230 (247)
                      ..
T Consensus       373 ~~  374 (423)
T KOG0365|consen  373 SC  374 (423)
T ss_pred             cc
Confidence            43

>KOG0366 consensus Protein geranylgeranyltransferase type II, beta subunit [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.3e-41  Score=281.14  Aligned_cols=219  Identities=25%  Similarity=0.399  Sum_probs=207.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHH
Q 025813            1 MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRER   80 (247)
Q Consensus         1 ~~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~   80 (247)
                      |+++=+|+..||.+.+|.++|+ .+.+++++++.|+++||+++|||.+.+ +..+++-.|.+|+.+|.++...+..++++
T Consensus        41 l~EhlRmsgiYWg~tal~ll~~-le~~~~eeiv~~v~~C~~~~GGfa~~~-Ghd~hll~TlsAvQiL~~ydsi~~~d~d~  118 (329)
T KOG0366|consen   41 LTEHLRMSGIYWGLTALDLLGQ-LERMSREEIVSFVLSCQHEDGGFAGCP-GHDPHLLYTLSAVQILALYDSINVLDRDK  118 (329)
T ss_pred             HHhHhhhcchhhhhhHHHHhcc-cchhhHHHHHHHHHheecCCCCcCCCC-CCChHHHHHHHHHHHHHHHcccccccHHH
Confidence            4556688999999999999995 677889999999999999999999866 58899999999999999999888899999


Q ss_pred             HHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCC
Q 025813           81 AKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANK  160 (247)
Q Consensus        81 ~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~  160 (247)
                      .+.||...|++||.|.+....|-|.+.+||||++|+++|+.+           .++++++++|+++|.+.||||+-+|+.
T Consensus       119 v~~yi~gLq~edGsF~gD~wGEvDTRfs~~av~~L~lLg~ld-----------~~nve~aVd~~~~CyN~DGGFG~~pGa  187 (329)
T KOG0366|consen  119 VASYIKGLQQEDGSFSGDIWGEVDTRFSYCAVACLALLGKLD-----------TINVEKAVDFVLSCYNFDGGFGCRPGA  187 (329)
T ss_pred             HHHHHHhhcCcCCcccCCcccccchhhhHHHHHHHHHHhhHH-----------HhhHHHHHHHHHhhcccCCCcCCCCCc
Confidence            999999999999999999999999999999999999999987           688999999999999999999999999


Q ss_pred             CCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHHhcCCCCCCC
Q 025813          161 PSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNP  232 (247)
Q Consensus       161 ~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~~~  232 (247)
                      |++...+||.+++|+++++++.+|.|.+.+||...|-+.||.++||.|.||+||++|.+++|+++|+.+..+
T Consensus       188 ESHagqifcCvgaLai~~~L~~vd~d~lgwwlceRQ~~sGGLNGRpeKlpDVCYSwWvlsSL~iigrl~wId  259 (329)
T KOG0366|consen  188 ESHAGQIFCCVGALAITGKLHLVDRDLLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVLSSLAIIGRLHWID  259 (329)
T ss_pred             ccccceehhhHHHHHHccchhhcCHHHHHHHHHhccCCCCCCCCCcccCcchhhHHHHHhHHHHhhhhhhcc
Confidence            999999999999999999999999999999999999999999999999999999999999999999986544

>COG5029 CAL1 Prenyltransferase, beta subunit [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.3e-37  Score=263.54  Aligned_cols=217  Identities=20%  Similarity=0.237  Sum_probs=198.5

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC---CcccH
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW---SGMDR   78 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~---~~~~~   78 (247)
                      .+...++..||...++.+++......++++.+.++.+++.++|+|...+ +..+++..||+|+.+|.+++..   ..+++
T Consensus        50 ~~~~~~~~iyw~~~sl~~l~~~~~~~~~er~i~~v~~~~~~~G~f~~~~-g~~~hL~sT~~Ai~~L~~~d~~~~~~~idr  128 (342)
T COG5029          50 LEASRLNTIYWGDNSLWMLKRYDKTVDKERKISFVLGCVGPSGGFGGGP-GQDSHLASTVFAIQSLAMLDSLDVLSRIDR  128 (342)
T ss_pred             hhhcchhhhhhccchHHHhcCcchhhhhhhhheeeeeeecCCCCcCCCC-ccchhHHHHHHHHHHHHHhccccccchhhH
Confidence            3567889999999999999974445688999999999999999998755 5889999999999999999743   56677


Q ss_pred             HHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCcccccc
Q 025813           79 ERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRA  158 (247)
Q Consensus        79 ~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~  158 (247)
                      +++.+||.++|+|||+|-..-..|.|.+..|+|+.+|.++|..+           ..+.+..++||++||+.||||+..|
T Consensus       129 ~~l~~fi~~lk~pdGsF~~~~~gevDtr~~Y~al~ilsllg~~~-----------~~~~e~~vdyl~kCqnyeGGFg~~p  197 (342)
T COG5029         129 DSLASFISGLKNPDGSFRSDLEGEVDTRFLYIALSILSLLGDLD-----------KELFEGAVDYLKKCQNYEGGFGLCP  197 (342)
T ss_pred             HHHHHHHHhccCCCCceecccCCcchHHHHHHHHHHHHHHhhcc-----------hhhhHHHHHHHHHhhccCCcccCCC
Confidence            88999999999999999999889999999999999999999765           4578899999999999999999999


Q ss_pred             CCCCchhhHHHHHHHHHHhcCCCCCC-HHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHHhcCCCCC
Q 025813          159 NKPSDTCYAFWIGSVLRMLGGYNLID-KEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL  230 (247)
Q Consensus       159 ~~~~D~~~~y~a~~~L~lL~~~~~~~-~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~  230 (247)
                      +.|+|..||||++++|++|++++.++ +|++++||.++|.+.|||++||+|.+|.||+||++++|+|+++...
T Consensus       198 ~aEaHag~tFcalaalalL~~Ld~ls~~E~l~~Wl~~RQ~ssgGl~GR~nKl~D~CYs~WvlsSl~il~~~~~  270 (342)
T COG5029         198 YAEAHAGYTFCALAALALLGKLDKLSDVEKLIRWLAERQLSSGGLNGRSNKLVDTCYSFWVLSSLAILGKLDF  270 (342)
T ss_pred             chhhccchHHHHHHHHHHHhcccccchHHHHHHHHHHcccccCCcCCCcccCccchhhhhhcchHHhcchhhh
Confidence            99999999999999999999988888 7999999999999999999999999999999999999999996544

>KOG0365 consensus Beta subunit of farnesyltransferase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.4e-34  Score=248.74  Aligned_cols=216  Identities=22%  Similarity=0.291  Sum_probs=196.8

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcC---CCcccHH
Q 025813            3 NGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLED---WSGMDRE   79 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~---~~~~~~~   79 (247)
                      |.+..+..||-+.+|++|+..++..-.+++++||..||.|.|||+..| |..+++..||.|+.+|.+++.   ++.++++
T Consensus        96 DASR~Wm~YWil~sl~lL~~~~dd~v~~~~i~fL~~c~~PeGGfgGGP-GQl~HLA~TYAAVnaL~~~~~e~A~~~InR~  174 (423)
T KOG0365|consen   96 DASRPWMCYWILNSLALLDEWLDDDVKENAIDFLFTCQGPEGGFGGGP-GQLPHLAPTYAAVNALCLCGSEDAYSSINRE  174 (423)
T ss_pred             ccCcchhHHHHHHHHHHhcCcCCHHHHHHHHHHHHhcCCCCCCCCCCC-ccchhhhHHHHHHHHHHhcCcHHHHHHhhHH
Confidence            567889999999999999976655456899999999999999999766 478999999999999999984   3578999


Q ss_pred             HHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccC
Q 025813           80 RAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRAN  159 (247)
Q Consensus        80 ~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~  159 (247)
                      ++.+||.++.++||||-...++|.|+++.|||+++-.+++-..+++           .+...+||.+||+.+|||+|.|+
T Consensus       175 ~l~~fL~slK~~dGgFrmh~~GE~DvRs~YcA~svasllni~~deL-----------~eG~~~wi~~CQtyEGG~GG~P~  243 (423)
T KOG0365|consen  175 KLYQFLFSLKDPDGGFRMHVEGEVDVRSAYCALSVASLLNIPMDEL-----------FEGTLDWIASCQTYEGGFGGEPG  243 (423)
T ss_pred             HHHHHHHHhcCCCCCeEeecCCcchHHHHHHHHHHHHHHCCCcHHH-----------HHHHHHHHHhcccccCCcCCCcc
Confidence            9999999999999999999999999999999999999998876443           57799999999999999999999


Q ss_pred             CCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCC-CCCCcCCCCCCCccHHHHHHHHHHHHhcCCCCC
Q 025813          160 KPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQS-QYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL  230 (247)
Q Consensus       160 ~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~-~~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~  230 (247)
                      .|++..||||++++|.+|+.....|.+++.+|..+.|. .+|||.+|.+|..|.||+||.-+...++.....
T Consensus       244 ~EAHGGYTFCalAalalLn~~d~ln~~~Ll~W~~~RQm~~E~GFqGRtNKLVDGCYSFWvga~~~il~~~~~  315 (423)
T KOG0365|consen  244 VEAHGGYTFCALAALALLNEMDQLNLEKLLEWAVRRQMRFEGGFQGRTNKLVDGCYSFWVGASAPILQAFYS  315 (423)
T ss_pred             ccccCCeeHHHHHHHHHHhhhhhhCHHHHHHHHHHhhhhhhccccccccchhhhhHHHHhcchHHHHHHHhc
Confidence            99999999999999999998888999999999999997 699999999999999999999998888876544

>KOG0367 consensus Protein geranylgeranyltransferase Type I, beta subunit [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=6.9e-33  Score=234.17  Aligned_cols=219  Identities=26%  Similarity=0.327  Sum_probs=191.8

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCC--------CCccccCC---------CCCcchHHHHHHH
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHD--------GSFMPIHF---------GAEKDLRFVYCAA   64 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~d--------Ggf~~~~~---------~~~~d~~~ty~al   64 (247)
                      ||.+.+...++||..|.+|+. ++.++++.+++||.+.|-..        -||..+..         ..++++..||+++
T Consensus        34 hd~~R~tiafFaisGLd~L~~-ld~v~k~d~i~Wiy~~~v~~~dr~~~k~~GF~Gsr~~~~p~~~~~~~~~~lA~Ty~sl  112 (347)
T KOG0367|consen   34 HDTNRLTIAFFAISGLDLLDA-LDSVDKDDIIEWIYKLQVTPTDRTNLKICGFRGSRSMNIPIATNTYNEPHLAMTYTSL  112 (347)
T ss_pred             cccchHHHHHHHHcchhhhhh-hhccchhHHHHHHHhceeccccCCCceeeeeeeeccccCCCCCCCCcchhHHHHHHHH
Confidence            577889999999999999995 56678999999999987432        24544221         2467899999999


Q ss_pred             HHHHHhcCC-CcccHHHHHHHHHhcCCCCCCccCCC-CCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHH
Q 025813           65 AICFLLEDW-SGMDRERAKAYILNCQSYDGGFGLTP-GSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLS  142 (247)
Q Consensus        65 ~~l~ll~~~-~~~~~~~~~~~l~~~Q~~dGGFg~~p-~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~  142 (247)
                      +.|..||.. +.+|++.+++++..||.+||.|...+ +.|+|.+.-|||+++..+++...           .+|.++++.
T Consensus       113 ~~L~~lGddLsrlDrksil~~v~~~Q~~dGsF~~~~~GSe~DmRFvYcA~aI~ymLd~~s-----------~iD~ek~~~  181 (347)
T KOG0367|consen  113 ACLVILGDDLSRLDRKSILRFVSACQRPDGSFVSINVGSESDMRFVYCAVAICYMLDFWS-----------GIDKEKLIG  181 (347)
T ss_pred             HHHHHHcchHhhhhHHHHHHHHHHhcCCCCceeecCCCCchhhHHHHHHHHHHHHhcccc-----------ccCHHHHHH
Confidence            999999964 67899999999999999999998764 68899999999999999998543           789999999


Q ss_pred             HHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCC--C----CCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHH
Q 025813          143 WCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGY--N----LIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSF  216 (247)
Q Consensus       143 ~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~--~----~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~  216 (247)
                      ||.++|+.||||+-.|++|++..+||||+++|+++++.  +    ..+++++++|++..|..+|||.+||+|++|.||+|
T Consensus       182 yI~~~q~YdgGfg~~pg~EsHgG~TfCAlAsL~L~~~l~~e~l~~~~~~erlirWli~RQ~~sgGfqGR~NKp~DTCYaF  261 (347)
T KOG0367|consen  182 YIRSSQRYDGGFGQHPGGESHGGATFCALASLALMGKLIPEELSNTSKVERLIRWLIQRQVSSGGFQGRTNKPVDTCYAF  261 (347)
T ss_pred             HHHHhhccccccccCCCCCCCcchhHHHHHHHHHHhhhhhhhhccccCHHHHHHHHHHHhhccCCcCCCCCCCchhHHHH
Confidence            99999999999999999999999999999999999975  2    23579999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCCC
Q 025813          217 YGYTAFSLLEEPGLNP  232 (247)
Q Consensus       217 ~al~~L~ll~~~~~~~  232 (247)
                      |..++|.+++...+..
T Consensus       262 WigasLklL~~~~~~d  277 (347)
T KOG0367|consen  262 WIGASLKLLDADWLID  277 (347)
T ss_pred             HHHHHHHHccchHhhh
Confidence            9999999999876643

>cd00688 ISOPREN_C2_like This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate complement

Probab=99.95  E-value=5.2e-26  Score=196.19  Aligned_cols=208  Identities=39%  Similarity=0.564  Sum_probs=179.4

Q ss_pred             CCcHHHHHHHHHHHHHhCCC--CCCCCHHHHHHHHHhcccCCCCccccCCC------CCcchHHHHHHHHHHHHhcCCC-
Q 025813            4 GSNLASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFG------AEKDLRFVYCAAAICFLLEDWS-   74 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~~--~~~~~~~~~i~~l~~~q~~dGgf~~~~~~------~~~d~~~ty~al~~l~ll~~~~-   74 (247)
                      .+++..|++++.+|..++..  ......+++++||.++|++||+|......      ..+++..|++++.+|.+++... 
T Consensus        79 ~~~~~~T~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~q~~dG~~~~~~~~~~~~~~~~~~~~~t~~al~aL~~~~~~~~  158 (300)
T cd00688          79 YPSLWLTAYALKALLLAGDYIAVDRIDLARALNWLLSLQNEDGGFREDGPGNHRIGGDESDVRLTAYALIALALLGKLDP  158 (300)
T ss_pred             CcchHhHHHHHHHHHHcCCccccCHHHHHHHHHHHHHccCCCCCeeeecCCCCcccCCCCcccHHHHHHHHHHHcCCCCC
Confidence            67899999999999999963  23334689999999999999999865432      2678999999999999998642 


Q ss_pred             cccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCcc
Q 025813           75 GMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGF  154 (247)
Q Consensus        75 ~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf  154 (247)
                      ...++++++||.++|++||||  .+..++|...|++++.+|..++...           ...++++++||.++|.++|||
T Consensus       159 ~~~~~~~~~~l~~~q~~~g~~--~~~~~~~~~~t~~~~~aL~~~~~~~-----------~~~~~~~~~~L~~~q~~~g~~  225 (300)
T cd00688         159 DPLIEKALDYLLSCQNYDGGF--GPGGESHGYGTACAAAALALLGDLD-----------SPDAKKALRWLLSRQRPDGGW  225 (300)
T ss_pred             cHHHHHHHHHHHHHhcCCCCc--CCCccccHHHHHHHHHHHHHcCCcc-----------hHHHHHHHHHHHHhcCCCCCc
Confidence            457899999999999999999  6778899999999999999998752           245789999999999999999


Q ss_pred             cccc---CCCCchhhHHHHHHHHHHhcCC-CCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHHh
Q 025813          155 QGRA---NKPSDTCYAFWIGSVLRMLGGY-NLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSL  224 (247)
Q Consensus       155 ~~~~---~~~~D~~~~y~a~~~L~lL~~~-~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~l  224 (247)
                      ...+   ....|.++++|++.+|..++.. .....+++++||.++|+.+|||...|.+.+|.++|++++.+|..
T Consensus       226 ~~~~~~~~~~~~~~~~~~~~~aL~~~~~~~~~~~~~~~~~~L~~~q~~~G~w~~~~~~~~~~~~t~~al~aL~~  299 (300)
T cd00688         226 GEGRDRTNKLSDSCYTEWAAYALLALGKLGDLEDAEKLVKWLLSQQNEDGGFSSKPGKSYDTQHTVFALLALSL  299 (300)
T ss_pred             CccccCCCCcCchHHHHHHHHHHHHHhhhcCcccHHHHHHHHHhccCCCCCcCcCCCCCCcchhhHHHHHHHhc
Confidence            9765   6789999999999999888753 23457899999999999999999999999999999999999975

Class II terpene cyclases include squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY), these integral membrane proteins catalyze a cationic cyclization cascade converting linear triterpenes to fused ring compounds. The protein prenyltransferases include protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I and GGTase-II) which catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Alpha (2)-M is a major carrier protein in serum and involved in the immobilization and entrapment of proteases. PZP is a pregnancy associated protein.

>cd00688 ISOPREN_C2_like This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate complement

Probab=99.93  E-value=3.5e-24  Score=184.77  Aligned_cols=214  Identities=24%  Similarity=0.231  Sum_probs=179.3

Q ss_pred             CCCcHHHHHHHHHHHHHhCCC-----CCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC---C
Q 025813            3 NGSNLASTYCALAILKAVGYN-----FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW---S   74 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~~-----~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~---~   74 (247)
                      ....+..|++++.++..++..     ......+++++||.++|++||+|...+....+++..|++++.+|..++..   .
T Consensus        23 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~q~~dG~~~~~~~~~~~~~~~T~~~~~~l~~~~~~~~~~  102 (300)
T cd00688          23 CGEQTWSTAWPLLALLLLLAATGIRDKADENIEKGIQRLLSYQLSDGGFSGWGGNDYPSLWLTAYALKALLLAGDYIAVD  102 (300)
T ss_pred             CcCcHHHHHHHHHHHHHhCCcccccccchHHHHHHHHHHHhccCCCCCccCCCCCCCcchHhHHHHHHHHHHcCCccccC
Confidence            345678999999999988752     12235689999999999999999865432278999999999999999853   3


Q ss_pred             cccHHHHHHHHHhcCCCCCCccCCCCC-------CCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhc
Q 025813           75 GMDRERAKAYILNCQSYDGGFGLTPGS-------ESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQR  147 (247)
Q Consensus        75 ~~~~~~~~~~l~~~Q~~dGGFg~~p~~-------~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~  147 (247)
                      ....+++++||+++|++||||...+..       .+++..|++++.+|..++...+          ..+++++++||.++
T Consensus       103 ~~~~~~~~~~l~~~q~~dG~~~~~~~~~~~~~~~~~~~~~t~~al~aL~~~~~~~~----------~~~~~~~~~~l~~~  172 (300)
T cd00688         103 RIDLARALNWLLSLQNEDGGFREDGPGNHRIGGDESDVRLTAYALIALALLGKLDP----------DPLIEKALDYLLSC  172 (300)
T ss_pred             HHHHHHHHHHHHHccCCCCCeeeecCCCCcccCCCCcccHHHHHHHHHHHcCCCCC----------cHHHHHHHHHHHHH
Confidence            456789999999999999999887554       6899999999999999987531          23688999999999


Q ss_pred             CCCCCccccccCCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCC---CCCccHHHHHHHHHHHHh
Q 025813          148 QAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCP---GDLPDLYHSFYGYTAFSL  224 (247)
Q Consensus       148 Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p---~~~~d~~~T~~al~~L~l  224 (247)
                      |++||||  .+..+.|+..++|++.+|.+++.......+++++||+++|..+|||...+   ...+|.++|++++.+|..
T Consensus       173 q~~~g~~--~~~~~~~~~~t~~~~~aL~~~~~~~~~~~~~~~~~L~~~q~~~g~~~~~~~~~~~~~~~~~~~~~~~aL~~  250 (300)
T cd00688         173 QNYDGGF--GPGGESHGYGTACAAAALALLGDLDSPDAKKALRWLLSRQRPDGGWGEGRDRTNKLSDSCYTEWAAYALLA  250 (300)
T ss_pred             hcCCCCc--CCCccccHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhcCCCCCcCccccCCCCcCchHHHHHHHHHHHH
Confidence            9999999  66778899999999999999986433457899999999999999999875   778999999999999998


Q ss_pred             cCCC
Q 025813          225 LEEP  228 (247)
Q Consensus       225 l~~~  228 (247)
                      ++..
T Consensus       251 ~~~~  254 (300)
T cd00688         251 LGKL  254 (300)
T ss_pred             Hhhh
Confidence            8764

Class II terpene cyclases include squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY), these integral membrane proteins catalyze a cationic cyclization cascade converting linear triterpenes to fused ring compounds. The protein prenyltransferases include protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I and GGTase-II) which catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Alpha (2)-M is a major carrier protein in serum and involved in the immobilization and entrapment of proteases. PZP is a pregnancy associated protein.

>TIGR03463 osq_cycl 2,3-oxidosqualene cyclase

Probab=99.89  E-value=5.1e-22  Score=190.09  Aligned_cols=221  Identities=19%  Similarity=0.110  Sum_probs=160.1

Q ss_pred             cHHHHHHHHHHHHHhCCCCCC--CCHHHHHHHHHhccc--------------CCCCccccCC-CCCcchHHHHHHHHHHH
Q 025813            6 NLASTYCALAILKAVGYNFAN--IDSKSILTSMRNLQQ--------------HDGSFMPIHF-GAEKDLRFVYCAAAICF   68 (247)
Q Consensus         6 ~l~~Ty~a~~~L~~lg~~~~~--~~~~~~i~~l~~~q~--------------~dGgf~~~~~-~~~~d~~~ty~al~~l~   68 (247)
                      .++.|-.++++|.--|...+.  ...+|+.+||.++|.              ++|||..... .+.+|...|--++.+|.
T Consensus       305 ~~WDTala~~AL~e~g~~~~~~~~~l~kA~~wL~~~Q~~~~~gd~~~~~~~~~~GGW~f~~~~~~~pdsD~Ta~~L~Al~  384 (634)
T TIGR03463       305 SEWDTAFAVQALAATPETAGRHRRMLERAARFLEANQMLEDTAEPQRFFRDPAKGGWCFSDGDHGWPVSDCTAEALSASL  384 (634)
T ss_pred             CchhHHHHHHHHHHcCCCchhhhHHHHHHHHHHHHhcCCcCCCCchhcCCCCCCCccccccCCCCCCccccHHHHHHHHH
Confidence            448999999999876631111  124789999999995              4688875422 23456666766666665


Q ss_pred             HhcC---C-----CcccHHHHHHHHHhcCCCCCCccCCCC---------------------CCCChhhHHHHHHHHHHhC
Q 025813           69 LLED---W-----SGMDRERAKAYILNCQSYDGGFGLTPG---------------------SESHGGGTYCAVASLRLMG  119 (247)
Q Consensus        69 ll~~---~-----~~~~~~~~~~~l~~~Q~~dGGFg~~p~---------------------~~s~~~~T~~al~~L~~lg  119 (247)
                      .+..   .     +....+++++||+++||+||||+..+.                     ..+++..|..+|.+|..++
T Consensus       385 ~~~~~~~~~~~~~~~~~l~~av~~Ll~~Qn~dGGw~~y~~~~~~~~l~~~~~~~~f~~~~~d~~~~d~Ta~~l~aL~~~~  464 (634)
T TIGR03463       385 VLEPLGLNPEERVPQARLQDAVEFILSRQNEDGGFGTYERQRGPRVLELLNPSEMFSTCMTDVSYVECTSSCLQALAAWR  464 (634)
T ss_pred             HHhhcCCcccccccHHHHHHHHHHHHHhcCCCCCEeccCCCCcHHHHhcCChHHhhcccccCCCcCcHHHHHHHHHHHHh
Confidence            5431   1     123457899999999999999995422                     3468899999999999887


Q ss_pred             CccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCC-CCCCHHHHHHHHHhcCCC
Q 025813          120 FIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGY-NLIDKEALRGFLLTCQSQ  198 (247)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~-~~~~~~~~~~~L~~~Q~~  198 (247)
                      ...++...++.   ...++++++||++.|++||||.++++ ..+...|++++.+|..+|.. ....++++++||+++|++
T Consensus       465 ~~~~~~~~~~i---~~ai~rav~~L~~~Q~~dGsW~g~Wg-~~~~Y~T~~al~aL~~~G~~~~~~~i~rA~~~Ll~~Q~~  540 (634)
T TIGR03463       465 KHHPHVPDGRI---TRAISRGVRFLRSRQREDGSFPGSWG-VCFTYGTFHGVMGLRAAGASPDDMALQRAAAWLRSYQRA  540 (634)
T ss_pred             hcCcchhhhHH---HHHHHHHHHHHHHhcCCCCCccccCC-CCCcHHHHHHHHHHHHcCCCcCcHHHHHHHHHHHHccCC
Confidence            64321110000   12377899999999999999998876 34566788899999888753 223478999999999999


Q ss_pred             CCCcCCC----------CCCCccHHHHHHHHHHHHhcCCCCC
Q 025813          199 YGGFGKC----------PGDLPDLYHSFYGYTAFSLLEEPGL  230 (247)
Q Consensus       199 ~GGf~~~----------p~~~~d~~~T~~al~~L~ll~~~~~  230 (247)
                      ||||+..          ++..++.+.|+||+.+|...++.+.
T Consensus       541 DGgWg~~~~s~~~~~y~~~~~S~~~~TA~Al~aL~~~g~~~~  582 (634)
T TIGR03463       541 DGGWGEVYESCLQARYVEGKQSQAVMTSWALLALAEAGEGGH  582 (634)
T ss_pred             CCCccCccCccccccccCCCCCcHHHHHHHHHHHHHcCCcCC
Confidence            9999763          4456889999999999999886543

This model identifies 2,3-oxidosqualene cyclases from Stigmatella aurantiaca which produces cycloartenol, and Gemmata obscuriglobus and Methylococcus capsulatus which each produce the closely related sterol, lanosterol.

>TIGR01507 hopene_cyclase squalene-hopene cyclase

Probab=99.88  E-value=2.3e-21  Score=185.49  Aligned_cols=215  Identities=15%  Similarity=0.037  Sum_probs=158.2

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhccc-------------CCCCccccCC-CCCcchHHHHHHHHHHHH
Q 025813            4 GSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQ-------------HDGSFMPIHF-GAEKDLRFVYCAAAICFL   69 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~-------------~dGgf~~~~~-~~~~d~~~ty~al~~l~l   69 (247)
                      .+.++.|-.++++|...|...+.+...|+.+||++.|.             +.|||..... .+.+|+..|-.++.+|..
T Consensus       313 ~s~vWDTa~ai~AL~~ag~~~~~p~l~kA~~~L~~~Qi~~~~~w~~~~~~~~~GGW~f~~~~~~~pd~ddTa~~L~AL~~  392 (635)
T TIGR01507       313 VSPVWDTALAVLALREAGLPADHDALVKAGEWLLDKQITVPGDWAVKRPNLEPGGWAFQFDNVYYPDVDDTAVVVWALNG  392 (635)
T ss_pred             CCcHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhhcccCCCCccccCCCCCCCccCCCCCCCCCCCchhHHHHHHHHHH
Confidence            45789999999999988853333456899999999973             2577764321 235799999999888877


Q ss_pred             hcCCC----cccHHHHHHHHHhcCCCCCCccCCCC-------------------CCCChhhHHHHHHHHHHhCCcccccc
Q 025813           70 LEDWS----GMDRERAKAYILNCQSYDGGFGLTPG-------------------SESHGGGTYCAVASLRLMGFIEDNVL  126 (247)
Q Consensus        70 l~~~~----~~~~~~~~~~l~~~Q~~dGGFg~~p~-------------------~~s~~~~T~~al~~L~~lg~~~~~~~  126 (247)
                      ++...    ....+++++||+++||+||||+....                   +.+++..|..++.+|...+....   
T Consensus       393 ~~~~~~~~~~~~i~ra~~wLl~~Qn~dGgw~af~~~~~~~~l~~~~f~d~~~~~D~~~~d~Ta~~l~al~~~g~~~~---  469 (635)
T TIGR01507       393 LRLPDERRRRDAMTKAFRWIAGMQSSNGGWGAFDVDNTSDLLNHIPFCDFGAVTDPPTADVTARVLECLGSFGYDDA---  469 (635)
T ss_pred             cCCCccccchHHHHHHHHHHHHhcCCCCCEecccCCcchhHHhcCCccccccccCCCCccHHHHHHHHHHHhCCCch---
Confidence            75321    23678999999999999999976421                   23567779889999988875421   


Q ss_pred             ccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCC-CCCCHHHHHHHHHhcCCCCCCcCCC
Q 025813          127 SKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGY-NLIDKEALRGFLLTCQSQYGGFGKC  205 (247)
Q Consensus       127 ~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~-~~~~~~~~~~~L~~~Q~~~GGf~~~  205 (247)
                             ...++++++||++.|++||||.++++. .++..|..++.+|...+.. ....++++++||+++|+.||||+..
T Consensus       470 -------~~~i~rav~~L~~~Q~~dG~W~g~wg~-~~~Y~T~~al~aL~~~g~~~~~~~i~rAv~wL~~~Q~~DGGWge~  541 (635)
T TIGR01507       470 -------WPVIERAVEYLKREQEPDGSWFGRWGV-NYLYGTGAVLSALKAVGIDTREPYIQKALAWLESHQNPDGGWGED  541 (635)
T ss_pred             -------hHHHHHHHHHHHHccCCCCCCccCCCC-ccccHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhcCCCCCCCCC
Confidence                   235789999999999999999887662 2333333344555544432 1123689999999999999999854


Q ss_pred             ----------CCCCccHHHHHHHHHHHHhcCCCC
Q 025813          206 ----------PGDLPDLYHSFYGYTAFSLLEEPG  229 (247)
Q Consensus       206 ----------p~~~~d~~~T~~al~~L~ll~~~~  229 (247)
                                +...+|+..|.|++.+|...+..+
T Consensus       542 ~~sy~~~~~~g~g~s~~s~TA~AL~AL~~ag~~~  575 (635)
T TIGR01507       542 CRSYEDPAYAGKGASTASQTAWALIALIAAGRAE  575 (635)
T ss_pred             CcccccccccCCCCCcHHHHHHHHHHHHHhCCCC
Confidence                      223689999999999999988664

SHC is an essential prokaryotic gene in hopanoid (triterpenoid) biosynthesis. Squalene hopene cyclase, an integral membrane protein, directly cyclizes squalene into hopanoid products.

>PLN03012 Camelliol C synthase

Probab=99.88  E-value=1.6e-21  Score=187.20  Aligned_cols=220  Identities=16%  Similarity=0.114  Sum_probs=156.1

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCC-CCCHHHHHHHHHhcccCC---------------CCccccC-CCCCcchHHHHHHHHH
Q 025813            4 GSNLASTYCALAILKAVGYNFA-NIDSKSILTSMRNLQQHD---------------GSFMPIH-FGAEKDLRFVYCAAAI   66 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~~~~-~~~~~~~i~~l~~~q~~d---------------Ggf~~~~-~~~~~d~~~ty~al~~   66 (247)
                      .+.|+.|-+++++|.--|...+ .....|+.+||++.|..+               |||.... ..+-++..-|--++.+
T Consensus       415 gSqvWDTa~~~qAl~~agl~~~~~~~l~kA~~~L~~~Qv~~~~~gdw~~~~r~~~~GgW~Fs~~~~gyp~sD~TAe~Lka  494 (759)
T PLN03012        415 GSQLWDSGFALQALLASNLSNEIPDVLRRGHDFIKNSQVGENPSGDFKNMYRHISKGAWTFSDRDHGWQASDCTAEGFKC  494 (759)
T ss_pred             CCcHHHHHHHHHHHHHcCCCccchHHHHHHHHHHHHHhccCCCCChhhhhCCCCCCCcccccCCCCCCCCCCccHHHHHH
Confidence            5789999999999987774221 123579999999998731               5554321 1134555666555544


Q ss_pred             ---HHHhcC------CCcccHHHHHHHHHhcCCCCCCccCCCC---------------------CCCChhhHHHHHHHHH
Q 025813           67 ---CFLLED------WSGMDRERAKAYILNCQSYDGGFGLTPG---------------------SESHGGGTYCAVASLR  116 (247)
Q Consensus        67 ---l~ll~~------~~~~~~~~~~~~l~~~Q~~dGGFg~~p~---------------------~~s~~~~T~~al~~L~  116 (247)
                         +.++..      .......++++||+++||+||||+....                     +.+.+..|..+|.+|.
T Consensus       495 ~lll~~~~~~~~~~~~~~~~l~~av~wlL~mQn~dGGwaafe~~~~~~~le~lnp~E~F~d~mid~~y~dcTa~~l~aL~  574 (759)
T PLN03012        495 CLLFSMIAPDIVGPKMDPEQLHDAVNILLSLQSKNGGMTAWEPAGAPEWLELLNPTEMFADIVIEHEYNECTSSAIQALI  574 (759)
T ss_pred             HHHHHhcccccccccccHHHHHHHHHHHHhccCCCCCEeeecCCcchHHHHhcChhhhhcCeecCCCcccHHHHHHHHHH
Confidence               333321      0112357899999999999999977532                     3567777999999999


Q ss_pred             HhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHH---HHHHHHHhcCCCC--CCHHHHHHH
Q 025813          117 LMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFW---IGSVLRMLGGYNL--IDKEALRGF  191 (247)
Q Consensus       117 ~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~---a~~~L~lL~~~~~--~~~~~~~~~  191 (247)
                      ++++..++.+.++.   ...+.++++||++.|++||||.++++    +||+|+   |+.+|...|....  ..++++++|
T Consensus       575 ~f~~~~~~~r~~~i---~~~i~rAv~~L~~~Q~~DGsW~G~Wg----v~y~YgT~~aL~aL~a~g~~~~~~~~Irrav~f  647 (759)
T PLN03012        575 LFKQLYPDHRTEEI---NAFIKKAAEYIENIQMLDGSWYGNWG----ICFTYGTWFALAGLAAAGKTFNDCEAIRKGVHF  647 (759)
T ss_pred             HHhhhCcccchhhh---HHHHHHHHHHHHHhcCCCCCCccccc----ccCCcHHHHHHHHHHHhCccCCCcHHHHHHHHH
Confidence            98875433221111   23478899999999999999999999    466665   5555655564311  347899999


Q ss_pred             HHhcCCCCCCcCCCC------------CCCccHHHHHHHHHHHHhcCCCCC
Q 025813          192 LLTCQSQYGGFGKCP------------GDLPDLYHSFYGYTAFSLLEEPGL  230 (247)
Q Consensus       192 L~~~Q~~~GGf~~~p------------~~~~d~~~T~~al~~L~ll~~~~~  230 (247)
                      |++.|+.||||++.-            +..|.++.|+||+.+|...|+.+.
T Consensus       648 Lls~Q~~DGGWGEs~~Sc~~~~y~~~~~~~S~~~qTaWAl~aLi~ag~~~~  698 (759)
T PLN03012        648 LLAAQKDNGGWGESYLSCPKKIYIAQEGEISNLVQTAWALMGLIHAGQAER  698 (759)
T ss_pred             HHHhcCCCCCcCCCCCCCCCccccCCCCCCCcHHHHHHHHHHHHHcCCCCC
Confidence            999999999999863            235889999999999999988653

>PLN02993 lupeol synthase

Probab=99.88  E-value=2e-21  Score=186.83  Aligned_cols=222  Identities=18%  Similarity=0.133  Sum_probs=160.2

Q ss_pred             CCcHHHHHHHHHHHHHhCCC-CCCCCHHHHHHHHHhcccC---------------CCCccccC-CCCCcchHHHHHHHHH
Q 025813            4 GSNLASTYCALAILKAVGYN-FANIDSKSILTSMRNLQQH---------------DGSFMPIH-FGAEKDLRFVYCAAAI   66 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~~-~~~~~~~~~i~~l~~~q~~---------------dGgf~~~~-~~~~~d~~~ty~al~~   66 (247)
                      .+-|+.|-+++++|.--|.. .......|+.+||++.|..               .|||.... ..+-+|..-|--++.+
T Consensus       415 gSqvWDTa~a~qAl~~agl~~~~~~~l~kA~~~L~~~Qv~~~~~gdw~~~~r~~~~GgW~Fs~~~~gyp~sDdTAe~lka  494 (763)
T PLN02993        415 GSQLWDTGFAIQALLASDLSDETDDVLRRGHNYIKKSQVRENPSGDFKSMYRHISKGAWTLSDRDHGWQVSDCTAEALKC  494 (763)
T ss_pred             CCchHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHhccCCCCCchHhhCCCCCCCcCcCccCCCCCCcCCchHHHHHH
Confidence            57799999999999887742 1223458999999998863               26665321 1244666667666654


Q ss_pred             HHHhcCCC---------cccHHHHHHHHHhcCCCCCCccCCCC---------------------CCCChhhHHHHHHHHH
Q 025813           67 CFLLEDWS---------GMDRERAKAYILNCQSYDGGFGLTPG---------------------SESHGGGTYCAVASLR  116 (247)
Q Consensus        67 l~ll~~~~---------~~~~~~~~~~l~~~Q~~dGGFg~~p~---------------------~~s~~~~T~~al~~L~  116 (247)
                      +.+|....         .....++++||+++||+||||+....                     +.+.+..|..+|.+|.
T Consensus       495 ~l~l~~~~~~~~~~~~~~~~l~~av~wlL~mQn~dGG~aafe~~~~~~~le~ln~ae~f~~~miD~~~~dcT~~vl~aL~  574 (763)
T PLN02993        495 CMLLSMMPADVVGQKIDPEQLYDSVNLLLSLQSENGGVTAWEPVRAYKWLELLNPTDFFANTMVEREYVECTSAVIQALV  574 (763)
T ss_pred             HHHHhhCccccccccchHHHHHHHHHHHHhhccCCCCEEeeeCCCchhHHHcCCHHHhhcCcccCCCCcCHHHHHHHHHH
Confidence            43443211         12356899999999999999988632                     2478888999999999


Q ss_pred             HhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCCCC--CCHHHHHHHHHh
Q 025813          117 LMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNL--IDKEALRGFLLT  194 (247)
Q Consensus       117 ~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~~~--~~~~~~~~~L~~  194 (247)
                      ++++..++.+.++.   ...++++++||++.|++||||.++++. +.+..|++++.+|...|....  ..++++++||++
T Consensus       575 ~~~~~~p~~r~~ei---~~~i~rAv~yL~~~Q~~DGSW~G~Wgv-~y~YgT~~aL~aL~a~G~~~~~~~~IrrAv~fLls  650 (763)
T PLN02993        575 LFKQLYPDHRTKEI---IKSIEKAVQFIESKQTPDGSWYGNWGI-CFIYATWFALGGLAAAGKTYNDCLAMRKGVHFLLT  650 (763)
T ss_pred             HhcccCcchhhhhH---HHHHHHHHHHHHHhcCCCCCccccccc-ccCcHHHHHHHHHHHcCCCCCCcHHHHHHHHHHHH
Confidence            99764333221111   124788999999999999999998772 334456667777777776422  347899999999


Q ss_pred             cCCCCCCcCCCC------------CCCccHHHHHHHHHHHHhcCCCC
Q 025813          195 CQSQYGGFGKCP------------GDLPDLYHSFYGYTAFSLLEEPG  229 (247)
Q Consensus       195 ~Q~~~GGf~~~p------------~~~~d~~~T~~al~~L~ll~~~~  229 (247)
                      +|+.||||++.-            +..|.++.|+||+.+|...|+.+
T Consensus       651 ~Q~~DGGWGEs~~S~~~~~y~~~~~~~St~~qTAwAllaL~~aG~~~  697 (763)
T PLN02993        651 IQRDDGGWGESYLSCPEQRYIPLEGNRSNLVQTAWAMMGLIHAGQAE  697 (763)
T ss_pred             hcCCCCCcCcCcCcCCCcccccCCCCCCchhhHHHHHHHHHHcCCCC
Confidence            999999998742            24588999999999999998753

>cd02892 SQCY_1 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold

Probab=99.86  E-value=1.9e-20  Score=180.00  Aligned_cols=221  Identities=20%  Similarity=0.176  Sum_probs=158.8

Q ss_pred             CCCcHHHHHHHHHHHHHhCCC-CCCCCHHHHHHHHHhccc--------------CCCCccccC-CCCCcchHHHHHHHHH
Q 025813            3 NGSNLASTYCALAILKAVGYN-FANIDSKSILTSMRNLQQ--------------HDGSFMPIH-FGAEKDLRFVYCAAAI   66 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~~-~~~~~~~~~i~~l~~~q~--------------~dGgf~~~~-~~~~~d~~~ty~al~~   66 (247)
                      +.+.++.|-.++++|.-.|.. ......+++++||.+.|.              +.|||.... ..+.+|+..|-.++.+
T Consensus       304 ~~s~~wDTala~~AL~~ag~~~~~~~~l~ka~~wL~~~Q~~~~~gdw~~~~~~~~~GGW~fs~~~~~~pd~d~Ta~~l~A  383 (634)
T cd02892         304 NGSQVWDTALAVQALLEAGLAPEFDPALKKALDWLLESQILDNPGDWKVKYRHLRKGGWAFSTANQGYPDSDDTAEALKA  383 (634)
T ss_pred             CCCchHHHHHHHHHHHHcCCCccchHHHHHHHHHHHHHHcCCCCCchhhhCCCCCCCCCCCCCCCCCCCCcCchHHHHHH
Confidence            356799999999999877742 111234789999999995              356665321 1134567778777777


Q ss_pred             HHHhcCCC-------cccHHHHHHHHHhcCCCCCCccCC-CC--------------------CCCChhhHHHHHHHHHHh
Q 025813           67 CFLLEDWS-------GMDRERAKAYILNCQSYDGGFGLT-PG--------------------SESHGGGTYCAVASLRLM  118 (247)
Q Consensus        67 l~ll~~~~-------~~~~~~~~~~l~~~Q~~dGGFg~~-p~--------------------~~s~~~~T~~al~~L~~l  118 (247)
                      +..++...       ...++++++||+++|++||||+.. +.                    +.+++..|+.++.+|..+
T Consensus       384 L~~~~~~~~~~~~~~~~~i~~Av~wLl~~Qn~dGgf~~y~~~~~~~~~~~~~p~e~~g~~~~d~~~~~~Ta~~l~aL~~~  463 (634)
T cd02892         384 LLRLQELPPFGEKVSRERLYDAVDWLLGMQNSNGGFAAFEPDNTYHWLENLNPFEDFGDIMIDPPYVECTGSVLEALGLF  463 (634)
T ss_pred             HHHhhccCCcchhhHHHHHHHHHHHHHhccCCCCCEeeecCCCchhhHhhcCchhhhcccccCCCCcchHHHHHHHHHHh
Confidence            77776421       234679999999999999999852 11                    146778899999999998


Q ss_pred             CCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCC-C-CCCHHHHHHHHHhcC
Q 025813          119 GFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGY-N-LIDKEALRGFLLTCQ  196 (247)
Q Consensus       119 g~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~-~-~~~~~~~~~~L~~~Q  196 (247)
                      +...+.... +.   ...++++++||++.|++||||.++++ ...+..+++++.+|..+|.. . ...++++++||+++|
T Consensus       464 ~~~~~~~r~-~i---~~~i~rAv~~L~~~Q~~DGsW~g~wg-~~~~Y~T~~al~AL~~~G~~~~~~~~i~~a~~~L~s~Q  538 (634)
T cd02892         464 GKLYPGHRR-EI---DPAIRRAVKYLLREQEPDGSWYGRWG-VCYIYGTWFALEALAAAGEDYENSPYIRKACDFLLSKQ  538 (634)
T ss_pred             cccCcchHH-HH---HHHHHHHHHHHHHccCCCCCccccCC-CccHHHHHHHHHHHHHhCCcccCcHHHHHHHHHHHhcC
Confidence            875421100 00   12478899999999999999988775 23344455677777777753 1 234689999999999


Q ss_pred             CCCCCcCCCC----------CCCccHHHHHHHHHHHHhcCCC
Q 025813          197 SQYGGFGKCP----------GDLPDLYHSFYGYTAFSLLEEP  228 (247)
Q Consensus       197 ~~~GGf~~~p----------~~~~d~~~T~~al~~L~ll~~~  228 (247)
                      +.||||+..+          +..+++..|+||+.+|...+..
T Consensus       539 ~~DGgWge~~~s~~~~~~~~~~~s~~~~TA~AllaLl~~g~~  580 (634)
T cd02892         539 NPDGGWGESYLSYEDKSYAGGGRSTVVQTAWALLALMAAGEP  580 (634)
T ss_pred             CCCCCCCCccccccCcccCCCCCCcHHHHHHHHHHHHHcCCC
Confidence            9999998642          3457899999999999988765

Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization cascade converting linear triterpenes to fused ring compounds. This group contains bacterial SQCY which catalyzes the convertion of squalene to hopene or diplopterol and eukaryotic OSQCY which transforms the 2,3-epoxide of squalene to compounds such as, lanosterol in mammals and fungi or, cycloartenol in plants. Deletion of a single glycine residue of Alicyclobacillus acidocaldarius SQCY alters its substrate specificity into that of eukaryotic OSQCY. Both enzymes have a second minor domain, which forms an alpha-alpha barrel that is inserted into the major domain.

>PF13249 Prenyltrans_2: Prenyltransferase-like; PDB: 1O6R_B 1O6Q_B 1H35_C 1H3A_C 1SQC_A 1UMP_A 1O6H_C 1O79_B 1GSZ_C 1H37_C

Probab=99.86  E-value=1.3e-21  Score=147.66  Aligned_cols=109  Identities=28%  Similarity=0.441  Sum_probs=91.9

Q ss_pred             HHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHH--HHHHHhcCCCCCccccccC
Q 025813           82 KAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLL--LSWCLQRQAADGGFQGRAN  159 (247)
Q Consensus        82 ~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~--~~~l~~~Q~~dGgf~~~~~  159 (247)
                      |+||+++|++||||+.. +.++++..|+.|+.+|..++..+             +++++  ++||.++|++||||...+.
T Consensus         1 v~~L~~~Q~~dGgw~~~-~~~~~~~~T~~al~aL~~~g~~~-------------~~~~~~~~~~L~~~q~~dGg~~~~~~   66 (113)
T PF13249_consen    1 VDWLLSRQNPDGGWGGF-GGPSDVWDTAFALLALAALGEEP-------------DRDRAAAVEWLLSQQNPDGGWGSNPD   66 (113)
T ss_dssp             HHHHHHHB-TTSSBBSS-TS-BEHHHHHHHHHHHHHHTSHH-------------CHHHHHHHHHHHHHB-TTSGBBSSTT
T ss_pred             CHhhHHHcCCCCCCcCC-CCCCCHHHHHHHHHHHHHhCCcc-------------cHHHHHHHHHHHHhCCCCCCccCCCC
Confidence            68999999999999998 78899999999999999999864             47778  9999999999999999885


Q ss_pred             -CCCchhhHHHHHHHHHHhcCCCC-CCHHHHHHHHHhcCCCCCCcCC
Q 025813          160 -KPSDTCYAFWIGSVLRMLGGYNL-IDKEALRGFLLTCQSQYGGFGK  204 (247)
Q Consensus       160 -~~~D~~~~y~a~~~L~lL~~~~~-~~~~~~~~~L~~~Q~~~GGf~~  204 (247)
                       .++|+..+++++++|.+++.... ..++++++||++||+++|||++
T Consensus        67 ~~~~~~~~t~~~l~~l~~~~~~~~~~~~~~a~~~l~~~Q~~dGg~~y  113 (113)
T PF13249_consen   67 GGPPDVYTTYVALAALELLGRPDDEEAVRKAVDWLLSCQNPDGGWGY  113 (113)
T ss_dssp             TT-BSHHHHHHHHHHHHHHT-GGCHTTHCCHHHHHHHTB-TTSSB-S
T ss_pred             CCCccHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhcCCCCCCCc
Confidence             56899999999999999987542 4578999999999999999974

...

>cd02889 SQCY Squalene cyclase (SQCY) domain; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold

Probab=99.85  E-value=7.3e-20  Score=163.84  Aligned_cols=219  Identities=19%  Similarity=0.137  Sum_probs=157.3

Q ss_pred             CcHHHHHHHHHHHHHhCCC-CCCCCHHHHHHHHHhcc--------------cCCCCccccCCC-CCcchHHHHHHHHHHH
Q 025813            5 SNLASTYCALAILKAVGYN-FANIDSKSILTSMRNLQ--------------QHDGSFMPIHFG-AEKDLRFVYCAAAICF   68 (247)
Q Consensus         5 ~~l~~Ty~a~~~L~~lg~~-~~~~~~~~~i~~l~~~q--------------~~dGgf~~~~~~-~~~d~~~ty~al~~l~   68 (247)
                      +++..|..++.+|...|.. ......+|+++||.+.|              .++|+|...... +.++...|-.++.++.
T Consensus        23 ~~~~~Ta~~~~al~~~g~~~~~~~~~~ka~~~l~~~q~~~~~~~~~~~~~~~~~Ggw~y~~~~~~~~~~~~Ta~~l~al~  102 (348)
T cd02889          23 SQVWDTALALQALLEAGLAPEFDPALKKALEWLLKSQIRDNPDDWKVKYRHLRKGGWAFSTANQGYPDSDDTAEALKALL  102 (348)
T ss_pred             CchHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHhcCCCCCCCchhhcCCCCCCCcCcccCcCCCCCCCCChHHHHHHHH
Confidence            7889999999999988852 12224689999999999              689998743221 2245556666666666


Q ss_pred             HhcCCC-------cccHHHHHHHHHhcCCCCCCccCCCC-------------------CCCChhhHHHHHHHHHHhCCcc
Q 025813           69 LLEDWS-------GMDRERAKAYILNCQSYDGGFGLTPG-------------------SESHGGGTYCAVASLRLMGFIE  122 (247)
Q Consensus        69 ll~~~~-------~~~~~~~~~~l~~~Q~~dGGFg~~p~-------------------~~s~~~~T~~al~~L~~lg~~~  122 (247)
                      .++...       ...++++++||+++|++||||.....                   ..+++..|..++.+|..++...
T Consensus       103 ~~~~~~~~~~~~~~~~i~~a~~~L~~~Q~~dG~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ta~~l~aL~~~~~~~  182 (348)
T cd02889         103 RLQKKPPDGKKVSRERLYDAVDWLLSMQNSNGGFAAFEPDNTYKYLELIPEVDGDIMIDPPYVECTGSVLEALGLFGKLY  182 (348)
T ss_pred             HhhccCcccchhhHHHHHHHHHHHHHhccCCCCEeeecCCccHHHHhcCchhhcCCccCCCCcchHHHHHHHHHHhhhcC
Confidence            665431       23567999999999999999985321                   2467888999999999988753


Q ss_pred             ccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCC-CCCCHHHHHHHHHhcCCCCCC
Q 025813          123 DNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGY-NLIDKEALRGFLLTCQSQYGG  201 (247)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~-~~~~~~~~~~~L~~~Q~~~GG  201 (247)
                      +....+ .   ...++++++||.+.|++||||.+.++. .+...+.+++.+|..+|.. .....+++++||+++|+++||
T Consensus       183 ~~~~~~-~---~~~i~~a~~~L~~~q~~dG~w~~~~~~-~~~y~ta~a~~aL~~~g~~~~~~~~~~~~~~L~~~Q~~dG~  257 (348)
T cd02889         183 PEHRRE-I---DPAIRRAVKYLEREQEPDGSWYGRWGV-CFIYGTWFALEALAAAGEDENSPYVRKACDWLLSKQNPDGG  257 (348)
T ss_pred             CchHHH-H---HHHHHHHHHHHHHhCCCCCCccccCCC-cchHHHHHHHHHHHHcCCCcCcHHHHHHHHHHHHccCCCCC
Confidence            210000 0   024678999999999999999765442 3344455666677766643 123467899999999999999


Q ss_pred             cCCC----------CCCCccHHHHHHHHHHHHhcCCC
Q 025813          202 FGKC----------PGDLPDLYHSFYGYTAFSLLEEP  228 (247)
Q Consensus       202 f~~~----------p~~~~d~~~T~~al~~L~ll~~~  228 (247)
                      |+..          +...+++..|.|++.+|...+..
T Consensus       258 w~~~~~~~~~~~~~~~~~~~~~~Ta~al~aL~~~g~~  294 (348)
T cd02889         258 WGESYESYEDPSYAGGGRSTVVQTAWALLALMAAGEP  294 (348)
T ss_pred             cCCcccccccccccCCCCCcHHHHHHHHHHHHhcCCC
Confidence            9863          34568899999999999988765

Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization cascade converting linear triterpenes to fused ring compounds. Bacterial SQCY catalyzes the convertion of squalene to hopene or diplopterol. Eukaryotic OSQCY transforms the 2,3-epoxide of squalene to compounds such as, lanosterol (a metabolic precursor of cholesterol and steroid hormones) in mammals and fungi or, cycloartenol in plants. Deletion of a single glycine residue of Alicyclobacillus acidocaldarius SQCY alters its substrate specificity into that of eukaryotic OSQCY. Both enzymes have a second minor domain, which forms an alpha-alpha barrel that is inserted into the major domain. This group also contains SQCY-like archael sequences and some bacterial SQCY's which lack this minor domain.

>TIGR01507 hopene_cyclase squalene-hopene cyclase

Probab=99.85  E-value=1.6e-20  Score=179.68  Aligned_cols=191  Identities=16%  Similarity=0.103  Sum_probs=143.0

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCC---CCCHHHHHHHHHhcccCCCCccccCCC------------------CCcchHHHHH
Q 025813            4 GSNLASTYCALAILKAVGYNFA---NIDSKSILTSMRNLQQHDGSFMPIHFG------------------AEKDLRFVYC   62 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~~~~---~~~~~~~i~~l~~~q~~dGgf~~~~~~------------------~~~d~~~ty~   62 (247)
                      .|++.+|-.++.+|..++...+   ....+++++||.++|++||||..+...                  +.+++..|-.
T Consensus       377 ~pd~ddTa~~L~AL~~~~~~~~~~~~~~i~ra~~wLl~~Qn~dGgw~af~~~~~~~~l~~~~f~d~~~~~D~~~~d~Ta~  456 (635)
T TIGR01507       377 YPDVDDTAVVVWALNGLRLPDERRRRDAMTKAFRWIAGMQSSNGGWGAFDVDNTSDLLNHIPFCDFGAVTDPPTADVTAR  456 (635)
T ss_pred             CCCchhHHHHHHHHHHcCCCccccchHHHHHHHHHHHHhcCCCCCEecccCCcchhHHhcCCccccccccCCCCccHHHH
Confidence            5899999999999998863111   123478999999999999999653210                  1234444555


Q ss_pred             HHHHHHHhcCC-CcccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHH
Q 025813           63 AAAICFLLEDW-SGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLL  141 (247)
Q Consensus        63 al~~l~ll~~~-~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~  141 (247)
                      ++.+|...+.. ....++++++||++.|++||||-+..+ ..+...|..++.+|...|....          ...+++++
T Consensus       457 ~l~al~~~g~~~~~~~i~rav~~L~~~Q~~dG~W~g~wg-~~~~Y~T~~al~aL~~~g~~~~----------~~~i~rAv  525 (635)
T TIGR01507       457 VLECLGSFGYDDAWPVIERAVEYLKREQEPDGSWFGRWG-VNYLYGTGAVLSALKAVGIDTR----------EPYIQKAL  525 (635)
T ss_pred             HHHHHHHhCCCchhHHHHHHHHHHHHccCCCCCCccCCC-CccccHHHHHHHHHHHcCCCcc----------cHHHHHHH
Confidence            66666655532 234578999999999999999744333 3566778888999988776421          34588999


Q ss_pred             HHHHhcCCCCCccccc----------cCCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCC
Q 025813          142 SWCLQRQAADGGFQGR----------ANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKC  205 (247)
Q Consensus       142 ~~l~~~Q~~dGgf~~~----------~~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~  205 (247)
                      +||+++|++||||...          ..+++|+..|.|++.+|...+..+...++++++||.++|+.+|||...
T Consensus       526 ~wL~~~Q~~DGGWge~~~sy~~~~~~g~g~s~~s~TA~AL~AL~~ag~~~~~~I~rav~~L~~~Q~~dG~W~e~  599 (635)
T TIGR01507       526 AWLESHQNPDGGWGEDCRSYEDPAYAGKGASTASQTAWALIALIAAGRAESEAARRGVQYLVETQRPDGGWDEP  599 (635)
T ss_pred             HHHHHhcCCCCCCCCCCcccccccccCCCCCcHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHhcCCCCCCCCc
Confidence            9999999999999742          124688999999999998888654445789999999999999999775

SHC is an essential prokaryotic gene in hopanoid (triterpenoid) biosynthesis. Squalene hopene cyclase, an integral membrane protein, directly cyclizes squalene into hopanoid products.

>TIGR01787 squalene_cyclas squalene/oxidosqualene cyclases

Probab=99.84  E-value=1.3e-19  Score=173.29  Aligned_cols=217  Identities=21%  Similarity=0.127  Sum_probs=152.6

Q ss_pred             CCcHHHHHHHHHHHHHhCC---CCCCCCHHHHHHHHHhcccCC---------------CCccccCC-CCCcchHHHHHHH
Q 025813            4 GSNLASTYCALAILKAVGY---NFANIDSKSILTSMRNLQQHD---------------GSFMPIHF-GAEKDLRFVYCAA   64 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~---~~~~~~~~~~i~~l~~~q~~d---------------Ggf~~~~~-~~~~d~~~ty~al   64 (247)
                      .+.|+.|-+++++|.--|.   +.......++++||.+.|..+               |||..... .+.+|+..|-.++
T Consensus       293 ~s~vWDTalai~AL~~ag~~~~~~~~~~i~ka~~wL~~~Q~~~~~~g~~~~~~~~~~pGgW~fs~~~~~~PdvdDta~~~  372 (621)
T TIGR01787       293 GSQVWDTAFAIQALRESGDHRLPEFHPALVKAHEWLLLSQIPDNPPGDWKVYRHNLKPGGWAFSFLNCGYPDVDDTAVVA  372 (621)
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccccCHHHHHHHHHHHHHhCCCCCCCchhhhCCCCCCCcccCccCCCCCCCchhHHHHH
Confidence            5678999999999977672   212234589999999999866               55543211 1334666665555


Q ss_pred             HHHHHhcC-C---CcccHHHHHHHHHhcCCCCCCccCCCC---------------------CCCChhhHHHHHHHHHHhC
Q 025813           65 AICFLLED-W---SGMDRERAKAYILNCQSYDGGFGLTPG---------------------SESHGGGTYCAVASLRLMG  119 (247)
Q Consensus        65 ~~l~ll~~-~---~~~~~~~~~~~l~~~Q~~dGGFg~~p~---------------------~~s~~~~T~~al~~L~~lg  119 (247)
                      ..+.++.. .   .....+++++||+++|++||||+....                     ..+.+..|..+|.+|..++
T Consensus       373 la~~l~~~~~~~~~~~~l~~a~~~Ll~~Qn~dGGw~ay~~~~~~~~l~~l~p~e~f~d~~~d~~~~~~T~~~l~aL~~~~  452 (621)
T TIGR01787       373 LKAVLLLQEDEHVKRDRLRDAVNWILGMQSSNGGFAAYDPDNTGEWLELLNPSEVFGDIMIDPPYVDVTARVIQALGAFG  452 (621)
T ss_pred             HHHHHhhcCcccccHHHHHHHHHHHHHHcCCCCCEeeeccccchHHHHHhcchhhhccccccCCCCchHHHHHHHHHHhc
Confidence            44444432 1   123457899999999999999985321                     2244568999999998887


Q ss_pred             CccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCCCC--CCHHHHHHHHHhcCC
Q 025813          120 FIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNL--IDKEALRGFLLTCQS  197 (247)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~~~--~~~~~~~~~L~~~Q~  197 (247)
                      ...++.        ...++++++||++.|++||+|.++++. ..+..|.+++.+|..+|....  ..++++++||+++|+
T Consensus       453 ~r~~~~--------~~~i~rAl~~L~~~Q~~DGsw~g~wg~-~y~YgT~~al~aL~~~G~~~~~~~~i~rA~~~L~~~Q~  523 (621)
T TIGR01787       453 HRADEI--------RNVLERALEYLRREQRADGSWFGRWGV-NYTYGTGFVLSALAAAGRTYRNCPEVQKACDWLLSRQM  523 (621)
T ss_pred             CccHhH--------HHHHHHHHHHHHHhcCCCCCCcccCCC-CCchhHHHHHHHHHHhCCcccCCHHHHHHHHHHHhhcC
Confidence            422111        124789999999999999999988763 223335556666777765321  236899999999999


Q ss_pred             CCCCcCCCC----------CCCccHHHHHHHHHHHHhcCCCC
Q 025813          198 QYGGFGKCP----------GDLPDLYHSFYGYTAFSLLEEPG  229 (247)
Q Consensus       198 ~~GGf~~~p----------~~~~d~~~T~~al~~L~ll~~~~  229 (247)
                      +||||+..+          ...|++..|.||+.+|...+..+
T Consensus       524 ~DGGWge~~~s~~~~~y~~~~~S~~s~Ta~AL~AL~~ag~~~  565 (621)
T TIGR01787       524 PDGGWGEDCFSYEDPSYVGSGGSTPSQTGWALMALIAAGEAD  565 (621)
T ss_pred             CCCCCCcCCccccccccCCCCCCCHHHHHHHHHHHHHcCccc
Confidence            999998643          23689999999999999887654

This family of enzymes catalyzes the cyclization of the triterpenes squalene or 2-3-oxidosqualene to a variety of products including hopene, lanosterol, cycloartenol, amyrin, lupeol and isomultiflorenol.

>PF13249 Prenyltrans_2: Prenyltransferase-like; PDB: 1O6R_B 1O6Q_B 1H35_C 1H3A_C 1SQC_A 1UMP_A 1O6H_C 1O79_B 1GSZ_C 1H37_C

Probab=99.84  E-value=1.7e-20  Score=141.40  Aligned_cols=110  Identities=30%  Similarity=0.409  Sum_probs=91.0

Q ss_pred             HHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHHH--HHHHHhcCCCCCCccCCC-CCCCChhhHH
Q 025813           33 LTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERA--KAYILNCQSYDGGFGLTP-GSESHGGGTY  109 (247)
Q Consensus        33 i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~~--~~~l~~~Q~~dGGFg~~p-~~~s~~~~T~  109 (247)
                      |+||.++|++||+|...  +..+++..|++++.+|..++..  .+++++  ++||+++|++||||+..| +.++++..|+
T Consensus         1 v~~L~~~Q~~dGgw~~~--~~~~~~~~T~~al~aL~~~g~~--~~~~~~~~~~~L~~~q~~dGg~~~~~~~~~~~~~~t~   76 (113)
T PF13249_consen    1 VDWLLSRQNPDGGWGGF--GGPSDVWDTAFALLALAALGEE--PDRDRAAAVEWLLSQQNPDGGWGSNPDGGPPDVYTTY   76 (113)
T ss_dssp             HHHHHHHB-TTSSBBSS--TS-BEHHHHHHHHHHHHHHTSH--HCHHHHHHHHHHHHHB-TTSGBBSSTTTT-BSHHHHH
T ss_pred             CHhhHHHcCCCCCCcCC--CCCCCHHHHHHHHHHHHHhCCc--ccHHHHHHHHHHHHhCCCCCCccCCCCCCCccHHHHH
Confidence            68999999999999864  5789999999999999999853  358888  999999999999999998 5778999999


Q ss_pred             HHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCcccc
Q 025813          110 CAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQG  156 (247)
Q Consensus       110 ~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~  156 (247)
                      +++.+|.+++..++          ...++++++||+++|++||||++
T Consensus        77 ~~l~~l~~~~~~~~----------~~~~~~a~~~l~~~Q~~dGg~~y  113 (113)
T PF13249_consen   77 VALAALELLGRPDD----------EEAVRKAVDWLLSCQNPDGGWGY  113 (113)
T ss_dssp             HHHHHHHHHT-GGC----------HTTHCCHHHHHHHTB-TTSSB-S
T ss_pred             HHHHHHHHcCCCcc----------cHHHHHHHHHHHHhcCCCCCCCc
Confidence            99999999988752          14577899999999999999973

...

>TIGR03463 osq_cycl 2,3-oxidosqualene cyclase

Probab=99.84  E-value=4.1e-20  Score=177.01  Aligned_cols=193  Identities=19%  Similarity=0.134  Sum_probs=142.3

Q ss_pred             CCCcHHHHHHHHHHHHHhCC--CC--CCC---CHHHHHHHHHhcccCCCCccccCCC--------------------CCc
Q 025813            3 NGSNLASTYCALAILKAVGY--NF--ANI---DSKSILTSMRNLQQHDGSFMPIHFG--------------------AEK   55 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~--~~--~~~---~~~~~i~~l~~~q~~dGgf~~~~~~--------------------~~~   55 (247)
                      ..|.+-+|-.++.+|..+..  ..  +..   ...++++||.++||+||||..+...                    +.+
T Consensus       369 ~~pdsD~Ta~~L~Al~~~~~~~~~~~~~~~~~~l~~av~~Ll~~Qn~dGGw~~y~~~~~~~~l~~~~~~~~f~~~~~d~~  448 (634)
T TIGR03463       369 GWPVSDCTAEALSASLVLEPLGLNPEERVPQARLQDAVEFILSRQNEDGGFGTYERQRGPRVLELLNPSEMFSTCMTDVS  448 (634)
T ss_pred             CCCccccHHHHHHHHHHHhhcCCcccccccHHHHHHHHHHHHHhcCCCCCEeccCCCCcHHHHhcCChHHhhcccccCCC
Confidence            34667788888888877542  11  111   2367899999999999999854321                    123


Q ss_pred             chHHHHHHHHHHHHhcCCCc--------ccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccc
Q 025813           56 DLRFVYCAAAICFLLEDWSG--------MDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLS  127 (247)
Q Consensus        56 d~~~ty~al~~l~ll~~~~~--------~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~  127 (247)
                      .+..|-.++.+|..++....        ..++++++||++.|++||||.+.-+ ......|++|+.+|..+|....    
T Consensus       449 ~~d~Ta~~l~aL~~~~~~~~~~~~~~i~~ai~rav~~L~~~Q~~dGsW~g~Wg-~~~~Y~T~~al~aL~~~G~~~~----  523 (634)
T TIGR03463       449 YVECTSSCLQALAAWRKHHPHVPDGRITRAISRGVRFLRSRQREDGSFPGSWG-VCFTYGTFHGVMGLRAAGASPD----  523 (634)
T ss_pred             cCcHHHHHHHHHHHHhhcCcchhhhHHHHHHHHHHHHHHHhcCCCCCccccCC-CCCcHHHHHHHHHHHHcCCCcC----
Confidence            45555566666666553221        1367899999999999999876543 3455679999999999887531    


Q ss_pred             cCCCCCCCCHHHHHHHHHhcCCCCCcccccc----------CCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCC
Q 025813          128 KNTSSSIIDLPLLLSWCLQRQAADGGFQGRA----------NKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQS  197 (247)
Q Consensus       128 ~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~----------~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~  197 (247)
                            ...++++++||+++|++||||....          +.++++..|.||+.+|...|......++++++||++.|+
T Consensus       524 ------~~~i~rA~~~Ll~~Q~~DGgWg~~~~s~~~~~y~~~~~S~~~~TA~Al~aL~~~g~~~~~~i~rgi~~L~~~Q~  597 (634)
T TIGR03463       524 ------DMALQRAAAWLRSYQRADGGWGEVYESCLQARYVEGKQSQAVMTSWALLALAEAGEGGHDAVQRGVAWLRSRQQ  597 (634)
T ss_pred             ------cHHHHHHHHHHHHccCCCCCccCccCccccccccCCCCCcHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHhCC
Confidence                  3458899999999999999997542          335778889999999988875444457899999999999


Q ss_pred             CCCCcCCCC
Q 025813          198 QYGGFGKCP  206 (247)
Q Consensus       198 ~~GGf~~~p  206 (247)
                      +||||...+
T Consensus       598 ~dG~W~~~~  606 (634)
T TIGR03463       598 EDGRWPREP  606 (634)
T ss_pred             CCCCCCCCc
Confidence            999998865

This model identifies 2,3-oxidosqualene cyclases from Stigmatella aurantiaca which produces cycloartenol, and Gemmata obscuriglobus and Methylococcus capsulatus which each produce the closely related sterol, lanosterol.

>cd02892 SQCY_1 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold

Probab=99.82  E-value=9.3e-20  Score=175.31  Aligned_cols=192  Identities=18%  Similarity=0.102  Sum_probs=144.5

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCC---CCC---HHHHHHHHHhcccCCCCccccCCC--------------------CCcch
Q 025813            4 GSNLASTYCALAILKAVGYNFA---NID---SKSILTSMRNLQQHDGSFMPIHFG--------------------AEKDL   57 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~~~~---~~~---~~~~i~~l~~~q~~dGgf~~~~~~--------------------~~~d~   57 (247)
                      .|++.+|-.++.+|..++....   ..+   .+++++||.++|++||||..+...                    +.+.+
T Consensus       371 ~pd~d~Ta~~l~AL~~~~~~~~~~~~~~~~~i~~Av~wLl~~Qn~dGgf~~y~~~~~~~~~~~~~p~e~~g~~~~d~~~~  450 (634)
T cd02892         371 YPDSDDTAEALKALLRLQELPPFGEKVSRERLYDAVDWLLGMQNSNGGFAAFEPDNTYHWLENLNPFEDFGDIMIDPPYV  450 (634)
T ss_pred             CCCcCchHHHHHHHHHhhccCCcchhhHHHHHHHHHHHHHhccCCCCCEeeecCCCchhhHhhcCchhhhcccccCCCCc
Confidence            4778899999999999885321   122   368899999999999999753211                    12455


Q ss_pred             HHHHHHHHHHHHhcCCCc-------ccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCc-cccccccC
Q 025813           58 RFVYCAAAICFLLEDWSG-------MDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI-EDNVLSKN  129 (247)
Q Consensus        58 ~~ty~al~~l~ll~~~~~-------~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~-~~~~~~~~  129 (247)
                      ..|..++.+|..++....       ..++++++||+++|++||||.+.. ...+...|+.++.+|..+|.. ..      
T Consensus       451 ~~Ta~~l~aL~~~~~~~~~~r~~i~~~i~rAv~~L~~~Q~~DGsW~g~w-g~~~~Y~T~~al~AL~~~G~~~~~------  523 (634)
T cd02892         451 ECTGSVLEALGLFGKLYPGHRREIDPAIRRAVKYLLREQEPDGSWYGRW-GVCYIYGTWFALEALAAAGEDYEN------  523 (634)
T ss_pred             chHHHHHHHHHHhcccCcchHHHHHHHHHHHHHHHHHccCCCCCccccC-CCccHHHHHHHHHHHHHhCCcccC------
Confidence            668888999988875422       247899999999999999996643 345677888999999998865 21      


Q ss_pred             CCCCCCCHHHHHHHHHhcCCCCCcccccc----------CCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCC
Q 025813          130 TSSSIIDLPLLLSWCLQRQAADGGFQGRA----------NKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQY  199 (247)
Q Consensus       130 ~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~----------~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~  199 (247)
                          ...++++++||+++|++||||...+          ...+++..|.|++.+|...+..+...++++++||.++|+.+
T Consensus       524 ----~~~i~~a~~~L~s~Q~~DGgWge~~~s~~~~~~~~~~~s~~~~TA~AllaLl~~g~~~~~~i~r~i~wL~~~Q~~~  599 (634)
T cd02892         524 ----SPYIRKACDFLLSKQNPDGGWGESYLSYEDKSYAGGGRSTVVQTAWALLALMAAGEPDSEAVERGIKYLLNTQLPD  599 (634)
T ss_pred             ----cHHHHHHHHHHHhcCCCCCCCCCccccccCcccCCCCCCcHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHcCCCC
Confidence                2467899999999999999997432          23466777877777776666543345788999999999999


Q ss_pred             CCcCCCC
Q 025813          200 GGFGKCP  206 (247)
Q Consensus       200 GGf~~~p  206 (247)
                      |||....
T Consensus       600 G~w~~~~  606 (634)
T cd02892         600 GDWPQEE  606 (634)
T ss_pred             CCCCCcc
Confidence            9998753

Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization cascade converting linear triterpenes to fused ring compounds. This group contains bacterial SQCY which catalyzes the convertion of squalene to hopene or diplopterol and eukaryotic OSQCY which transforms the 2,3-epoxide of squalene to compounds such as, lanosterol in mammals and fungi or, cycloartenol in plants. Deletion of a single glycine residue of Alicyclobacillus acidocaldarius SQCY alters its substrate specificity into that of eukaryotic OSQCY. Both enzymes have a second minor domain, which forms an alpha-alpha barrel that is inserted into the major domain.

>cd02889 SQCY Squalene cyclase (SQCY) domain; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold

Probab=99.82  E-value=1.7e-19  Score=161.49  Aligned_cols=191  Identities=18%  Similarity=0.133  Sum_probs=142.5

Q ss_pred             CcHHHHHHHHHHHHHhCCCCC---CC---CHHHHHHHHHhcccCCCCccccCCC------------------CCcchHHH
Q 025813            5 SNLASTYCALAILKAVGYNFA---NI---DSKSILTSMRNLQQHDGSFMPIHFG------------------AEKDLRFV   60 (247)
Q Consensus         5 ~~l~~Ty~a~~~L~~lg~~~~---~~---~~~~~i~~l~~~q~~dGgf~~~~~~------------------~~~d~~~t   60 (247)
                      +++..|-.++.+|..++....   ..   ..++.++||.++|++||+|......                  ..+++..|
T Consensus        89 ~~~~~Ta~~l~al~~~~~~~~~~~~~~~~~i~~a~~~L~~~Q~~dG~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~T  168 (348)
T cd02889          89 PDSDDTAEALKALLRLQKKPPDGKKVSRERLYDAVDWLLSMQNSNGGFAAFEPDNTYKYLELIPEVDGDIMIDPPYVECT  168 (348)
T ss_pred             CCCCChHHHHHHHHHhhccCcccchhhHHHHHHHHHHHHHhccCCCCEeeecCCccHHHHhcCchhhcCCccCCCCcchH
Confidence            456688899999988874210   11   2468899999999999999753210                  12456678


Q ss_pred             HHHHHHHHHhcCCCc-------ccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCC
Q 025813           61 YCAAAICFLLEDWSG-------MDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSS  133 (247)
Q Consensus        61 y~al~~l~ll~~~~~-------~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~  133 (247)
                      ..++.+|..++....       ...+++++||+++|++||||.... ...+...|+.++.+|...|....          
T Consensus       169 a~~l~aL~~~~~~~~~~~~~~~~~i~~a~~~L~~~q~~dG~w~~~~-~~~~~y~ta~a~~aL~~~g~~~~----------  237 (348)
T cd02889         169 GSVLEALGLFGKLYPEHRREIDPAIRRAVKYLEREQEPDGSWYGRW-GVCFIYGTWFALEALAAAGEDEN----------  237 (348)
T ss_pred             HHHHHHHHHhhhcCCchHHHHHHHHHHHHHHHHHhCCCCCCccccC-CCcchHHHHHHHHHHHHcCCCcC----------
Confidence            888888888875322       245799999999999999996533 23466778889999998886421          


Q ss_pred             CCCHHHHHHHHHhcCCCCCccccc----------cCCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcC
Q 025813          134 IIDLPLLLSWCLQRQAADGGFQGR----------ANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFG  203 (247)
Q Consensus       134 ~~~~~~~~~~l~~~Q~~dGgf~~~----------~~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~  203 (247)
                      ...++++++||+++|++||||...          +....|+..|.+++.+|...+......++++++||.++|+++|||.
T Consensus       238 ~~~~~~~~~~L~~~Q~~dG~w~~~~~~~~~~~~~~~~~~~~~~Ta~al~aL~~~g~~~~~~v~~a~~wL~~~Q~~dG~f~  317 (348)
T cd02889         238 SPYVRKACDWLLSKQNPDGGWGESYESYEDPSYAGGGRSTVVQTAWALLALMAAGEPDSEAVKRGVKYLLNTQQEDGDWP  317 (348)
T ss_pred             cHHHHHHHHHHHHccCCCCCcCCcccccccccccCCCCCcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCCCCCcC
Confidence            345789999999999999999753          2345678888888888877665433457889999999999999998


Q ss_pred             CCC
Q 025813          204 KCP  206 (247)
Q Consensus       204 ~~p  206 (247)
                      ..+
T Consensus       318 ~~~  320 (348)
T cd02889         318 QEE  320 (348)
T ss_pred             Cce
Confidence            854

Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization cascade converting linear triterpenes to fused ring compounds. Bacterial SQCY catalyzes the convertion of squalene to hopene or diplopterol. Eukaryotic OSQCY transforms the 2,3-epoxide of squalene to compounds such as, lanosterol (a metabolic precursor of cholesterol and steroid hormones) in mammals and fungi or, cycloartenol in plants. Deletion of a single glycine residue of Alicyclobacillus acidocaldarius SQCY alters its substrate specificity into that of eukaryotic OSQCY. Both enzymes have a second minor domain, which forms an alpha-alpha barrel that is inserted into the major domain. This group also contains SQCY-like archael sequences and some bacterial SQCY's which lack this minor domain.

>TIGR01787 squalene_cyclas squalene/oxidosqualene cyclases

Probab=99.81  E-value=2.3e-19  Score=171.66  Aligned_cols=192  Identities=17%  Similarity=0.111  Sum_probs=140.1

Q ss_pred             CcHHHHHHHHHHHHHhCCCCCCCC---HHHHHHHHHhcccCCCCccccCCCC--------------------CcchHHHH
Q 025813            5 SNLASTYCALAILKAVGYNFANID---SKSILTSMRNLQQHDGSFMPIHFGA--------------------EKDLRFVY   61 (247)
Q Consensus         5 ~~l~~Ty~a~~~L~~lg~~~~~~~---~~~~i~~l~~~q~~dGgf~~~~~~~--------------------~~d~~~ty   61 (247)
                      |++.+|-.++.++.++.......+   .+++++||.++|++||||..+....                    .+.+..|.
T Consensus       363 PdvdDta~~~la~~l~~~~~~~~~~~~l~~a~~~Ll~~Qn~dGGw~ay~~~~~~~~l~~l~p~e~f~d~~~d~~~~~~T~  442 (621)
T TIGR01787       363 PDVDDTAVVALKAVLLLQEDEHVKRDRLRDAVNWILGMQSSNGGFAAYDPDNTGEWLELLNPSEVFGDIMIDPPYVDVTA  442 (621)
T ss_pred             CCchhHHHHHHHHHHhhcCcccccHHHHHHHHHHHHHHcCCCCCEeeeccccchHHHHHhcchhhhccccccCCCCchHH
Confidence            688888888877766653212222   3589999999999999998543211                    11224566


Q ss_pred             HHHHHHHHhcCC---CcccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHH
Q 025813           62 CAAAICFLLEDW---SGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLP  138 (247)
Q Consensus        62 ~al~~l~ll~~~---~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~  138 (247)
                      .++.+|...+..   ....++++++||+++|++||+|.+..+ ......|..++.+|..+|....+         ...++
T Consensus       443 ~~l~aL~~~~~r~~~~~~~i~rAl~~L~~~Q~~DGsw~g~wg-~~y~YgT~~al~aL~~~G~~~~~---------~~~i~  512 (621)
T TIGR01787       443 RVIQALGAFGHRADEIRNVLERALEYLRREQRADGSWFGRWG-VNYTYGTGFVLSALAAAGRTYRN---------CPEVQ  512 (621)
T ss_pred             HHHHHHHHhcCccHhHHHHHHHHHHHHHHhcCCCCCCcccCC-CCCchhHHHHHHHHHHhCCcccC---------CHHHH
Confidence            677777666521   123578999999999999999876443 33456688899999988875310         13478


Q ss_pred             HHHHHHHhcCCCCCcccccc----------CCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCC
Q 025813          139 LLLSWCLQRQAADGGFQGRA----------NKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCP  206 (247)
Q Consensus       139 ~~~~~l~~~Q~~dGgf~~~~----------~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p  206 (247)
                      ++++||+++|++||||....          .+.+|+..|.|++.+|...+......++++++||.++|+.+|||...+
T Consensus       513 rA~~~L~~~Q~~DGGWge~~~s~~~~~y~~~~~S~~s~Ta~AL~AL~~ag~~~~~ai~rgv~~L~~~Q~~dG~w~~~~  590 (621)
T TIGR01787       513 KACDWLLSRQMPDGGWGEDCFSYEDPSYVGSGGSTPSQTGWALMALIAAGEADSEAIERGVKYLLETQRPDGDWPQEY  590 (621)
T ss_pred             HHHHHHHhhcCCCCCCCcCCccccccccCCCCCCCHHHHHHHHHHHHHcCccchHHHHHHHHHHHHhCCCCCCCCCcc
Confidence            99999999999999997432          135789999999999987775433357899999999999999997754

This family of enzymes catalyzes the cyclization of the triterpenes squalene or 2-3-oxidosqualene to a variety of products including hopene, lanosterol, cycloartenol, amyrin, lupeol and isomultiflorenol.

>PLN03012 Camelliol C synthase

Probab=99.78  E-value=5.1e-18  Score=163.14  Aligned_cols=192  Identities=17%  Similarity=0.142  Sum_probs=136.4

Q ss_pred             CCcHHHHHHHHHHHHHhC---CCC--CCCC---HHHHHHHHHhcccCCCCccccCCC--------------------CCc
Q 025813            4 GSNLASTYCALAILKAVG---YNF--ANID---SKSILTSMRNLQQHDGSFMPIHFG--------------------AEK   55 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg---~~~--~~~~---~~~~i~~l~~~q~~dGgf~~~~~~--------------------~~~   55 (247)
                      .|.+=+|--++.++.++.   .+.  +.++   ..++++||.++||+||||..+...                    +.+
T Consensus       482 yp~sD~TAe~Lka~lll~~~~~~~~~~~~~~~~l~~av~wlL~mQn~dGGwaafe~~~~~~~le~lnp~E~F~d~mid~~  561 (759)
T PLN03012        482 WQASDCTAEGFKCCLLFSMIAPDIVGPKMDPEQLHDAVNILLSLQSKNGGMTAWEPAGAPEWLELLNPTEMFADIVIEHE  561 (759)
T ss_pred             CCCCCccHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHhccCCCCCEeeecCCcchHHHHhcChhhhhcCeecCCC
Confidence            355567777776533333   111  1122   357899999999999999654320                    112


Q ss_pred             chHHHHHHHHHHHHhcCCC--------cccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccc
Q 025813           56 DLRFVYCAAAICFLLEDWS--------GMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLS  127 (247)
Q Consensus        56 d~~~ty~al~~l~ll~~~~--------~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~  127 (247)
                      -..-|-.++.+|.+++...        ...++++++||++.|++||||.++-+. .....|++||.+|..+|...+.   
T Consensus       562 y~dcTa~~l~aL~~f~~~~~~~r~~~i~~~i~rAv~~L~~~Q~~DGsW~G~Wgv-~y~YgT~~aL~aL~a~g~~~~~---  637 (759)
T PLN03012        562 YNECTSSAIQALILFKQLYPDHRTEEINAFIKKAAEYIENIQMLDGSWYGNWGI-CFTYGTWFALAGLAAAGKTFND---  637 (759)
T ss_pred             cccHHHHHHHHHHHHhhhCcccchhhhHHHHHHHHHHHHHhcCCCCCCcccccc-cCCcHHHHHHHHHHHhCccCCC---
Confidence            2233445567776665321        124678999999999999999987543 3456799999999999885421   


Q ss_pred             cCCCCCCCCHHHHHHHHHhcCCCCCccccccC------------CCCchhhHHHHHHHHHHhcCCCC--CCHHHHHHHHH
Q 025813          128 KNTSSSIIDLPLLLSWCLQRQAADGGFQGRAN------------KPSDTCYAFWIGSVLRMLGGYNL--IDKEALRGFLL  193 (247)
Q Consensus       128 ~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~------------~~~D~~~~y~a~~~L~lL~~~~~--~~~~~~~~~L~  193 (247)
                            ...++++++||++.|++||||+....            +.+.+..|.||+.+|-..|..+.  ..++++++||+
T Consensus       638 ------~~~Irrav~fLls~Q~~DGGWGEs~~Sc~~~~y~~~~~~~S~~~qTaWAl~aLi~ag~~~~~~~~i~Rg~~~Ll  711 (759)
T PLN03012        638 ------CEAIRKGVHFLLAAQKDNGGWGESYLSCPKKIYIAQEGEISNLVQTAWALMGLIHAGQAERDPIPLHRAAKLII  711 (759)
T ss_pred             ------cHHHHHHHHHHHHhcCCCCCcCCCCCCCCCccccCCCCCCCcHHHHHHHHHHHHHcCCCCCCcHHHHHHHHHHH
Confidence                  24588999999999999999986442            24667899999999988876432  24789999999


Q ss_pred             hcCCCCCCcCCC
Q 025813          194 TCQSQYGGFGKC  205 (247)
Q Consensus       194 ~~Q~~~GGf~~~  205 (247)
                      +.|.++|+|-..
T Consensus       712 ~~Q~~dG~W~q~  723 (759)
T PLN03012        712 NSQLENGDFPQQ  723 (759)
T ss_pred             HcccCCCCCCCc
Confidence            999999999654

>COG1689 Uncharacterized protein conserved in archaea [Function unknown]

Probab=99.77  E-value=2.4e-17  Score=134.55  Aligned_cols=199  Identities=17%  Similarity=0.149  Sum_probs=149.2

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHh-cccCCCCcccc-------------------------C-------
Q 025813            4 GSNLASTYCALAILKAVGYNFANIDSKSILTSMRN-LQQHDGSFMPI-------------------------H-------   50 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~-~q~~dGgf~~~-------------------------~-------   50 (247)
                      +.++..||+||.++.+||.  +.+.++|.++||.+ +|..-+++...                         +       
T Consensus        32 pdti~~TyYAi~i~s~lg~--evPr~EktiefL~d~~qt~~~~~a~~~~~l~~lg~~d~~r~~~~l~~~~~~~~e~Kf~~  109 (274)
T COG1689          32 PDTINDTYYAIKIYSLLGH--EVPRKEKTIEFLYDQMQTAGVGVAMAIEFLRILGAKDLARNKMLLLFLKYNPLEEKFAV  109 (274)
T ss_pred             cchhhhhhhhhhhhhhcCC--cCchHHHHHHHHHHHHHHhhhHHHHHHHHHHHhcccccchhhHHHHHhhcCchhHHHhh
Confidence            3457999999999999997  44678999999999 45554443210                         0       


Q ss_pred             -C------CCCcchHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccc
Q 025813           51 -F------GAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED  123 (247)
Q Consensus        51 -~------~~~~d~~~ty~al~~l~ll~~~~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~  123 (247)
                       .      +...-++.|||...+|.+.+.   ...+++.+||++.|+++|++.+--...++...||.|+-+|...+.   
T Consensus       110 ~lggs~~f~t~~~Le~ty~~~~~l~~~n~---~~~eE~k~~v~~~~re~~~g~~YGv~~pnt~~t~~aly~l~~k~~---  183 (274)
T COG1689         110 GLGGSEEFGTATPLEATYWMMSALNMVNY---EYLEEMKEKVIEFVREFGIGDAYGVTHPNTTMTYQALYTLGSKGP---  183 (274)
T ss_pred             hcCceeecCCCchHHHHHHHHHHHHHhCc---CchHHHHHHHHHHhhhhccccccccCCcchHHHHHHHHhhccccc---
Confidence             0      112358899999999999974   356778889999999998777655556677778777766654443   


Q ss_pred             cccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCC-CchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCc
Q 025813          124 NVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKP-SDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGF  202 (247)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~-~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf  202 (247)
                                   ++....|=.. --.+|||.-.|++. +-..-+|+++..|.+|+....  +.+.++||.+.||.+|||
T Consensus       184 -------------~~~v~~Fe~~-c~~~Ggf~~~P~syPPYiE~t~ya~r~lelL~~k~~--i~~~~rFI~slqN~nGGF  247 (274)
T COG1689         184 -------------KEEVRHFELC-CGDWGGFTEVPNSYPPYIEPTFYALRGLELLGGKYC--ISDHIRFIRSLQNQNGGF  247 (274)
T ss_pred             -------------hHHHHhHHhc-cccCCCcccCCCCCCCccchHHHHHhHHHHHccCcC--chHHHHHHHHhhcCCCCe
Confidence                         3334445443 44689999888863 445667999999999997533  477899999999999999


Q ss_pred             CCCC-CCCccHHHHHHHHHHHHhcC
Q 025813          203 GKCP-GDLPDLYHSFYGYTAFSLLE  226 (247)
Q Consensus       203 ~~~p-~~~~d~~~T~~al~~L~ll~  226 (247)
                      +..- ...|...+||+|++.|..+.
T Consensus       248 RRS~~~GISt~e~tYrAl~~L~~l~  272 (274)
T COG1689         248 RRSYELGISTFENTYRALASLASLH  272 (274)
T ss_pred             eeeEeccccchHHHHHHHHHHHHHh
Confidence            8875 56799999999999998764

>PLN02993 lupeol synthase

Probab=99.73  E-value=2.2e-17  Score=159.05  Aligned_cols=145  Identities=19%  Similarity=0.191  Sum_probs=118.8

Q ss_pred             CCCCCcHHHHHHHHHHHHHhCCCC-----CCC--CHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC
Q 025813            1 MHNGSNLASTYCALAILKAVGYNF-----ANI--DSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW   73 (247)
Q Consensus         1 ~~~~~~l~~Ty~a~~~L~~lg~~~-----~~~--~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~   73 (247)
                      |-|+|.+-+|-.+|.+|.+++...     +.+  ..+++++||++.|++||+|.. .+ +.+.+..|++++.+|...|..
T Consensus       557 miD~~~~dcT~~vl~aL~~~~~~~p~~r~~ei~~~i~rAv~yL~~~Q~~DGSW~G-~W-gv~y~YgT~~aL~aL~a~G~~  634 (763)
T PLN02993        557 MVEREYVECTSAVIQALVLFKQLYPDHRTKEIIKSIEKAVQFIESKQTPDGSWYG-NW-GICFIYATWFALGGLAAAGKT  634 (763)
T ss_pred             ccCCCCcCHHHHHHHHHHHhcccCcchhhhhHHHHHHHHHHHHHHhcCCCCCccc-cc-ccccCcHHHHHHHHHHHcCCC
Confidence            568999999999999999998521     111  237899999999999999975 56 667788899999999888864


Q ss_pred             --CcccHHHHHHHHHhcCCCCCCccCCC------------CCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHH
Q 025813           74 --SGMDRERAKAYILNCQSYDGGFGLTP------------GSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPL  139 (247)
Q Consensus        74 --~~~~~~~~~~~l~~~Q~~dGGFg~~p------------~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~  139 (247)
                        +...++|+++||+++|++|||||...            +..|++..|.+|+.+|...|..+.+         ...+++
T Consensus       635 ~~~~~~IrrAv~fLls~Q~~DGGWGEs~~S~~~~~y~~~~~~~St~~qTAwAllaL~~aG~~~~~---------~~~l~R  705 (763)
T PLN02993        635 YNDCLAMRKGVHFLLTIQRDDGGWGESYLSCPEQRYIPLEGNRSNLVQTAWAMMGLIHAGQAERD---------LIPLHR  705 (763)
T ss_pred             CCCcHHHHHHHHHHHHhcCCCCCcCcCcCcCCCcccccCCCCCCchhhHHHHHHHHHHcCCCCCC---------cHHHHH
Confidence              23578999999999999999999852            2468999999999999988874310         235789


Q ss_pred             HHHHHHhcCCCCCcccc
Q 025813          140 LLSWCLQRQAADGGFQG  156 (247)
Q Consensus       140 ~~~~l~~~Q~~dGgf~~  156 (247)
                      +++||++.|.+||+|--
T Consensus       706 gi~~L~~~Q~~~G~W~q  722 (763)
T PLN02993        706 AAKLIITSQLENGDFPQ  722 (763)
T ss_pred             HHHHHHhccCCCCCCCC
Confidence            99999999999999863

>cd02897 A2M_2 Proteins similar to alpha2-macroglobulin (alpha (2)-M)

Probab=99.61  E-value=3.2e-14  Score=124.90  Aligned_cols=212  Identities=14%  Similarity=0.112  Sum_probs=130.8

Q ss_pred             CcHHHHHHHHHHHHHhCC--CCCCCCHHHHHHHHH-------hcccCCCCccccCCC-CCcchHHHHHHHHHHHHhcCC-
Q 025813            5 SNLASTYCALAILKAVGY--NFANIDSKSILTSMR-------NLQQHDGSFMPIHFG-AEKDLRFVYCAAAICFLLEDW-   73 (247)
Q Consensus         5 ~~l~~Ty~a~~~L~~lg~--~~~~~~~~~~i~~l~-------~~q~~dGgf~~~~~~-~~~d~~~ty~al~~l~ll~~~-   73 (247)
                      ++++.++-.+.++..|..  .+..-.++++++||+       ++|++||+|..+... ..++++.|.+++..|...... 
T Consensus        18 q~~~~~~p~~~~~~yl~~~~~~~~~~~~~~~~~l~~g~~~~~~~q~~dGsf~~w~~~~~~~~~wlTa~v~~~L~~a~~~~   97 (292)
T cd02897          18 QNMVNFAPNIYVLDYLKATGQLTPEIESKALGFLRTGYQRQLTYKHSDGSYSAFGESDKSGSTWLTAFVLKSFAQARPFI   97 (292)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHhccCCCCCeecccCCCCCcchhhHHHHHHHHHHHhccC
Confidence            345555555555555542  122222466777776       489999999754321 367889998888888776532 


Q ss_pred             --CcccHHHHHHHHHhcCCCCCCccCCC---------CCCCChhhHHHHHHHHHHhCCccc--cc-------cccCCC-C
Q 025813           74 --SGMDRERAKAYILNCQSYDGGFGLTP---------GSESHGGGTYCAVASLRLMGFIED--NV-------LSKNTS-S  132 (247)
Q Consensus        74 --~~~~~~~~~~~l~~~Q~~dGGFg~~p---------~~~s~~~~T~~al~~L~~lg~~~~--~~-------~~~~~~-~  132 (247)
                        +...++++++||++.|++||||+...         +.++++..|.+++.+|...|..+.  .+       .+.... .
T Consensus        98 ~v~~~~i~ra~~wL~~~Q~~dG~f~~~~~~~~~~~~~~~~~~~~~TA~vl~aL~~~g~~~~~~~i~~a~~yL~~~~~~~~  177 (292)
T cd02897          98 YIDENVLQQALTWLSSHQKSNGCFREVGRVFHKAMQGGVDDEVALTAYVLIALLEAGLPSERPVVEKALSCLEAALDSIS  177 (292)
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCCCCCCcccChhhcCCCCCCcchHHHHHHHHHhcCCccccHHHHHHHHHHHHhcccCC
Confidence              23456899999999999999998531         123556788999999988876421  00       000000 0


Q ss_pred             ---------------CCCCHHHHHHHHHhc---CCCCCccccc----------cC-CCCchhhHHHHHHHHHHhcCCCCC
Q 025813          133 ---------------SIIDLPLLLSWCLQR---QAADGGFQGR----------AN-KPSDTCYAFWIGSVLRMLGGYNLI  183 (247)
Q Consensus       133 ---------------~~~~~~~~~~~l~~~---Q~~dGgf~~~----------~~-~~~D~~~~y~a~~~L~lL~~~~~~  183 (247)
                                     .....+++++++.+.   +..+|+|...          +. ...|+.-|=|++.+|...+.....
T Consensus       178 ~~y~~al~a~AL~~~~~~~~~~~~~~l~~~~~~~~~~~~W~~~~~~~~~~~~~~~~~~~~ve~TAyaLlall~~~~~~~~  257 (292)
T cd02897         178 DPYTLALAAYALTLAGSEKRPEALKKLDELAISEDGTKHWSRPPPSEEGPSYYWQAPSAEVEMTAYALLALLSAGGEDLA  257 (292)
T ss_pred             CHHHHHHHHHHHHHcCCccHHHHHHHHHHHHhccCCCCCCCcCCCcccccccCCCCCcchHHHHHHHHHHHHHcCCccHh
Confidence                           011234555555443   3345666521          11 234677676676666545421122


Q ss_pred             CHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHH
Q 025813          184 DKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFS  223 (247)
Q Consensus       184 ~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~  223 (247)
                      ...++++||.++|+.+|||+...       .|..|+-||+
T Consensus       258 ~~~~~v~WL~~~q~~~Ggf~sTQ-------dt~~al~AL~  290 (292)
T cd02897         258 EALPIVKWLAKQRNSLGGFSSTQ-------DTVVALQALA  290 (292)
T ss_pred             HHHHHHHHHHHcCCCCCCcccHH-------HHHHHHHHHH
Confidence            35678899999999999998774       6888888875

This group also contains the pregnancy zone protein (PZP). Alpha(2)-M and PZP are broadly specific proteinase inhibitors. Alpha (2)-M is a major carrier protein in serum. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of proteases. PZP is a trace protein in the plasma of non-pregnant females and males which is elevated in pregnancy. Alpha (2)-M and PZ bind to placental protein-14 and may modulate its activity in T-cell growth and cytokine production contributing to fetal survival. It has been suggested that thioester bond cleavage promotes the binding of PZ and alpha (2)-M to the CD91 receptor clearing them from circulation.

>KOG0497 consensus Oxidosqualene-lanosterol cyclase and related proteins [Lipid transport and metabolism]

Probab=99.60  E-value=1.1e-14  Score=135.98  Aligned_cols=221  Identities=20%  Similarity=0.178  Sum_probs=156.1

Q ss_pred             CcHHHHHHHHHHHHHhCCCCCCCC-HHHHHHHHHhcccCC---------------CCccccCCC-CCcchHHHHHHHHHH
Q 025813            5 SNLASTYCALAILKAVGYNFANID-SKSILTSMRNLQQHD---------------GSFMPIHFG-AEKDLRFVYCAAAIC   67 (247)
Q Consensus         5 ~~l~~Ty~a~~~L~~lg~~~~~~~-~~~~i~~l~~~q~~d---------------Ggf~~~~~~-~~~d~~~ty~al~~l   67 (247)
                      +-++.|-+|++++...+.+.+-.+ ..+..+||++.|..+               |+|..+... +-.-...|-=++..+
T Consensus       415 sQ~Wdt~falqalla~~~~~E~~~~l~k~~~yl~~sQv~~n~~gd~~~~yR~~~kG~wtfS~~d~gw~vsDctaEal~~~  494 (760)
T KOG0497|consen  415 SQLWDTAFALQALLAAGLVDEFRSTLVKAYDFLKKSQVRENPPGDFKKMYRHISKGGWTFSDRDQGWPVSDCTAEALKCC  494 (760)
T ss_pred             hhHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcccccCCCcchhhheeccccccccccccccceeeccccHHHHHHH
Confidence            567899999999988886422112 368899999988542               223211100 000011122233444


Q ss_pred             HHhcCC------CcccHH---HHHHHHHhcCCCCCCccCCC-------------C--------CCCChhhHHHHHHHHHH
Q 025813           68 FLLEDW------SGMDRE---RAKAYILNCQSYDGGFGLTP-------------G--------SESHGGGTYCAVASLRL  117 (247)
Q Consensus        68 ~ll~~~------~~~~~~---~~~~~l~~~Q~~dGGFg~~p-------------~--------~~s~~~~T~~al~~L~~  117 (247)
                      -+++..      ..++.+   ++++.|+..|+.+|||....             .        .++.+..|..+|++|..
T Consensus       495 lll~~~~~~~vg~~~~~erL~dav~~Ll~lq~~~Gg~~~~e~~r~~~wLE~lnp~E~f~~~~ve~~yvEcT~s~I~aL~~  574 (760)
T KOG0497|consen  495 LLLSSMPSEIVGEKIDVERLYDAVDVLLYLQSENGGFAAYEPARGYEWLELLNPAEVFGDIMVEYEYVECTSSAIQALVY  574 (760)
T ss_pred             HHhcCCChhhccCCCCHHHHHHHHHHHHhhhhccCccccccccchHHHHHhcCchhcccceeeeecccccHHHHHHHHHh
Confidence            445432      345555   56778999999999998751             1        34678899999999999


Q ss_pred             hCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHH---HHHHHHHhcCC--CCCCHHHHHHHH
Q 025813          118 MGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFW---IGSVLRMLGGY--NLIDKEALRGFL  192 (247)
Q Consensus       118 lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~---a~~~L~lL~~~--~~~~~~~~~~~L  192 (247)
                      ..+..++.+.++.   ...+++++.||.+.|.+||+|.|.++    +|++|-   ++.+|...|+.  +...++++++||
T Consensus       575 F~k~~p~~r~~Ei---~~~i~~av~~ie~~Q~~DGSWyGsWg----vCFtY~t~Fa~~gl~aaGkty~nc~~irka~~Fl  647 (760)
T KOG0497|consen  575 FHKLFPGHRKKEI---EKSIEKAVEFIEKLQLPDGSWYGSWG----VCFTYGTWFALRGLAAAGKTYENCEAIRKACDFL  647 (760)
T ss_pred             hcccCccHHHHHH---HHHHHHHHHHHHHcCCCCCcccchhh----HHHHHHHHHhcchhhhcchhhhccHHHHHHHHHH
Confidence            9887666554433   23578899999999999999999999    888887   44555555653  233478999999


Q ss_pred             HhcCCCCCCcCCCCC------------CCccHHHHHHHHHHHHhcCCCCCCC
Q 025813          193 LTCQSQYGGFGKCPG------------DLPDLYHSFYGYTAFSLLEEPGLNP  232 (247)
Q Consensus       193 ~~~Q~~~GGf~~~p~------------~~~d~~~T~~al~~L~ll~~~~~~~  232 (247)
                      ++.|+.+||++..+.            ..+++..|.||+.+|.+.++....+
T Consensus       648 l~~Q~~~GGWgEs~lscp~~~Yi~~~gn~s~vv~T~wAlm~Li~~~q~~rd~  699 (760)
T KOG0497|consen  648 LSKQNPDGGWGESYLSCPEKRYIPLEGNKSNVVQTAWALMALIMAGQAERDP  699 (760)
T ss_pred             HhhhcccCCCccccccCccccccccccccccchhHHHHHHHHHhcCCccccc
Confidence            999999999999753            3578999999999999999987663

>COG1689 Uncharacterized protein conserved in archaea [Function unknown]

Probab=99.60  E-value=1.3e-14  Score=118.59  Aligned_cols=183  Identities=20%  Similarity=0.296  Sum_probs=138.4

Q ss_pred             CCCHHHHHHHHHhcccCCCCccccCCCCCcc-hHHHHHHHHHHHHhcCCCcccHHHHHHHHHh-cCCCCCCccCC-----
Q 025813           26 NIDSKSILTSMRNLQQHDGSFMPIHFGAEKD-LRFVYCAAAICFLLEDWSGMDRERAKAYILN-CQSYDGGFGLT-----   98 (247)
Q Consensus        26 ~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d-~~~ty~al~~l~ll~~~~~~~~~~~~~~l~~-~Q~~dGGFg~~-----   98 (247)
                      .++.++.++||..+|++||||.....  -+| +..||+|+.++.+||. +.+.++|.++||.+ +|..-+||...     
T Consensus         5 ~i~l~rvi~fi~~RrhedGGy~f~~~--Lpdti~~TyYAi~i~s~lg~-evPr~EktiefL~d~~qt~~~~~a~~~~~l~   81 (274)
T COG1689           5 YINLNRVIEFIEKRRHEDGGYCFVSQ--LPDTINDTYYAIKIYSLLGH-EVPRKEKTIEFLYDQMQTAGVGVAMAIEFLR   81 (274)
T ss_pred             hhhHHHHHHHHHHhhcCCCCeEEecc--CcchhhhhhhhhhhhhhcCC-cCchHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            36789999999999999999986542  233 5999999999999996 67889999999987 34555555431     


Q ss_pred             -----------------------------------CCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHH
Q 025813           99 -----------------------------------PGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSW  143 (247)
Q Consensus        99 -----------------------------------p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~  143 (247)
                                                         .+...-+..||+...+|.+.+...              .+.+..|
T Consensus        82 ~lg~~d~~r~~~~l~~~~~~~~e~Kf~~~lggs~~f~t~~~Le~ty~~~~~l~~~n~~~--------------~eE~k~~  147 (274)
T COG1689          82 ILGAKDLARNKMLLLFLKYNPLEEKFAVGLGGSEEFGTATPLEATYWMMSALNMVNYEY--------------LEEMKEK  147 (274)
T ss_pred             HhcccccchhhHHHHHhhcCchhHHHhhhcCceeecCCCchHHHHHHHHHHHHHhCcCc--------------hHHHHHH
Confidence                                               012234778999999999888653              3567888


Q ss_pred             HHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCcc-HHHHHHHHHHH
Q 025813          144 CLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPD-LYHSFYGYTAF  222 (247)
Q Consensus       144 l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d-~~~T~~al~~L  222 (247)
                      +++-|+++|++.+-.-+.+.+..+|.|+-+|..++     -.+...+|=.+| -.+|||...|++.|. +..||+|+..|
T Consensus       148 v~~~~re~~~g~~YGv~~pnt~~t~~aly~l~~k~-----~~~~v~~Fe~~c-~~~Ggf~~~P~syPPYiE~t~ya~r~l  221 (274)
T COG1689         148 VIEFVREFGIGDAYGVTHPNTTMTYQALYTLGSKG-----PKEEVRHFELCC-GDWGGFTEVPNSYPPYIEPTFYALRGL  221 (274)
T ss_pred             HHHHhhhhccccccccCCcchHHHHHHHHhhcccc-----chHHHHhHHhcc-ccCCCcccCCCCCCCccchHHHHHhHH
Confidence            88889988877654444556888888877776554     235666665555 458999999998755 77999999999


Q ss_pred             HhcCCCCCC
Q 025813          223 SLLEEPGLN  231 (247)
Q Consensus       223 ~ll~~~~~~  231 (247)
                      .+|++....
T Consensus       222 elL~~k~~i  230 (274)
T COG1689         222 ELLGGKYCI  230 (274)
T ss_pred             HHHccCcCc
Confidence            999998443

>cd02896 complement_C3_C4_C5 Proteins similar to C3, C4 and C5 of vertebrate complement

Probab=99.51  E-value=1.5e-12  Score=114.64  Aligned_cols=179  Identities=13%  Similarity=0.031  Sum_probs=124.9

Q ss_pred             HHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC---CcccHHHHHHHHHhcCCCCCCccCCC-------
Q 025813           30 KSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW---SGMDRERAKAYILNCQSYDGGFGLTP-------   99 (247)
Q Consensus        30 ~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~---~~~~~~~~~~~l~~~Q~~dGGFg~~p-------   99 (247)
                      ++.++.+.++|++||+|..+.. ..++++.|-+++..|......   +....+++++||++.|++||+|...-       
T Consensus        55 ~~g~~r~l~~q~~dGsf~~w~~-~~~s~wlTA~v~~~l~~a~~~~~v~~~~l~~a~~wL~~~Q~~dG~f~e~~~~~~~~m  133 (297)
T cd02896          55 RQGYQRQLSYRKPDGSYAAWKN-RPSSTWLTAFVVKVFSLARKYIPVDQNVICGSVNWLISNQKPDGSFQEPSPVIHREM  133 (297)
T ss_pred             HHHHHHHHhccCCCCCccCCCC-CCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCCeeCCCCCccChhc
Confidence            4556777788999999976543 577889888888888777532   23346789999999999999999752       


Q ss_pred             -----CCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHH
Q 025813          100 -----GSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVL  174 (247)
Q Consensus       100 -----~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L  174 (247)
                           +.++++..|.+++.+|...+...+....+    ....++++++||.++|.+          ..++.....+.-+|
T Consensus       134 ~gg~~~~~~~~~lTA~vl~aL~~~~~~~~~~~~~----~~~~i~rA~~yL~~~~~~----------~~~~Y~~Al~ayAL  199 (297)
T cd02896         134 TGGVEGSEGDVSLTAFVLIALQEARSICPPEVQN----LDQSIRKAISYLENQLPN----------LQRPYALAITAYAL  199 (297)
T ss_pred             cCCccccCCCccchHHHHHHHHhhhccccccchh----hHHHHHHHHHHHHHhccc----------CCChHHHHHHHHHH
Confidence                 11367788999999988877542110000    023578999999998754          12332222234455


Q ss_pred             HHhcCCCCCCHHHHHHHHHhcCCCCCCcCCC-----------CCCCccHHHHHHHHHHHHhcC
Q 025813          175 RMLGGYNLIDKEALRGFLLTCQSQYGGFGKC-----------PGDLPDLYHSFYGYTAFSLLE  226 (247)
Q Consensus       175 ~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~-----------p~~~~d~~~T~~al~~L~ll~  226 (247)
                      ++.+..   ..+++.++|.+.|+.+||+...           +....++..|.||+.++...+
T Consensus       200 al~~~~---~~~~a~~~L~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~vE~TAYALLall~~~  259 (297)
T cd02896         200 ALADSP---LSHAANRKLLSLAKRDGNGWYWWTIDSPYWPVPGPSAITVETTAYALLALLKLG  259 (297)
T ss_pred             HHcCCh---hhHHHHHHHHHHhhhCCCcceeccCcCccCCCCCCchhhhHHHHHHHHHHHhcC
Confidence            555532   4578899999999999998742           112347999999999988776

The vertebrate complement system, comprised of a large number of distinct plasma proteins, is an effector of both the acquired and innate immune systems. The point of convergence of the classical, alternative and lectin pathways of the complement system is the proteolytic activation of C3. C4 plays a key role in propagating the classical and lectin pathways. C5 participates in the classical and alternative pathways. The thioester bond located within the structure of C3 and C4 is central to the function of complement. C5 does not contain an active thioester bond.

>PF00432 Prenyltrans: Prenyltransferase and squalene oxidase repeat This Prosite family is a subset of the Pfam family

Probab=99.44  E-value=1.7e-13  Score=86.23  Aligned_cols=44  Identities=45%  Similarity=0.731  Sum_probs=42.0

Q ss_pred             CCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHHhcC
Q 025813          183 IDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLE  226 (247)
Q Consensus       183 ~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~ll~  226 (247)
                      +|++++++||++||+++|||+.+|++++|++||||++++|+++|
T Consensus         1 id~~~~~~~l~~~Q~~dGGf~~~~~~~~d~~~t~~~~~~L~llg   44 (44)
T PF00432_consen    1 IDVEKLIRFLLSCQNPDGGFGGRPGGESDTCYTYCALAALSLLG   44 (44)
T ss_dssp             SHHHHHHHHHHHTBBTTSSBBSSTTSSBBHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHCCCCCCCCCCCCCCCChHHHHHHHHHHHHcC
Confidence            46899999999999999999999999999999999999999986

; InterPro: IPR001330 The beta subunit of the farnesyltransferases is responsible for peptide binding. Squalene-hopene cyclase is a bacterial enzyme that catalyzes the cyclization of squalene into hopene, a key step in hopanoid (triterpenoid) metabolism []. Lanosterol synthase (5.4.99.7 from EC) (oxidosqualene-lanosterol cyclase) catalyzes the cyclization of (S)-2,3-epoxysqualene to lanosterol, the initial precursor of cholesterol, steroid hormones and vitamin D in vertebrates and of ergosterol in fungi []. Cycloartenol synthase () (2,3-epoxysqualene-cycloartenol cyclase) is a plant enzyme that catalyzes the cyclization of (S)-2,3-epoxysqualene to cycloartenol.; GO: 0003824 catalytic activity; PDB: 2IEJ_B 1LD7_B 1LD8_B 2H6G_B 1TN6_B 1S63_B 1MZC_B 2H6I_B 2H6F_B 1JCQ_B ....

>KOG0497 consensus Oxidosqualene-lanosterol cyclase and related proteins [Lipid transport and metabolism]

Probab=99.44  E-value=4.7e-13  Score=125.34  Aligned_cols=144  Identities=21%  Similarity=0.176  Sum_probs=119.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHhCCCCCC-----CC--HHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC
Q 025813            1 MHNGSNLASTYCALAILKAVGYNFAN-----ID--SKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW   73 (247)
Q Consensus         1 ~~~~~~l~~Ty~a~~~L~~lg~~~~~-----~~--~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~   73 (247)
                      |-+.+.|.||-++|++|..+.+.+..     +.  .+++++||++.|.+||+|.. +| +.+-+..|++++.++...|.-
T Consensus       556 ~ve~~yvEcT~s~I~aL~~F~k~~p~~r~~Ei~~~i~~av~~ie~~Q~~DGSWyG-sW-gvCFtY~t~Fa~~gl~aaGkt  633 (760)
T KOG0497|consen  556 MVEYEYVECTSSAIQALVYFHKLFPGHRKKEIEKSIEKAVEFIEKLQLPDGSWYG-SW-GVCFTYGTWFALRGLAAAGKT  633 (760)
T ss_pred             eeeecccccHHHHHHHHHhhcccCccHHHHHHHHHHHHHHHHHHHcCCCCCcccc-hh-hHHHHHHHHHhcchhhhcchh
Confidence            45678999999999999999975421     21  25789999999999999984 66 666777778888888888743


Q ss_pred             --CcccHHHHHHHHHhcCCCCCCccCCC------------CCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHH
Q 025813           74 --SGMDRERAKAYILNCQSYDGGFGLTP------------GSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPL  139 (247)
Q Consensus        74 --~~~~~~~~~~~l~~~Q~~dGGFg~~p------------~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~  139 (247)
                        +...+++++.||++.|++|||||.++            ++.+++..|.+|+.+|.+.|..+.+         ....+|
T Consensus       634 y~nc~~irka~~Fll~~Q~~~GGWgEs~lscp~~~Yi~~~gn~s~vv~T~wAlm~Li~~~q~~rd---------~~P~hr  704 (760)
T KOG0497|consen  634 YENCEAIRKACDFLLSKQNPDGGWGESYLSCPEKRYIPLEGNKSNVVQTAWALMALIMAGQAERD---------PLPLHR  704 (760)
T ss_pred             hhccHHHHHHHHHHHhhhcccCCCccccccCccccccccccccccchhHHHHHHHHHhcCCcccc---------cchHHH
Confidence              56778999999999999999999973            3468999999999999999987522         346899


Q ss_pred             HHHHHHhcCCCCCccc
Q 025813          140 LLSWCLQRQAADGGFQ  155 (247)
Q Consensus       140 ~~~~l~~~Q~~dGgf~  155 (247)
                      ++..|...|.++|-|.
T Consensus       705 ~ak~linsQ~~nGdfp  720 (760)
T KOG0497|consen  705 AAKVLINSQLENGDFP  720 (760)
T ss_pred             HHHHHHhcccccCCcc
Confidence            9999999999999986

>PF00432 Prenyltrans: Prenyltransferase and squalene oxidase repeat This Prosite family is a subset of the Pfam family

Probab=99.39  E-value=4.1e-13  Score=84.48  Aligned_cols=44  Identities=43%  Similarity=0.774  Sum_probs=41.9

Q ss_pred             CCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhc
Q 025813          135 IDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLG  178 (247)
Q Consensus       135 ~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~  178 (247)
                      +|++++++||.++|++||||+++|++++|+++|||++++|++||
T Consensus         1 id~~~~~~~l~~~Q~~dGGf~~~~~~~~d~~~t~~~~~~L~llg   44 (44)
T PF00432_consen    1 IDVEKLIRFLLSCQNPDGGFGGRPGGESDTCYTYCALAALSLLG   44 (44)
T ss_dssp             SHHHHHHHHHHHTBBTTSSBBSSTTSSBBHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHCCCCCCCCCCCCCCCChHHHHHHHHHHHHcC
Confidence            36899999999999999999999999999999999999999986

; InterPro: IPR001330 The beta subunit of the farnesyltransferases is responsible for peptide binding. Squalene-hopene cyclase is a bacterial enzyme that catalyzes the cyclization of squalene into hopene, a key step in hopanoid (triterpenoid) metabolism []. Lanosterol synthase (5.4.99.7 from EC) (oxidosqualene-lanosterol cyclase) catalyzes the cyclization of (S)-2,3-epoxysqualene to lanosterol, the initial precursor of cholesterol, steroid hormones and vitamin D in vertebrates and of ergosterol in fungi []. Cycloartenol synthase () (2,3-epoxysqualene-cycloartenol cyclase) is a plant enzyme that catalyzes the cyclization of (S)-2,3-epoxysqualene to cycloartenol.; GO: 0003824 catalytic activity; PDB: 2IEJ_B 1LD7_B 1LD8_B 2H6G_B 1TN6_B 1S63_B 1MZC_B 2H6I_B 2H6F_B 1JCQ_B ....

>cd02896 complement_C3_C4_C5 Proteins similar to C3, C4 and C5 of vertebrate complement

Probab=99.38  E-value=2.3e-11  Score=107.21  Aligned_cols=187  Identities=15%  Similarity=0.041  Sum_probs=128.3

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCCCCC---HHHHHHHHHhcccCCCCccccCC-------CC----CcchHHHHHHHHHHH
Q 025813            3 NGSNLASTYCALAILKAVGYNFANID---SKSILTSMRNLQQHDGSFMPIHF-------GA----EKDLRFVYCAAAICF   68 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~~~~~~~---~~~~i~~l~~~q~~dGgf~~~~~-------~~----~~d~~~ty~al~~l~   68 (247)
                      .+++.+.|-+++.+|...++.. .++   .++.++||.+.|++||+|.....       ++    ++++..|-+++.+|.
T Consensus        77 ~~~s~wlTA~v~~~l~~a~~~~-~v~~~~l~~a~~wL~~~Q~~dG~f~e~~~~~~~~m~gg~~~~~~~~~lTA~vl~aL~  155 (297)
T cd02896          77 RPSSTWLTAFVVKVFSLARKYI-PVDQNVICGSVNWLISNQKPDGSFQEPSPVIHREMTGGVEGSEGDVSLTAFVLIALQ  155 (297)
T ss_pred             CCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhcCCCCCeeCCCCCccChhccCCccccCCCccchHHHHHHHH
Confidence            4678888999999999887532 233   36799999999999999986321       11    245666666666665


Q ss_pred             HhcCCC-------cccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHH
Q 025813           69 LLEDWS-------GMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLL  141 (247)
Q Consensus        69 ll~~~~-------~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~  141 (247)
                      -.+...       ...++++++||.++|.+-          .++..+..+..+|++.|..              ...++.
T Consensus       156 ~~~~~~~~~~~~~~~~i~rA~~yL~~~~~~~----------~~~Y~~Al~ayALal~~~~--------------~~~~a~  211 (297)
T cd02896         156 EARSICPPEVQNLDQSIRKAISYLENQLPNL----------QRPYALAITAYALALADSP--------------LSHAAN  211 (297)
T ss_pred             hhhccccccchhhHHHHHHHHHHHHHhcccC----------CChHHHHHHHHHHHHcCCh--------------hhHHHH
Confidence            554321       125679999999987651          2344455455567776653              367899


Q ss_pred             HHHHhcCCCCCccccccC-----------CCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCc
Q 025813          142 SWCLQRQAADGGFQGRAN-----------KPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLP  210 (247)
Q Consensus       142 ~~l~~~Q~~dGgf~~~~~-----------~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~  210 (247)
                      ++|.++|..|||+...+.           ...++.-|=||+-++-..+  ......++++||.+.|+..|||...     
T Consensus       212 ~~L~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~vE~TAYALLall~~~--~~~~a~~iv~WL~~qr~~~Ggf~sT-----  284 (297)
T cd02896         212 RKLLSLAKRDGNGWYWWTIDSPYWPVPGPSAITVETTAYALLALLKLG--DIEYANPIARWLTEQRNYGGGFGST-----  284 (297)
T ss_pred             HHHHHHhhhCCCcceeccCcCccCCCCCCchhhhHHHHHHHHHHHhcC--CchhHHHHHHHHHhcCCCCCCeehH-----
Confidence            999999999999874221           1225666666655443344  2335678999999999999999865     


Q ss_pred             cHHHHHHHHHHHH
Q 025813          211 DLYHSFYGYTAFS  223 (247)
Q Consensus       211 d~~~T~~al~~L~  223 (247)
                        -.|..||-||+
T Consensus       285 --QdTvval~AL~  295 (297)
T cd02896         285 --QDTVVALQALA  295 (297)
T ss_pred             --HHHHHHHHHHh
Confidence              36777887775

The vertebrate complement system, comprised of a large number of distinct plasma proteins, is an effector of both the acquired and innate immune systems. The point of convergence of the classical, alternative and lectin pathways of the complement system is the proteolytic activation of C3. C4 plays a key role in propagating the classical and lectin pathways. C5 participates in the classical and alternative pathways. The thioester bond located within the structure of C3 and C4 is central to the function of complement. C5 does not contain an active thioester bond.

>PF13243 Prenyltrans_1: Prenyltransferase-like; PDB: 3SDR_A 3SAE_A 3SDV_A 3SDT_A 3SDQ_A 3SDU_A

Probab=99.32  E-value=9.1e-13  Score=98.70  Aligned_cols=105  Identities=25%  Similarity=0.255  Sum_probs=40.8

Q ss_pred             HHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC-CcccHHHHHHHHHhcCCCCCCccCCCCCCCChhhH
Q 025813           30 KSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW-SGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGT  108 (247)
Q Consensus        30 ~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~-~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T  108 (247)
                      +++++||.+.|+|||+|.. ++  ..+...|++++.++..++.. ....++++++||+++|++||||+..+.  ++...|
T Consensus         2 ~~~~~~l~~~Q~~dG~W~~-~~--~~~~~~t~~~~~al~~~~~~~~~~ai~ka~~~l~~~Q~~dG~w~~~~~--~~~~~t   76 (109)
T PF13243_consen    2 KRAAEWLLSQQNPDGSWGY-NW--GSDVFVTAALILALAAAGDAAVDEAIKKAIDWLLSHQNPDGGWGYSGG--EYVSMT   76 (109)
T ss_dssp             ------------------------------------------TS-SSBSSHHHHHHHHH---TTS--S-TS----HHHHH
T ss_pred             ccccccccccccccccccc-cc--cccccccccccccccccCCCCcHHHHHHHHHHHHHhcCCCCCCCCcCC--CCHHHH
Confidence            5789999999999999974 43  35678888888888888743 345679999999999999999998733  346667


Q ss_pred             HHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCC
Q 025813          109 YCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQA  149 (247)
Q Consensus       109 ~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~  149 (247)
                      ..++.+|.+.+....          ....+++++||++.|.
T Consensus        77 ~~~~~~l~~~~~~~~----------~~~~~r~~~wi~~~~~  107 (109)
T PF13243_consen   77 AAAIAALALAGVYPD----------DEAVERGLEWILSHQL  107 (109)
T ss_dssp             HHHHHHHHHHHTT------------HHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHhCCCCC----------CHHHHHHHHHHHHccC
Confidence            777888776655321          2347899999999864

>PF13243 Prenyltrans_1: Prenyltransferase-like; PDB: 3SDR_A 3SAE_A 3SDV_A 3SDT_A 3SDQ_A 3SDU_A

Probab=99.27  E-value=3.9e-12  Score=95.23  Aligned_cols=106  Identities=22%  Similarity=0.192  Sum_probs=35.0

Q ss_pred             HHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccc
Q 025813           78 RERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGR  157 (247)
Q Consensus        78 ~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~  157 (247)
                      ++++++||++.|++||+|+...  +++...|++++.+|...+....          ...++++++||.++|++||||...
T Consensus         1 i~~~~~~l~~~Q~~dG~W~~~~--~~~~~~t~~~~~al~~~~~~~~----------~~ai~ka~~~l~~~Q~~dG~w~~~   68 (109)
T PF13243_consen    1 IKRAAEWLLSQQNPDGSWGYNW--GSDVFVTAALILALAAAGDAAV----------DEAIKKAIDWLLSHQNPDGGWGYS   68 (109)
T ss_dssp             ------------------------------------------TS-S----------SBSSHHHHHHHHH---TTS--S-T
T ss_pred             Cccccccccccccccccccccc--cccccccccccccccccCCCCc----------HHHHHHHHHHHHHhcCCCCCCCCc
Confidence            4688999999999999998653  3678889898988888875321          345789999999999999999977


Q ss_pred             cCCCCchhhHHHHHHHHHHhcCCC-CCCHHHHHHHHHhcCC
Q 025813          158 ANKPSDTCYAFWIGSVLRMLGGYN-LIDKEALRGFLLTCQS  197 (247)
Q Consensus       158 ~~~~~D~~~~y~a~~~L~lL~~~~-~~~~~~~~~~L~~~Q~  197 (247)
                      +..  ....+-.++.++.+.+..+ ...++++++||++.|.
T Consensus        69 ~~~--~~~~t~~~~~~l~~~~~~~~~~~~~r~~~wi~~~~~  107 (109)
T PF13243_consen   69 GGE--YVSMTAAAIAALALAGVYPDDEAVERGLEWILSHQL  107 (109)
T ss_dssp             S----HHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHH--
T ss_pred             CCC--CHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccC
Confidence            332  2223334455554444321 1236899999998875

>cd02891 A2M_like Proteins similar to alpha2-macroglobulin (alpha (2)-M)

Probab=99.13  E-value=5e-09  Score=91.04  Aligned_cols=172  Identities=15%  Similarity=0.072  Sum_probs=110.2

Q ss_pred             HHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC---CcccHHHHHHHHHhcCCCCCCccCCCC------
Q 025813           30 KSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW---SGMDRERAKAYILNCQSYDGGFGLTPG------  100 (247)
Q Consensus        30 ~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~---~~~~~~~~~~~l~~~Q~~dGGFg~~p~------  100 (247)
                      ++.+++|.++|++||||..++..+.++++.|.+++..|......   +...++++++||.+.|++||+|.....      
T Consensus        52 ~~~~~~l~~~Q~~dGgf~~w~~~~~~~~~~Ta~~~~~L~~a~~~~~v~~~~i~ra~~~L~~~q~~~g~~~~~~~~~~~~~  131 (282)
T cd02891          52 RKGYQRLLTYQRSDGSFSAWGNSDSGSTWLTAYVVKFLSQARKYIDVDENVLARALGWLVPQQKEDGSFRELGPVIHREM  131 (282)
T ss_pred             HHHHHHHHhhcCCCCCccccCCCCCCchHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhccCCCCCcCCCCCccCHhh
Confidence            57899999999999999876543378999998888888766432   223478999999999999999987533      


Q ss_pred             ---CCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHh
Q 025813          101 ---SESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRML  177 (247)
Q Consensus       101 ---~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL  177 (247)
                         ..+....|.+++.+|...|...           ...+.++++||.+....          ..+......+..+|.++
T Consensus       132 ~~~~~~~~~~tA~al~~L~~~g~~~-----------~~~~~~a~~~L~~~~~~----------~~~~~~~a~la~al~~~  190 (282)
T cd02891         132 KGGVDDSVSLTAYVLIALAEAGKAC-----------DASIEKALAYLETQLDG----------LLDPYALAILAYALALA  190 (282)
T ss_pred             cCCcCCCcchHHHHHHHHHHhcccc-----------hHHHHHHHHHHHHhccc----------CCChHHHHHHHHHHHHc
Confidence               2345567888888888887742           12467899999987643          11222223344556666


Q ss_pred             cCCCCCCHHHHHHHHHhcCCCCCCc-------CCCCCCCccHHHHHHHHHHHHh
Q 025813          178 GGYNLIDKEALRGFLLTCQSQYGGF-------GKCPGDLPDLYHSFYGYTAFSL  224 (247)
Q Consensus       178 ~~~~~~~~~~~~~~L~~~Q~~~GGf-------~~~p~~~~d~~~T~~al~~L~l  224 (247)
                      |...  ..+++++-|.+.-...++.       ....+...+...|.+++.+...
T Consensus       191 g~~~--~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~s~~~~~a~a~all~~~~  242 (282)
T cd02891         191 GDST--RADEALKKLLEAAREKGGTAHWSLSWPGDYGSSLRVEATAYALLALLK  242 (282)
T ss_pred             CccH--HHHHHHHHHHHHhhhcCCcccccCCCCCCCCchhhHHHHHHHHHHHHh
Confidence            5421  1234455554433333321       1112233445666666666543

Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of proteases. This group contains another broadly specific proteinase inhibitor: pregnancy zone protein (PZP). PZP is a trace protein in the plasma of non-pregnant females and males which is elevated in pregnancy. Alpha (2)-M and PZ bind to placental protein-14 and may modulate its activity in T-cell growth and cytokine production thereby protecting the allogeneic fetus from attack by the maternal immune system. This group also contains C3, C4 and C5 of vertebrate complement. The vertebrate complement is an effector of both the acquired and innate immune systems The point of convergence of the classical, alternative and lectin pathways of the complement system is the proteolytic activation of C3. C4 plays a key role in propaga

>cd02897 A2M_2 Proteins similar to alpha2-macroglobulin (alpha (2)-M)

Probab=99.09  E-value=4e-09  Score=92.56  Aligned_cols=138  Identities=14%  Similarity=0.084  Sum_probs=93.1

Q ss_pred             cCCCcccHHHHHHHHH-------hcCCCCCCccCCCCC--CCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHH
Q 025813           71 EDWSGMDRERAKAYIL-------NCQSYDGGFGLTPGS--ESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLL  141 (247)
Q Consensus        71 ~~~~~~~~~~~~~~l~-------~~Q~~dGGFg~~p~~--~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~  141 (247)
                      +..++..++++.+||.       ++|++||||+..+..  +++.+.|..++.+|.......+ +       ....+++++
T Consensus        37 ~~~~~~~~~~~~~~l~~g~~~~~~~q~~dGsf~~w~~~~~~~~~wlTa~v~~~L~~a~~~~~-v-------~~~~i~ra~  108 (292)
T cd02897          37 GQLTPEIESKALGFLRTGYQRQLTYKHSDGSYSAFGESDKSGSTWLTAFVLKSFAQARPFIY-I-------DENVLQQAL  108 (292)
T ss_pred             cCCCHHHHHHHHHHHHHHHHHHHhccCCCCCeecccCCCCCcchhhHHHHHHHHHHHhccCC-C-------CHHHHHHHH
Confidence            3344444455555554       699999999887554  7889999999999988764210 0       022478899


Q ss_pred             HHHHhcCCCCCcccccc---------CCCCchhhHHHHHHHHHHhcCCC-CCCHHHHHHHHHhcCCCCCCcCCCCCCCcc
Q 025813          142 SWCLQRQAADGGFQGRA---------NKPSDTCYAFWIGSVLRMLGGYN-LIDKEALRGFLLTCQSQYGGFGKCPGDLPD  211 (247)
Q Consensus       142 ~~l~~~Q~~dGgf~~~~---------~~~~D~~~~y~a~~~L~lL~~~~-~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d  211 (247)
                      +||.++|++||||....         +...++.-|-+++.+|...+... ...++++++||.+.+..          ..+
T Consensus       109 ~wL~~~Q~~dG~f~~~~~~~~~~~~~~~~~~~~~TA~vl~aL~~~g~~~~~~~i~~a~~yL~~~~~~----------~~~  178 (292)
T cd02897         109 TWLSSHQKSNGCFREVGRVFHKAMQGGVDDEVALTAYVLIALLEAGLPSERPVVEKALSCLEAALDS----------ISD  178 (292)
T ss_pred             HHHHHhcCCCCCCCCCCcccChhhcCCCCCCcchHHHHHHHHHhcCCccccHHHHHHHHHHHHhccc----------CCC
Confidence            99999999999998421         11122333455666665555432 12358999999987753          356


Q ss_pred             HHHHHHHHHHHHhcC
Q 025813          212 LYHSFYGYTAFSLLE  226 (247)
Q Consensus       212 ~~~T~~al~~L~ll~  226 (247)
                      ++.+..+..+|.+.+
T Consensus       179 ~y~~al~a~AL~~~~  193 (292)
T cd02897         179 PYTLALAAYALTLAG  193 (292)
T ss_pred             HHHHHHHHHHHHHcC
Confidence            788888888888887

This group also contains the pregnancy zone protein (PZP). Alpha(2)-M and PZP are broadly specific proteinase inhibitors. Alpha (2)-M is a major carrier protein in serum. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of proteases. PZP is a trace protein in the plasma of non-pregnant females and males which is elevated in pregnancy. Alpha (2)-M and PZ bind to placental protein-14 and may modulate its activity in T-cell growth and cytokine production contributing to fetal survival. It has been suggested that thioester bond cleavage promotes the binding of PZ and alpha (2)-M to the CD91 receptor clearing them from circulation.

>cd02891 A2M_like Proteins similar to alpha2-macroglobulin (alpha (2)-M)

Probab=99.01  E-value=6.9e-09  Score=90.15  Aligned_cols=132  Identities=21%  Similarity=0.130  Sum_probs=92.4

Q ss_pred             HHHHHHHHHhcCCCCCCccCCCCC-CCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCcccc
Q 025813           78 RERAKAYILNCQSYDGGFGLTPGS-ESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQG  156 (247)
Q Consensus        78 ~~~~~~~l~~~Q~~dGGFg~~p~~-~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~  156 (247)
                      +++++++|+++|++||||+..++. +++...|.+++..|..+....+ .       ....++++++||.+.|.+||+|..
T Consensus        51 i~~~~~~l~~~Q~~dGgf~~w~~~~~~~~~~Ta~~~~~L~~a~~~~~-v-------~~~~i~ra~~~L~~~q~~~g~~~~  122 (282)
T cd02891          51 IRKGYQRLLTYQRSDGSFSAWGNSDSGSTWLTAYVVKFLSQARKYID-V-------DENVLARALGWLVPQQKEDGSFRE  122 (282)
T ss_pred             HHHHHHHHHhhcCCCCCccccCCCCCCchHHHHHHHHHHHHHHHcCC-C-------CHHHHHHHHHHHHhccCCCCCcCC
Confidence            468899999999999999999887 8899999999999987644310 0       012378899999999999999986


Q ss_pred             ccC---------CCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHHhcCC
Q 025813          157 RAN---------KPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEE  227 (247)
Q Consensus       157 ~~~---------~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~ll~~  227 (247)
                      ...         ...+...+-+++.+|...+......++++++||.+....          ..+.+.......+|.++|.
T Consensus       123 ~~~~~~~~~~~~~~~~~~~tA~al~~L~~~g~~~~~~~~~a~~~L~~~~~~----------~~~~~~~a~la~al~~~g~  192 (282)
T cd02891         123 LGPVIHREMKGGVDDSVSLTAYVLIALAEAGKACDASIEKALAYLETQLDG----------LLDPYALAILAYALALAGD  192 (282)
T ss_pred             CCCccCHhhcCCcCCCcchHHHHHHHHHHhcccchHHHHHHHHHHHHhccc----------CCChHHHHHHHHHHHHcCc
Confidence            433         123344455666666665643222467899999886642          2344555555566666653

Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of proteases. This group contains another broadly specific proteinase inhibitor: pregnancy zone protein (PZP). PZP is a trace protein in the plasma of non-pregnant females and males which is elevated in pregnancy. Alpha (2)-M and PZ bind to placental protein-14 and may modulate its activity in T-cell growth and cytokine production thereby protecting the allogeneic fetus from attack by the maternal immune system. This group also contains C3, C4 and C5 of vertebrate complement. The vertebrate complement is an effector of both the acquired and innate immune systems The point of convergence of the classical, alternative and lectin pathways of the complement system is the proteolytic activation of C3. C4 plays a key role in propaga

>PF07678 A2M_comp: A-macroglobulin complement component; InterPro: IPR011626 This domain covers the complement component region of the alpha-2-macroglobulin family

Probab=98.90  E-value=4.3e-09  Score=90.32  Aligned_cols=178  Identities=16%  Similarity=0.166  Sum_probs=104.5

Q ss_pred             HHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCc---ccHHHHHHHHHhcCCCCCCccCCCC---------
Q 025813           33 LTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSG---MDRERAKAYILNCQSYDGGFGLTPG---------  100 (247)
Q Consensus        33 i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~---~~~~~~~~~l~~~Q~~dGGFg~~p~---------  100 (247)
                      .+-+.+.|++||+|..+.....+.++.|-+++..+......-.   ..++++++||.+.|++||.|.....         
T Consensus         3 Yqr~L~y~~~DGsfs~f~~~~~~s~WLTAfv~k~f~~a~~~i~vd~~~i~~a~~wL~~~Q~~dG~F~e~~~~~~~~~~g~   82 (246)
T PF07678_consen    3 YQRQLSYRRSDGSFSAFSSDSPSSTWLTAFVVKVFSQAKKYIFVDENVICRAVKWLISQQQPDGSFEEDGPVIHREMQGG   82 (246)
T ss_dssp             HHHHHTTB-TTSSBBSSTTTSSBBHHHHHHHHHHHHHHTTTS-CEHHHHHHHHHHHHHHBETTSEB--SSS-SSGGGSGG
T ss_pred             hHHHhcCCCCCCCeeccccCCcccHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHhhcCCCccccCCCccccccCCC
Confidence            3446667999999998723478899999999999888875432   3457999999999999999976421         


Q ss_pred             CCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhc---------------------------------
Q 025813          101 SESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQR---------------------------------  147 (247)
Q Consensus       101 ~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~---------------------------------  147 (247)
                      .+.++..|.+++.+|.-.+...+....+    ....++++++||.+.                                 
T Consensus        83 ~~~~~~lTA~VliAL~e~~~~~~~~~~~----~~~~i~kA~~~L~~~~~~~~~~Y~lAl~aYAL~la~~~~~~~~~~~~L  158 (246)
T PF07678_consen   83 VEDDIALTAYVLIALLEAGSLCDSEKPE----YENAINKALNYLERHLDNIQDPYTLALVAYALALAGDSPQASKLLNKL  158 (246)
T ss_dssp             GTHHHHHHHHHHHHHHHCHCCHTTTHHC----HHHHHHHHHHHHHHHHGCTSSHHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             CCCCeeehHHHHHHHHhhhhhccccchh----hHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHhhcccchHHHHHHHH
Confidence            1234566777777776665211000000    011234444444433                                 


Q ss_pred             ---CCCCCccccccCCC--------------CchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCc
Q 025813          148 ---QAADGGFQGRANKP--------------SDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLP  210 (247)
Q Consensus       148 ---Q~~dGgf~~~~~~~--------------~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~  210 (247)
                         ...+|+...-....              .++.-|=+++  |+++..........+++||.+.|+..|||+...    
T Consensus       159 ~~~a~~~~~~~~W~~~~~~~~~~~~~~~~~s~~vEtTaYaL--La~l~~~~~~~~~~iv~WL~~qr~~~Ggf~STQ----  232 (246)
T PF07678_consen  159 NSMATTEGGLRYWSSDESSSSSSSPWSRGSSLDVETTAYAL--LALLKRGDLEEASPIVRWLISQRNSGGGFGSTQ----  232 (246)
T ss_dssp             HCHCEETTTTCEE-SSSSSSSSSSTTT-SHHHHHHHHHHHH--HHHHHHTCHHHHHHHHHHHHHCTTTTSSTSSHH----
T ss_pred             HHhhhhccccCcccCCcccccccccccccchHHHHHHHHHH--HHHHhcccHHHHHHHHHHHHHhcCCCCccCcHH----
Confidence               22344442111100              1233333333  444433222345689999999999999998753    


Q ss_pred             cHHHHHHHHHHHH
Q 025813          211 DLYHSFYGYTAFS  223 (247)
Q Consensus       211 d~~~T~~al~~L~  223 (247)
                         .|..|+-||+
T Consensus       233 ---dTvvaL~AL~  242 (246)
T PF07678_consen  233 ---DTVVALQALA  242 (246)
T ss_dssp             ---HHHHHHHHHH
T ss_pred             ---HHHHHHHHHH
Confidence               5667777665

The alpha-macroglobulin (aM) family of proteins includes protease inhibitors [], typified by the human tetrameric a2-macroglobulin (a2M); they belong to the MEROPS proteinase inhibitor family I39, clan IL. These protease inhibitors share several defining properties, which include (i) the ability to inhibit proteases from all catalytic classes, (ii) the presence of a 'bait region' and a thiol ester, (iii) a similar protease inhibitory mechanism and (iv) the inactivation of the inhibitory capacity by reaction of the thiol ester with small primary amines. aM protease inhibitors inhibit by steric hindrance []. The mechanism involves protease cleavage of the bait region, a segment of the aM that is particularly susceptible to proteolytic cleavage, which initiates a conformational change such that the aM collapses about the protease. In the resulting aM-protease complex, the active site of the protease is sterically shielded, thus substantially decreasing access to protein substrates. Two additional events occur as a consequence of bait region cleavage, namely (i) the h-cysteinyl-g-glutamyl thiol ester becomes highly reactive and (ii) a major conformational change exposes a conserved COOH-terminal receptor binding domain [] (RBD). RBD exposure allows the aM protease complex to bind to clearance receptors and be removed from circulation []. Tetrameric, dimeric, and, more recently, monomeric aM protease inhibitors have been identified [, ].; GO: 0005615 extracellular space; PDB: 1QSJ_D 1QQF_A 4ACQ_C 2B39_B 2WIN_H 2I07_B 2ICF_B 2XWJ_D 3G6J_B 2NOJ_C ....

>COG1657 SqhC Squalene cyclase [Lipid metabolism]

Probab=98.75  E-value=6.1e-08  Score=89.99  Aligned_cols=178  Identities=20%  Similarity=0.214  Sum_probs=116.5

Q ss_pred             CCCccccCC-CCCcchHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCCCCCccCCCCC-------------------C
Q 025813           43 DGSFMPIHF-GAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGS-------------------E  102 (247)
Q Consensus        43 dGgf~~~~~-~~~~d~~~ty~al~~l~ll~~~~~~~~~~~~~~l~~~Q~~dGGFg~~p~~-------------------~  102 (247)
                      -|+|..... ...+|...|--++..+  ....+..+.+++++||..+|+..|||...+..                   .
T Consensus       249 ~g~W~f~~~~~~ypd~d~T~~~~~al--~~~~~~~~~~~~l~~V~~~q~~~g~~a~~e~~~~~a~~~~L~~~~~~~~~~~  326 (517)
T COG1657         249 PGGWGFSNINTGYPDADDTAGVVRAL--IGVQSLPNFELGLDWVLYMQNKLGGLAVYEDRNLHAWLRLLPPAEVKAMVDP  326 (517)
T ss_pred             CCccceeecccCCCCchhhhHHHHHH--HhhcchhhHHhhhhHhhhcccccCceeeeccccccHHHhhCCHhhccccccC
Confidence            456653221 1234444444443333  33334567788999999999999999886432                   2


Q ss_pred             CChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCCCC
Q 025813          103 SHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNL  182 (247)
Q Consensus       103 s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~~~  182 (247)
                      +-+..|...+..|..+....+.-       ....+++++.||++.|.++|.|.++++    +|++|-...++..+.....
T Consensus       327 s~adct~~~~~~l~a~~~yl~~~-------~~~~i~~a~e~LL~~Q~~~GsW~g~w~----v~~iY~~s~a~~~l~~~g~  395 (517)
T COG1657         327 STADCTHRVVLALAALNAYLEAY-------DGQPIERALEWLLSDQEPDGSWYGRWG----VCYIYGTSGALSALALVGE  395 (517)
T ss_pred             CcccCCCccHHHHhhhhhccccc-------cCCcccHHHhhhhhhccccCceeeEEE----EEEEEehhhhhhhhhccCc
Confidence            33444445555555554432100       024578899999999999999999998    7888887777776654322


Q ss_pred             C-----CHHHHHHHHHhcCCCCCCcCCCCCCCcc----------HHHHHHHHHHHHhcCCCCCCCC
Q 025813          183 I-----DKEALRGFLLTCQSQYGGFGKCPGDLPD----------LYHSFYGYTAFSLLEEPGLNPL  233 (247)
Q Consensus       183 ~-----~~~~~~~~L~~~Q~~~GGf~~~p~~~~d----------~~~T~~al~~L~ll~~~~~~~~  233 (247)
                      .     -+.+++.|+..||.++|||+..-...++          ...|-|++..+-...+.+-+.+
T Consensus       396 ~~~~~~~v~~~~~~l~~~~~~~~Gw~e~~~~~~~~~~~~t~~sl~~~~~wal~~~~~a~~~~~~~i  461 (517)
T COG1657         396 TDENEVLVRKLISWLVSKQMPDGGWGEAKEAISDPVYTGTESSLLVQTNWALIALLTALEPNQEAI  461 (517)
T ss_pred             cccchHHHHHHHHHhhhccccCCCcccccccccccccccccchhhcchhHHHHHHHHhcccchhhh
Confidence            2     2578999999999999999886432221          4578888888877766644433

>COG1657 SqhC Squalene cyclase [Lipid metabolism]

Probab=98.47  E-value=9.4e-08  Score=88.78  Aligned_cols=145  Identities=17%  Similarity=0.087  Sum_probs=106.2

Q ss_pred             CCCCCcHHHHHHHHHHHHHhCCCCC---CCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCC--c
Q 025813            1 MHNGSNLASTYCALAILKAVGYNFA---NIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWS--G   75 (247)
Q Consensus         1 ~~~~~~l~~Ty~a~~~L~~lg~~~~---~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~--~   75 (247)
                      |.+++.+.||...+.+|..+..-.+   ..+.+++++||.+.|.++|.|.. .+ +...+..+..++.++++.+...  .
T Consensus       323 ~~~~s~adct~~~~~~l~a~~~yl~~~~~~~i~~a~e~LL~~Q~~~GsW~g-~w-~v~~iY~~s~a~~~l~~~g~~~~~~  400 (517)
T COG1657         323 MVDPSTADCTHRVVLALAALNAYLEAYDGQPIERALEWLLSDQEPDGSWYG-RW-GVCYIYGTSGALSALALVGETDENE  400 (517)
T ss_pred             cccCCcccCCCccHHHHhhhhhccccccCCcccHHHhhhhhhccccCceee-EE-EEEEEEehhhhhhhhhccCccccch
Confidence            5577888888888888888775322   34568999999999999999975 44 4555666777888888887542  3


Q ss_pred             ccHHHHHHHHHhcCCCCCCccCCCC----------CCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHH
Q 025813           76 MDRERAKAYILNCQSYDGGFGLTPG----------SESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCL  145 (247)
Q Consensus        76 ~~~~~~~~~l~~~Q~~dGGFg~~p~----------~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~  145 (247)
                      ..+++++.|+.++|.+||||+....          ..+-+..|.+|+..+......+           ...++..++++.
T Consensus       401 ~~v~~~~~~l~~~~~~~~Gw~e~~~~~~~~~~~~t~~sl~~~~~wal~~~~~a~~~~-----------~~~i~~~~~~~~  469 (517)
T COG1657         401 VLVRKLISWLVSKQMPDGGWGEAKEAISDPVYTGTESSLLVQTNWALIALLTALEPN-----------QEAIKPGINLLV  469 (517)
T ss_pred             HHHHHHHHHhhhccccCCCcccccccccccccccccchhhcchhHHHHHHHHhcccc-----------hhhhcccccccc
Confidence            4678999999999999999998622          2233444666666655544432           223677899999


Q ss_pred             hcCCCCCcccccc
Q 025813          146 QRQAADGGFQGRA  158 (247)
Q Consensus       146 ~~Q~~dGgf~~~~  158 (247)
                      +.|.++|.|...+
T Consensus       470 ~~~~~~g~~~~~~  482 (517)
T COG1657         470 SDQEPDGSWREAE  482 (517)
T ss_pred             cCcCCCCccccce
Confidence            9999999998644

>PF07678 A2M_comp: A-macroglobulin complement component; InterPro: IPR011626 This domain covers the complement component region of the alpha-2-macroglobulin family

Probab=98.24  E-value=3.1e-05  Score=66.42  Aligned_cols=142  Identities=15%  Similarity=0.150  Sum_probs=83.5

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCH---HHHHHHHHhcccCCCCccccCCC------C--CcchHHHHHHHHHHHHh
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDS---KSILTSMRNLQQHDGSFMPIHFG------A--EKDLRFVYCAAAICFLL   70 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~---~~~i~~l~~~q~~dGgf~~~~~~------~--~~d~~~ty~al~~l~ll   70 (247)
                      +.+++++-|-+++..|....+- -.+|.   ++.++||.+.|++||+|.....-      +  ..++..|-+.+.+|.-.
T Consensus        22 ~~~~s~WLTAfv~k~f~~a~~~-i~vd~~~i~~a~~wL~~~Q~~dG~F~e~~~~~~~~~~g~~~~~~~lTA~VliAL~e~  100 (246)
T PF07678_consen   22 DSPSSTWLTAFVVKVFSQAKKY-IFVDENVICRAVKWLISQQQPDGSFEEDGPVIHREMQGGVEDDIALTAYVLIALLEA  100 (246)
T ss_dssp             TSSBBHHHHHHHHHHHHHHTTT-S-CEHHHHHHHHHHHHHHBETTSEB--SSS-SSGGGSGGGTHHHHHHHHHHHHHHHC
T ss_pred             CCcccHHHHHHHHHHHHHHHHh-hcCCHHHHHHHHHHHHHhhcCCCccccCCCccccccCCCCCCCeeehHHHHHHHHhh
Confidence            4678999999999999988853 33343   68899999999999999753210      0  12333443333322222


Q ss_pred             cCC-------------------------------------------CcccHHHHHHHHHhcCCCCCCccCCCCCC-----
Q 025813           71 EDW-------------------------------------------SGMDRERAKAYILNCQSYDGGFGLTPGSE-----  102 (247)
Q Consensus        71 ~~~-------------------------------------------~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~-----  102 (247)
                      +..                                           +....+++.+-|.+....+|+.-..+...     
T Consensus       101 ~~~~~~~~~~~~~~i~kA~~~L~~~~~~~~~~Y~lAl~aYAL~la~~~~~~~~~~~~L~~~a~~~~~~~~W~~~~~~~~~  180 (246)
T PF07678_consen  101 GSLCDSEKPEYENAINKALNYLERHLDNIQDPYTLALVAYALALAGDSPQASKLLNKLNSMATTEGGLRYWSSDESSSSS  180 (246)
T ss_dssp             HCCHTTTHHCHHHHHHHHHHHHHHHHGCTSSHHHHHHHHHHHHHTTTCHHHHHHHHHHHCHCEETTTTCEE-SSSSSSSS
T ss_pred             hhhccccchhhHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHhhcccchHHHHHHHHHHhhhhccccCcccCCcccccc
Confidence            210                                           01112344444445555555532221111     


Q ss_pred             ---------CChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccc
Q 025813          103 ---------SHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGR  157 (247)
Q Consensus       103 ---------s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~  157 (247)
                               .++..|.+|+.++...+..             .....+++||.+.|+..|||...
T Consensus       181 ~~~~~~~~s~~vEtTaYaLLa~l~~~~~-------------~~~~~iv~WL~~qr~~~Ggf~ST  231 (246)
T PF07678_consen  181 SSPWSRGSSLDVETTAYALLALLKRGDL-------------EEASPIVRWLISQRNSGGGFGST  231 (246)
T ss_dssp             SSTTT-SHHHHHHHHHHHHHHHHHHTCH-------------HHHHHHHHHHHHCTTTTSSTSSH
T ss_pred             cccccccchHHHHHHHHHHHHHHhcccH-------------HHHHHHHHHHHHhcCCCCccCcH
Confidence                     2467777777666555432             23567999999999999999853

The alpha-macroglobulin (aM) family of proteins includes protease inhibitors [], typified by the human tetrameric a2-macroglobulin (a2M); they belong to the MEROPS proteinase inhibitor family I39, clan IL. These protease inhibitors share several defining properties, which include (i) the ability to inhibit proteases from all catalytic classes, (ii) the presence of a 'bait region' and a thiol ester, (iii) a similar protease inhibitory mechanism and (iv) the inactivation of the inhibitory capacity by reaction of the thiol ester with small primary amines. aM protease inhibitors inhibit by steric hindrance []. The mechanism involves protease cleavage of the bait region, a segment of the aM that is particularly susceptible to proteolytic cleavage, which initiates a conformational change such that the aM collapses about the protease. In the resulting aM-protease complex, the active site of the protease is sterically shielded, thus substantially decreasing access to protein substrates. Two additional events occur as a consequence of bait region cleavage, namely (i) the h-cysteinyl-g-glutamyl thiol ester becomes highly reactive and (ii) a major conformational change exposes a conserved COOH-terminal receptor binding domain [] (RBD). RBD exposure allows the aM protease complex to bind to clearance receptors and be removed from circulation []. Tetrameric, dimeric, and, more recently, monomeric aM protease inhibitors have been identified [, ].; GO: 0005615 extracellular space; PDB: 1QSJ_D 1QQF_A 4ACQ_C 2B39_B 2WIN_H 2I07_B 2ICF_B 2XWJ_D 3G6J_B 2NOJ_C ....

>TIGR02474 pec_lyase pectate lyase, PelA/Pel-15E family

Probab=97.74  E-value=0.00033  Score=61.09  Aligned_cols=142  Identities=14%  Similarity=0.042  Sum_probs=74.1

Q ss_pred             chHHHHHHHHHHHHhc-C-CC---cccHHHHHHHHHhcCCCCCCccCCCCCCC--ChhhHH------HHHHHHHHhCC--
Q 025813           56 DLRFVYCAAAICFLLE-D-WS---GMDRERAKAYILNCQSYDGGFGLTPGSES--HGGGTY------CAVASLRLMGF--  120 (247)
Q Consensus        56 d~~~ty~al~~l~ll~-~-~~---~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s--~~~~T~------~al~~L~~lg~--  120 (247)
                      |=..|+..+.-|.-+- . .+   .....|+++||++.|+++|||...--...  +-.-||      .++..|..+-.  
T Consensus        42 DN~aT~~e~~fLa~~y~~t~d~~y~~A~~rgld~LL~aQypnGGWPQf~p~~~~Y~~~ITfND~am~~vl~lL~~i~~~~  121 (290)
T TIGR02474        42 DNGATVTEIRYLAQVYQQEKNAKYRDAARKGIEYLLKAQYPNGGWPQFYPLKGGYSDAITYNDNAMVNVLTLLDDIANGK  121 (290)
T ss_pred             cCccHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHhhhCCCCCcCcccCCcCCcccccccCcHHHHHHHHHHHHHHhcc
Confidence            4455666554443331 1 11   23457999999999999999987632111  111122      34444433311  


Q ss_pred             ccccccccCC-CCCCCCHHHHHHHHHhcCCCCCccccccCCCCc----------------hhhHHHHHHHHHHhcCCCCC
Q 025813          121 IEDNVLSKNT-SSSIIDLPLLLSWCLQRQAADGGFQGRANKPSD----------------TCYAFWIGSVLRMLGGYNLI  183 (247)
Q Consensus       121 ~~~~~~~~~~-~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D----------------~~~~y~a~~~L~lL~~~~~~  183 (247)
                      .+........ ..-...++++++||++.|-++||+.+.|+..-|                .+..-.+..+..|+....+.
T Consensus       122 ~~~~~~~~~~~~r~~~Ai~Rgid~ILktQ~~~gg~~t~Wg~Qyd~~tl~Pa~AR~yE~pSls~~ES~~iv~~LM~~~~ps  201 (290)
T TIGR02474       122 DPFDVFPDSTRTRAKTAVTKGIECILKTQVVQNGKLTVWCQQHDALTLQPKKARAYELPSLSSSESVGILLFLMTQPNPS  201 (290)
T ss_pred             CCcccccHHHHHHHHHHHHHHHHHHHHhhcccCCcCCchhhccCccccccccccccCCcccccccHHHHHHHHhcCCCCC
Confidence            1101100000 000235778999999999999988766653211                12212233333444432221


Q ss_pred             -----CHHHHHHHHHhcCC
Q 025813          184 -----DKEALRGFLLTCQS  197 (247)
Q Consensus       184 -----~~~~~~~~L~~~Q~  197 (247)
                           .++.++.|+.+..-
T Consensus       202 ~~i~~ai~~A~~W~~~~~i  220 (290)
T TIGR02474       202 AEIKEAIRAGVAWFDTSRI  220 (290)
T ss_pred             HHHHHHHHHHHHHHHHCCC
Confidence                 35789999988773

Members of this family are isozymes of pectate lyase (EC 4.2.2.2), also called polygalacturonic transeliminase and alpha-1,4-D-endopolygalacturonic acid lyase.

>PLN02279 ent-kaur-16-ene synthase

Probab=96.98  E-value=0.024  Score=56.22  Aligned_cols=90  Identities=12%  Similarity=-0.029  Sum_probs=58.0

Q ss_pred             HHHHHHHHhcCCCCCccccccC-CCCchhhHHHHHHHHHHhcCCCCC--CHHHHHHHHHhcCCCCCCcCCCCCCCccHHH
Q 025813          138 PLLLSWCLQRQAADGGFQGRAN-KPSDTCYAFWIGSVLRMLGGYNLI--DKEALRGFLLTCQSQYGGFGKCPGDLPDLYH  214 (247)
Q Consensus       138 ~~~~~~l~~~Q~~dGgf~~~~~-~~~D~~~~y~a~~~L~lL~~~~~~--~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~  214 (247)
                      +++.+||.+.++.-||  +.|. -+.|....-|.+..|.-||-...+  .++.+.+.+-++-. .|    .++...|+..
T Consensus       245 ~~~~~yL~~~~~~~~g--~vP~~yp~~~fe~l~lvd~L~rlGi~~hF~~EI~~~L~~~~~~~~-~~----~~~~~~Dl~~  317 (784)
T PLN02279        245 AGCLRYLRSLLQKFGN--AVPTVYPLDQYARLSMVDTLERLGIDRHFRKEIKSVLDETYRYWL-QG----EEEIFLDLAT  317 (784)
T ss_pred             hHHHHHHHHHHHhcCC--CCCCCCcccHHHHhHHHHHHHHhCCccccHHHHHHHHHHHHHhhc-cc----ccCCCCCHHH
Confidence            5788888776554443  3444 245677778888888888854333  23455555544332 22    2344579999


Q ss_pred             HHHHHHHHHhcCCCCCCCCC
Q 025813          215 SFYGYTAFSLLEEPGLNPLC  234 (247)
Q Consensus       215 T~~al~~L~ll~~~~~~~~~  234 (247)
                      |..+.-.|-+.|+.-...+.
T Consensus       318 tAl~FRLLR~hGy~VS~dvf  337 (784)
T PLN02279        318 CALAFRILRLNGYDVSSDPL  337 (784)
T ss_pred             HHHHHHHHHHcCCCCChhHH
Confidence            99999999999987554443

>PLN02592 ent-copalyl diphosphate synthase

Probab=96.96  E-value=0.026  Score=55.97  Aligned_cols=89  Identities=16%  Similarity=0.238  Sum_probs=53.7

Q ss_pred             HHHHHHHHhcCCC-CCccccccC-CCCchhhHHHHHHHHHHhcCCCCC--CHHHHHHHHHhcCCCCC-CcCCCCCCCccH
Q 025813          138 PLLLSWCLQRQAA-DGGFQGRAN-KPSDTCYAFWIGSVLRMLGGYNLI--DKEALRGFLLTCQSQYG-GFGKCPGDLPDL  212 (247)
Q Consensus       138 ~~~~~~l~~~Q~~-dGgf~~~~~-~~~D~~~~y~a~~~L~lL~~~~~~--~~~~~~~~L~~~Q~~~G-Gf~~~p~~~~d~  212 (247)
                      +++.+||.+.... +||   .|. -+.|...--|.+..|--||-...+  .++.+.++|-++-...| ||+. ....+|+
T Consensus       285 ~~cl~YL~~~~~k~~Gg---VP~vyP~d~fE~LwlVDtLqRLGIs~hF~~EI~~iLd~iy~~w~~~g~~~a~-~~~~~Dl  360 (800)
T PLN02592        285 ENCLEYLNKAVQRFNGG---VPNVYPVDLFEHIWAVDRLQRLGISRYFEPEIKECIDYVHRYWTENGICWAR-NSHVHDI  360 (800)
T ss_pred             hHHHHHHHHHHHHcCCC---CCCCCCCcHHHHHHHHHHHHHcCCccccHHHHHHHHHHHHHHHhhcCccccc-CCCcCCH
Confidence            4567777665433 333   333 234666667777888777754333  23456677766422223 3322 1235799


Q ss_pred             HHHHHHHHHHHhcCCCCC
Q 025813          213 YHSFYGYTAFSLLEEPGL  230 (247)
Q Consensus       213 ~~T~~al~~L~ll~~~~~  230 (247)
                      ..|..++-.|-+.|+.-.
T Consensus       361 d~TALaFRLLRqhGy~VS  378 (800)
T PLN02592        361 DDTAMGFRLLRLHGHQVS  378 (800)
T ss_pred             HHHHHHHHHHHHcCCCCC
Confidence            999999999999998643

>TIGR02474 pec_lyase pectate lyase, PelA/Pel-15E family

Probab=96.94  E-value=0.0095  Score=52.09  Aligned_cols=134  Identities=12%  Similarity=0.043  Sum_probs=70.3

Q ss_pred             HHHHHHHHHHHhCC---CCCCC-CHHHHHHHHHhcccCCCCccccCC-CC-------CcchHHHHHHHHHHHHhcCC-C-
Q 025813            9 STYCALAILKAVGY---NFANI-DSKSILTSMRNLQQHDGSFMPIHF-GA-------EKDLRFVYCAAAICFLLEDW-S-   74 (247)
Q Consensus         9 ~Ty~a~~~L~~lg~---~~~~~-~~~~~i~~l~~~q~~dGgf~~~~~-~~-------~~d~~~ty~al~~l~ll~~~-~-   74 (247)
                      .|+..+.-|.-+=.   +.... -..+.++||.++|+++|||..... .+       ..|...+ -++..|..+... . 
T Consensus        45 aT~~e~~fLa~~y~~t~d~~y~~A~~rgld~LL~aQypnGGWPQf~p~~~~Y~~~ITfND~am~-~vl~lL~~i~~~~~~  123 (290)
T TIGR02474        45 ATVTEIRYLAQVYQQEKNAKYRDAARKGIEYLLKAQYPNGGWPQFYPLKGGYSDAITYNDNAMV-NVLTLLDDIANGKDP  123 (290)
T ss_pred             cHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHhhhCCCCCcCcccCCcCCcccccccCcHHHH-HHHHHHHHHHhccCC
Confidence            46666666665421   11101 136899999999999999976422 11       1122222 122222222110 0 


Q ss_pred             ------------cccHHHHHHHHHhcCCCCCC----ccCCCC-----------CCCChhhHHHHHHHHHHh---CCcccc
Q 025813           75 ------------GMDRERAKAYILNCQSYDGG----FGLTPG-----------SESHGGGTYCAVASLRLM---GFIEDN  124 (247)
Q Consensus        75 ------------~~~~~~~~~~l~~~Q~~dGG----Fg~~p~-----------~~s~~~~T~~al~~L~~l---g~~~~~  124 (247)
                                  ....+|+++||++.|-++||    |+..-.           .|+-..++...+.++.+|   -..+++
T Consensus       124 ~~~~~~~~~~r~~~Ai~Rgid~ILktQ~~~gg~~t~Wg~Qyd~~tl~Pa~AR~yE~pSls~~ES~~iv~~LM~~~~ps~~  203 (290)
T TIGR02474       124 FDVFPDSTRTRAKTAVTKGIECILKTQVVQNGKLTVWCQQHDALTLQPKKARAYELPSLSSSESVGILLFLMTQPNPSAE  203 (290)
T ss_pred             cccccHHHHHHHHHHHHHHHHHHHHhhcccCCcCCchhhccCccccccccccccCCcccccccHHHHHHHHhcCCCCCHH
Confidence                        12357999999999988875    443311           122222233333333333   222332


Q ss_pred             ccccCCCCCCCCHHHHHHHHHhcCCCC
Q 025813          125 VLSKNTSSSIIDLPLLLSWCLQRQAAD  151 (247)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~l~~~Q~~d  151 (247)
                      +        ...++.+++|+.+.+-++
T Consensus       204 i--------~~ai~~A~~W~~~~~i~g  222 (290)
T TIGR02474       204 I--------KEAIRAGVAWFDTSRIRG  222 (290)
T ss_pred             H--------HHHHHHHHHHHHHCCCCC
Confidence            2        125788999999987664

Members of this family are isozymes of pectate lyase (EC 4.2.2.2), also called polygalacturonic transeliminase and alpha-1,4-D-endopolygalacturonic acid lyase.

>KOG1366 consensus Alpha-macroglobulin [Posttranslational modification, protein turnover, chaperones]

Probab=95.27  E-value=0.39  Score=50.76  Aligned_cols=91  Identities=12%  Similarity=0.127  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHh-------cccCCCCccccCC-CCCcchHHHHHHHHHHHHhcCC---Cc
Q 025813            7 LASTYCALAILKAVGYNFANIDSKSILTSMRN-------LQQHDGSFMPIHF-GAEKDLRFVYCAAAICFLLEDW---SG   75 (247)
Q Consensus         7 l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~-------~q~~dGgf~~~~~-~~~~d~~~ty~al~~l~ll~~~---~~   75 (247)
                      ++.++.++.-|...++ +...-++++++||..       -+++||+|..+-. ....-++.|-+.+..+.....+   +.
T Consensus       945 faPni~v~~YL~~t~q-~~~~~k~ka~~~l~~GyqrqL~yk~~DgSySaFg~~~~~~stWLtafvlr~f~~a~~~i~id~ 1023 (1436)
T KOG1366|consen  945 FAPNIYVLKYLPKTNQ-LTPELKRKALKFLEQGYQRQLTYKRADGSYSAFGSSDRSGSTWLTAFVLRVFSQAKEYIFIDP 1023 (1436)
T ss_pred             ccchhhHHHHHhhhhc-cChhHHHHHHHHHHHHHHHHHhhhccCCChhhhcCCCCcccHHHHHHHHHHhhhccCceEecH
Confidence            3445555666665553 433345777777766       2578999976421 1345567777777777666543   33


Q ss_pred             ccHHHHHHHHHhcCCCCCCccCC
Q 025813           76 MDRERAKAYILNCQSYDGGFGLT   98 (247)
Q Consensus        76 ~~~~~~~~~l~~~Q~~dGGFg~~   98 (247)
                      ..+.++++|+...|.++|.|-..
T Consensus      1024 ~~i~~a~~wl~~~Qk~~GsF~e~ 1046 (1436)
T KOG1366|consen 1024 NVITQALNWLSQQQKENGSFKEV 1046 (1436)
T ss_pred             HHHHHHHHHHHHhhccCceEecc
Confidence            44578999999999999998654

>PF01122 Cobalamin_bind: Eukaryotic cobalamin-binding protein; InterPro: IPR002157 Cobalamin (Cbl or vitamin B12) is only accessible through diet in mammals

Probab=94.30  E-value=0.19  Score=44.85  Aligned_cols=120  Identities=19%  Similarity=0.147  Sum_probs=67.0

Q ss_pred             CcchHHHHHHHHHHHHhcCC--C-cc-------cHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccc
Q 025813           54 EKDLRFVYCAAAICFLLEDW--S-GM-------DRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED  123 (247)
Q Consensus        54 ~~d~~~ty~al~~l~ll~~~--~-~~-------~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~  123 (247)
                      ...+.....|+.++.-+...  . ..       .++++++.|++.|.+||-||.       +.+|--|+++|...+....
T Consensus       183 ~~sVDT~AmA~LALtCv~~~~~~~~~~~~~i~~~i~~~~~kIl~~q~~~G~~GN-------iySTglAmQAL~~~~~~~~  255 (326)
T PF01122_consen  183 QFSVDTGAMAVLALTCVKNSNPNGPELRRRIQQAIRSLVEKILSQQKPNGLFGN-------IYSTGLAMQALSVSPSPPS  255 (326)
T ss_dssp             TCHHHHHHHHHHHHHHHHTTTSTTGGGHHHHHHHHHHHHHHHHHTB-TTS-BSS-------TTTHHHHHHHHTT-SS-SS
T ss_pred             CCCccHHHHHHHHHHHHhccCcCcHhHHHHHHHHHHHHHHHHHHhcCCCCcccc-------hhhHHHHHHHHhcCCCCCc
Confidence            33566666666666555421  1 11       246788889999999999984       7999999999998877532


Q ss_pred             cccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcC
Q 025813          124 NVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFG  203 (247)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~  203 (247)
                      +.        .-+..++.++++... ++|.|..-          .-+..+|-.|......|+..     ..|+.++|-+.
T Consensus       256 ~~--------~w~C~k~~~~ll~~i-~~G~F~nP----------~a~aQiLPaL~gKTYLDv~~-----~~C~~~~~~~~  311 (326)
T PF01122_consen  256 ES--------EWNCQKALDALLKEI-SQGAFQNP----------MAIAQILPALNGKTYLDVNS-----VDCSSPDGNLN  311 (326)
T ss_dssp             HH--------HHHHHHHHHHHHHHH-TTTTT-SH----------HHHHHHHHHHTT--GGGGGS-------SSS--EE--
T ss_pred             ch--------hhHHHHHHHHHHHHh-hcCCCCCH----------HHHHHHHHHHcCCCccccCC-----CCCCCCCCccc
Confidence            10        124678889988853 58999841          12445554443323333322     45888887765


Q ss_pred             C
Q 025813          204 K  204 (247)
Q Consensus       204 ~  204 (247)
                      -
T Consensus       312 ~  312 (326)
T PF01122_consen  312 P  312 (326)
T ss_dssp             -
T ss_pred             c
Confidence            3

Absorption, plasma transport and cellular uptake of Cbl in mammals involves three Cbl-transporting proteins, which are listed below in order of increasing Cbl-specificity: Haptocorrin (cobalophilin), which binds Cbl and Cbl-derivatives such as cobinamide; it may play a role in preventing the absorption of cobalamin analogues produced by bacteria. Transcobalamin (TC), which transport Cbl from blood to cells. Intrinsic factor (IF), which promotes Cbl absorption in the ileum by specific receptor-mediated endocytosis. The structure of TC reveals a two-domain structure, an N-terminal alpha(6)-alpha(6) barrel, and a smaller C-terminal domain []. Many interactions between Cbl and its binding site in the interface of the two domains are conserved among the other Cbl transporters. Specificity for Cbl between the different transporters may reside in a beta-hairpin motif found in the smaller C-terminal domain []. ; GO: 0031419 cobalamin binding, 0015889 cobalamin transport; PDB: 3KQ4_A 2PMV_A 2BB5_A 2V3N_A 2BBC_A 2BB6_D 2V3P_A.

>PF05817 Ribophorin_II: Oligosaccharyltransferase subunit Ribophorin II; InterPro: IPR008814 This family consists of several eukaryotic Ribophorin II (RPN2) proteins

Probab=94.24  E-value=5.9  Score=38.77  Aligned_cols=198  Identities=18%  Similarity=0.159  Sum_probs=111.7

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCC-----Cccc--------cC--------------CCCCc
Q 025813            3 NGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDG-----SFMP--------IH--------------FGAEK   55 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dG-----gf~~--------~~--------------~~~~~   55 (247)
                      ...++..+|+|+..|+.||...  .+.+.+.+++++...+.-     -|..        +.              ....+
T Consensus        45 ~~~dLes~yyav~glk~Lg~~~--~~~~~~C~~~~~~~~~s~~~~e~lfya~~~~~~L~C~~~~~~~~~~~l~~~l~~~s  122 (636)
T PF05817_consen   45 PSSDLESAYYAVLGLKLLGIKV--PDSKAACKFLKKALDESSNDLESLFYAASASKALKCKVSVSNEVKSLLKAALSEDS  122 (636)
T ss_pred             CcccHHHHHHHHhhHHHhCCCC--CChhhHHHHHHHhhccccchHHHHHHHHHHHhhcCCcccCcHHHHHHHHHHhcCCc
Confidence            3578999999999999999643  457888888888533211     1110        00              01346


Q ss_pred             chHHHHHHHHHHHHhcCC-CcccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCC
Q 025813           56 DLRFVYCAAAICFLLEDW-SGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSI  134 (247)
Q Consensus        56 d~~~ty~al~~l~ll~~~-~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~  134 (247)
                      .+...|+++.++..+|.. ...+.++.++-|...+.+|.          .+.++-.|+.+++.++..-. +         
T Consensus       123 ~~~~iy~av~sl~~lg~~v~~~~~~~v~k~l~~~l~kdd----------s~~s~g~al~~aa~L~~~a~-l---------  182 (636)
T PF05817_consen  123 SVSQIYYAVSSLKLLGLKVDEADSDEVVKALQASLKKDD----------SLLSLGYALHAAAQLSKQAD-L---------  182 (636)
T ss_pred             cHHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHhcccc----------cHHHHHHHHHHHHhhccchh-h---------
Confidence            777789999999999853 23477888887877777753          46667778888888765321 0         


Q ss_pred             CC-HHHHHHHHHhcCCCCCccccccCCCCchhhHHHHH-HHHHHhcCCCCCCHH---HHHHHHHhcCCCCCCcCCCCCCC
Q 025813          135 ID-LPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIG-SVLRMLGGYNLIDKE---ALRGFLLTCQSQYGGFGKCPGDL  209 (247)
Q Consensus       135 ~~-~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~-~~L~lL~~~~~~~~~---~~~~~L~~~Q~~~GGf~~~p~~~  209 (247)
                      .. .++.-+=+.+--.-||.+-...++..-+......+ +-....++...++.+   +..+||++..        .++. 
T Consensus       183 ~~~~~~ieD~v~qaDEv~~~~LqFeggLs~TA~vv~g~~~la~~~~k~~~i~~dQivklanylLsrr--------~v~s-  253 (636)
T PF05817_consen  183 ADIVERIEDAVAQADEVDGKYLQFEGGLSTTALVVRGIYKLADAVGKKPPIKEDQIVKLANYLLSRR--------SVQS-  253 (636)
T ss_pred             hHHHHHHHHHHHhhhhhcccceeecCCchhhHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCC--------CCCC-
Confidence            01 12222333322223444443333333232222111 112234555556544   5678888766        3443 


Q ss_pred             ccHHHHHHHHHHHHhcCCCCC-CCC
Q 025813          210 PDLYHSFYGYTAFSLLEEPGL-NPL  233 (247)
Q Consensus       210 ~d~~~T~~al~~L~ll~~~~~-~~~  233 (247)
                        +...|.-+.+|..+....+ .|+
T Consensus       254 --~k~a~~l~~al~~L~~N~~~~Pv  276 (636)
T PF05817_consen  254 --PKDAFNLLEALKSLSSNKFHVPV  276 (636)
T ss_pred             --HHHHHHHHHHHHHHhhCCccccE
Confidence              3445555556655555433 444

The mammalian oligosaccharyltransferase (OST) is a protein complex that effects the cotranslational N-glycosylation of newly synthesised polypeptides, and is composed of at least four rough ER-specific membrane proteins: ribophorins I and II (RI and RII), OST48, and Dadl. The mechanism(s) by which the subunits of this complex are retained in the ER are not well understood [].; GO: 0004579 dolichyl-diphosphooligosaccharide-protein glycotransferase activity, 0018279 protein N-linked glycosylation via asparagine, 0005789 endoplasmic reticulum membrane, 0008250 oligosaccharyltransferase complex

>PF09492 Pec_lyase: Pectic acid lyase; InterPro: IPR012669 Members of this family are isozymes of pectate lyase (4

Probab=93.48  E-value=0.11  Score=45.63  Aligned_cols=142  Identities=17%  Similarity=0.084  Sum_probs=65.0

Q ss_pred             chHHHHHHHHHHHHhcCC--C---cccHHHHHHHHHhcCCCCCCccCC-CCCC-CChhhHHH---HHHHHHHh-----CC
Q 025813           56 DLRFVYCAAAICFLLEDW--S---GMDRERAKAYILNCQSYDGGFGLT-PGSE-SHGGGTYC---AVASLRLM-----GF  120 (247)
Q Consensus        56 d~~~ty~al~~l~ll~~~--~---~~~~~~~~~~l~~~Q~~dGGFg~~-p~~~-s~~~~T~~---al~~L~~l-----g~  120 (247)
                      |=..|+..+.-|.-+-..  +   .....|+++||++.|.++|||... |... =|-.-||-   .+..|.+|     +.
T Consensus        37 DN~aT~~ei~fLa~~y~~t~d~~y~~A~~kgl~ylL~aQypnGGWPQ~yP~~~~Y~~~ITfNDdam~~vl~lL~~v~~~~  116 (289)
T PF09492_consen   37 DNDATTTEIRFLARVYQATKDPRYREAFLKGLDYLLKAQYPNGGWPQFYPLRGGYHDHITFNDDAMVNVLELLRDVAEGK  116 (289)
T ss_dssp             GGGTTHHHHHHHHHHHHHCG-HHHHHHHHHHHHHHHHHS-TTS--BSECS--SGGGGSEE-GGGHHHHHHHHHHHHHCT-
T ss_pred             cChhHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhhCCCCCCCccCCCCCCCCCceEEccHHHHHHHHHHHHHHhhc
Confidence            444555555444333211  1   123579999999999999999885 3211 12233442   23344333     22


Q ss_pred             ccccccccCCC-CCCCCHHHHHHHHHhcCCC----CCcccc------------ccCCCCchhhHHHHHHHHHHhcCCCCC
Q 025813          121 IEDNVLSKNTS-SSIIDLPLLLSWCLQRQAA----DGGFQG------------RANKPSDTCYAFWIGSVLRMLGGYNLI  183 (247)
Q Consensus       121 ~~~~~~~~~~~-~~~~~~~~~~~~l~~~Q~~----dGgf~~------------~~~~~~D~~~~y~a~~~L~lL~~~~~~  183 (247)
                      .+.+.+.+..+ .-...+++++++|+..|-.    --+|..            |....+-.+..--+..+..|+....+.
T Consensus       117 ~~~~~v~~~~~~r~~~A~~kgi~ciL~tQi~~~g~~t~W~qQhD~~Tl~Pa~AR~yE~pSls~~ES~~iv~~LM~~~~ps  196 (289)
T PF09492_consen  117 GDFAFVDESLRARARAAVDKGIDCILKTQIRQNGKLTAWCQQHDEVTLQPAWARAYEPPSLSGSESVGIVRFLMSLPNPS  196 (289)
T ss_dssp             TTSTTS-HHHHHHHHHHHHHHHHHHHHHS-EETTEE----SEE-TTT-SB---STT--SSEECCCHHHHHHHHCTSSS--
T ss_pred             CCccccCHHHHHHHHHHHHHHHHHHHHHHcccCCCCCchhhccCcccccccccccCCCcccccccHHHHHHHHhcCCCCC
Confidence            22211110000 0012467899999999973    235542            222223334434455555566543222


Q ss_pred             -----CHHHHHHHHHhcCC
Q 025813          184 -----DKEALRGFLLTCQS  197 (247)
Q Consensus       184 -----~~~~~~~~L~~~Q~  197 (247)
                           .++.++.||.+..-
T Consensus       197 ~~v~~aI~~AvaWl~~~ki  215 (289)
T PF09492_consen  197 PEVLAAIEAAVAWLESVKI  215 (289)
T ss_dssp             HHHHHHHHHHHHHHCCTSE
T ss_pred             HHHHHHHHHHHHHHHhCcC
Confidence                 35778999987664

2.2.2 from EC), also called polygalacturonic transeliminase and alpha-1,4-D-endopolygalacturonic acid lyase.; PDB: 1R76_A 1GXM_B 1GXN_A 1GXO_A.

>PLN02592 ent-copalyl diphosphate synthase

Probab=91.68  E-value=0.64  Score=46.39  Aligned_cols=80  Identities=16%  Similarity=0.109  Sum_probs=45.5

Q ss_pred             HHHHHHHHhccc--CCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCCCCCccCCCC--CCCCh
Q 025813           30 KSILTSMRNLQQ--HDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPG--SESHG  105 (247)
Q Consensus        30 ~~~i~~l~~~q~--~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~~~~~l~~~Q~~dGGFg~~p~--~~s~~  105 (247)
                      +..++-++++-.  .||....       -+..|.| |+...-++....+.-...++||+..|.+||+||..+.  ...-+
T Consensus        75 ~~~~~~ir~~l~~~~~g~~S~-------S~YDTAW-VAmVp~~~g~~~p~FP~~~~wIl~nQ~~DGsWG~~~~~~~~D~l  146 (800)
T PLN02592         75 KERVKTVKSMLSSMEDGEISI-------SAYDTAW-VALVEDINGSGTPQFPSSLQWIANNQLSDGSWGDAYLFSAHDRL  146 (800)
T ss_pred             HHHHHHHHHHHhcccCCCcCC-------cHHHhHH-HhhcccCCCCCCCCCHHHHHHHHHccCCCCCCCCCCCcchHHHH
Confidence            355666666533  3443322       1344555 3322223222223445789999999999999998532  12345


Q ss_pred             hhHHHHHHHHHH
Q 025813          106 GGTYCAVASLRL  117 (247)
Q Consensus       106 ~~T~~al~~L~~  117 (247)
                      .+|..||.+|.-
T Consensus       147 l~TLAcvlAL~~  158 (800)
T PLN02592        147 INTLACVVALKS  158 (800)
T ss_pred             HhHHHHHHHHHH
Confidence            667777766654

>PF05817 Ribophorin_II: Oligosaccharyltransferase subunit Ribophorin II; InterPro: IPR008814 This family consists of several eukaryotic Ribophorin II (RPN2) proteins

Probab=91.00  E-value=7.4  Score=38.11  Aligned_cols=132  Identities=17%  Similarity=0.094  Sum_probs=90.2

Q ss_pred             CcchHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCC
Q 025813           54 EKDLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSS  133 (247)
Q Consensus        54 ~~d~~~ty~al~~l~ll~~~~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~  133 (247)
                      .+|+..+|+++.++..||.. ..+.+.+++++.+.-.+.        . +++...|+|+.+...+++...          
T Consensus        46 ~~dLes~yyav~glk~Lg~~-~~~~~~~C~~~~~~~~~s--------~-~~~e~lfya~~~~~~L~C~~~----------  105 (636)
T PF05817_consen   46 SSDLESAYYAVLGLKLLGIK-VPDSKAACKFLKKALDES--------S-NDLESLFYAASASKALKCKVS----------  105 (636)
T ss_pred             cccHHHHHHHHhhHHHhCCC-CCChhhHHHHHHHhhccc--------c-chHHHHHHHHHHHhhcCCccc----------
Confidence            34789999999999999973 455889999987764332        1 368899999999999986421          


Q ss_pred             CCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCC-CCCCHHHHHHHHHhcCCCCCCcCCCCCCCccH
Q 025813          134 IIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGY-NLIDKEALRGFLLTCQSQYGGFGKCPGDLPDL  212 (247)
Q Consensus       134 ~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~-~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~  212 (247)
                        -.+++.+-+...-++|          .++...|+++.++..||.. ...+.++.+.-|...+..|          ..+
T Consensus       106 --~~~~~~~~l~~~l~~~----------s~~~~iy~av~sl~~lg~~v~~~~~~~v~k~l~~~l~kd----------ds~  163 (636)
T PF05817_consen  106 --VSNEVKSLLKAALSED----------SSVSQIYYAVSSLKLLGLKVDEADSDEVVKALQASLKKD----------DSL  163 (636)
T ss_pred             --CcHHHHHHHHHHhcCC----------ccHHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHhccc----------ccH
Confidence              1233444444433332          2455689999999999852 1236777888887777552          234


Q ss_pred             HHHHHHHHHHHhcCC
Q 025813          213 YHSFYGYTAFSLLEE  227 (247)
Q Consensus       213 ~~T~~al~~L~ll~~  227 (247)
                      ..+-+|+.+.+.++.
T Consensus       164 ~s~g~al~~aa~L~~  178 (636)
T PF05817_consen  164 LSLGYALHAAAQLSK  178 (636)
T ss_pred             HHHHHHHHHHHhhcc
Confidence            556677777777764

The mammalian oligosaccharyltransferase (OST) is a protein complex that effects the cotranslational N-glycosylation of newly synthesised polypeptides, and is composed of at least four rough ER-specific membrane proteins: ribophorins I and II (RI and RII), OST48, and Dadl. The mechanism(s) by which the subunits of this complex are retained in the ER are not well understood [].; GO: 0004579 dolichyl-diphosphooligosaccharide-protein glycotransferase activity, 0018279 protein N-linked glycosylation via asparagine, 0005789 endoplasmic reticulum membrane, 0008250 oligosaccharyltransferase complex

>PF09492 Pec_lyase: Pectic acid lyase; InterPro: IPR012669 Members of this family are isozymes of pectate lyase (4

Probab=90.39  E-value=0.71  Score=40.53  Aligned_cols=83  Identities=16%  Similarity=0.136  Sum_probs=43.9

Q ss_pred             ChhhHHHHHHHHHHhCCc--cccccccCCCCCCCCHHHHHHHHHhcCCCCCccccc-cCC--------CCchhhHHHHHH
Q 025813          104 HGGGTYCAVASLRLMGFI--EDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGR-ANK--------PSDTCYAFWIGS  172 (247)
Q Consensus       104 ~~~~T~~al~~L~~lg~~--~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~-~~~--------~~D~~~~y~a~~  172 (247)
                      |=..|...|.-|+.+-..  ++..        +....++++||++.|-++|||-.. |..        .+|--    .+.
T Consensus        37 DN~aT~~ei~fLa~~y~~t~d~~y--------~~A~~kgl~ylL~aQypnGGWPQ~yP~~~~Y~~~ITfNDda----m~~  104 (289)
T PF09492_consen   37 DNDATTTEIRFLARVYQATKDPRY--------REAFLKGLDYLLKAQYPNGGWPQFYPLRGGYHDHITFNDDA----MVN  104 (289)
T ss_dssp             GGGTTHHHHHHHHHHHHHCG-HHH--------HHHHHHHHHHHHHHS-TTS--BSECS--SGGGGSEE-GGGH----HHH
T ss_pred             cChhHHHHHHHHHHHHHHhCChHH--------HHHHHHHHHHHHHhhCCCCCCCccCCCCCCCCCceEEccHH----HHH
Confidence            335566777766654221  1111        124678999999999999999753 211        13321    334


Q ss_pred             HHHHhcC----C---CCC----------CHHHHHHHHHhcCCC
Q 025813          173 VLRMLGG----Y---NLI----------DKEALRGFLLTCQSQ  198 (247)
Q Consensus       173 ~L~lL~~----~---~~~----------~~~~~~~~L~~~Q~~  198 (247)
                      ++.+|..    .   ..+          ..++++++|+++|-.
T Consensus       105 vl~lL~~v~~~~~~~~~v~~~~~~r~~~A~~kgi~ciL~tQi~  147 (289)
T PF09492_consen  105 VLELLRDVAEGKGDFAFVDESLRARARAAVDKGIDCILKTQIR  147 (289)
T ss_dssp             HHHHHHHHHCT-TTSTTS-HHHHHHHHHHHHHHHHHHHHHS-E
T ss_pred             HHHHHHHHHhhcCCccccCHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            4444421    1   112          246899999999963

2.2.2 from EC), also called polygalacturonic transeliminase and alpha-1,4-D-endopolygalacturonic acid lyase.; PDB: 1R76_A 1GXM_B 1GXN_A 1GXO_A.

>PLN02279 ent-kaur-16-ene synthase

Probab=87.28  E-value=1.7  Score=43.50  Aligned_cols=83  Identities=12%  Similarity=0.085  Sum_probs=49.5

Q ss_pred             HHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCCCCCccCCCCC----CCC
Q 025813           29 SKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGS----ESH  104 (247)
Q Consensus        29 ~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~~~~~l~~~Q~~dGGFg~~p~~----~s~  104 (247)
                      -+..++-|+++-+.- ....       -...|.|...+-.. +....+.-...++||+..|.+||+||..+..    ..-
T Consensus        35 ~~~~~~~i~~~l~~~-e~s~-------s~YDTAWvamv~~~-~~~~~p~Fp~~~~wil~nQ~~dGsWg~~~~~~~~~~D~  105 (784)
T PLN02279         35 FEGTKERIKKMFDKV-ELSV-------SSYDTAWVAMVPSP-NSQQAPLFPECVKWLLENQLEDGSWGLPHDHPLLVKDA  105 (784)
T ss_pred             chhHHHHHHHHhccC-cCCC-------chhhhHHHHhcccC-CCCCCCCChHHHHHHHhcCCCCCCCCCCCCCcchhHHh
Confidence            367788888865432 1221       12345454333332 3323344568899999999999999975321    134


Q ss_pred             hhhHHHHHHHHHHhCC
Q 025813          105 GGGTYCAVASLRLMGF  120 (247)
Q Consensus       105 ~~~T~~al~~L~~lg~  120 (247)
                      +.+|..||.+|..=+.
T Consensus       106 ll~TlAcvlAL~~w~~  121 (784)
T PLN02279        106 LSSTLASILALKKWGV  121 (784)
T ss_pred             hHHHHHHHHHHHHHhc
Confidence            5678777777766444

>KOG1366 consensus Alpha-macroglobulin [Posttranslational modification, protein turnover, chaperones]

Probab=84.62  E-value=2.5  Score=44.92  Aligned_cols=89  Identities=12%  Similarity=0.087  Sum_probs=57.6

Q ss_pred             HHHHHHHHHHHhcCCCcccHHHHHHHH-------HhcCCCCCCccCCCC--CCCChhhHHHHHHHHHHhCCccccccccC
Q 025813           59 FVYCAAAICFLLEDWSGMDRERAKAYI-------LNCQSYDGGFGLTPG--SESHGGGTYCAVASLRLMGFIEDNVLSKN  129 (247)
Q Consensus        59 ~ty~al~~l~ll~~~~~~~~~~~~~~l-------~~~Q~~dGGFg~~p~--~~s~~~~T~~al~~L~~lg~~~~~~~~~~  129 (247)
                      .++.++.=|...+++.+..++++..+|       +..+++||.|+..-.  .....+.|..++-++......-  .++  
T Consensus       947 Pni~v~~YL~~t~q~~~~~k~ka~~~l~~GyqrqL~yk~~DgSySaFg~~~~~~stWLtafvlr~f~~a~~~i--~id-- 1022 (1436)
T KOG1366|consen  947 PNIYVLKYLPKTNQLTPELKRKALKFLEQGYQRQLTYKRADGSYSAFGSSDRSGSTWLTAFVLRVFSQAKEYI--FID-- 1022 (1436)
T ss_pred             chhhHHHHHhhhhccChhHHHHHHHHHHHHHHHHHhhhccCCChhhhcCCCCcccHHHHHHHHHHhhhccCce--Eec--
Confidence            344444445555565555566776666       466789999887644  4455667777777766653320  000  


Q ss_pred             CCCCCCCHHHHHHHHHhcCCCCCccc
Q 025813          130 TSSSIIDLPLLLSWCLQRQAADGGFQ  155 (247)
Q Consensus       130 ~~~~~~~~~~~~~~l~~~Q~~dGgf~  155 (247)
                          ..-+.++++||.++|.++|.|.
T Consensus      1023 ----~~~i~~a~~wl~~~Qk~~GsF~ 1044 (1436)
T KOG1366|consen 1023 ----PNVITQALNWLSQQQKENGSFK 1044 (1436)
T ss_pred             ----HHHHHHHHHHHHHhhccCceEe
Confidence                1236789999999999999997

>PF01122 Cobalamin_bind: Eukaryotic cobalamin-binding protein; InterPro: IPR002157 Cobalamin (Cbl or vitamin B12) is only accessible through diet in mammals

Probab=81.02  E-value=11  Score=33.73  Aligned_cols=84  Identities=15%  Similarity=0.077  Sum_probs=51.4

Q ss_pred             CcHHHHHHHHHHHHHhCCCCCC-C-CH-------HHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCc
Q 025813            5 SNLASTYCALAILKAVGYNFAN-I-DS-------KSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSG   75 (247)
Q Consensus         5 ~~l~~Ty~a~~~L~~lg~~~~~-~-~~-------~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~   75 (247)
                      -+|=.+-.|+.+|.++...... . ++       +++++.|.+.|.+||.|+.        +..|=-|+.+|...+....
T Consensus       184 ~sVDT~AmA~LALtCv~~~~~~~~~~~~~i~~~i~~~~~kIl~~q~~~G~~GN--------iySTglAmQAL~~~~~~~~  255 (326)
T PF01122_consen  184 FSVDTGAMAVLALTCVKNSNPNGPELRRRIQQAIRSLVEKILSQQKPNGLFGN--------IYSTGLAMQALSVSPSPPS  255 (326)
T ss_dssp             CHHHHHHHHHHHHHHHHTTTSTTGGGHHHHHHHHHHHHHHHHHTB-TTS-BSS--------TTTHHHHHHHHTT-SS-SS
T ss_pred             CCccHHHHHHHHHHHHhccCcCcHhHHHHHHHHHHHHHHHHHHhcCCCCcccc--------hhhHHHHHHHHhcCCCCCc
Confidence            3454555678888888853221 1 11       3567778888999999973        2446667777766664321


Q ss_pred             ---ccHHHHHHHHHhcCCCCCCccC
Q 025813           76 ---MDRERAKAYILNCQSYDGGFGL   97 (247)
Q Consensus        76 ---~~~~~~~~~l~~~Q~~dGGFg~   97 (247)
                         .+..++.++|++. -++|.|..
T Consensus       256 ~~~w~C~k~~~~ll~~-i~~G~F~n  279 (326)
T PF01122_consen  256 ESEWNCQKALDALLKE-ISQGAFQN  279 (326)
T ss_dssp             HHHHHHHHHHHHHHHH-HTTTTT-S
T ss_pred             chhhHHHHHHHHHHHH-hhcCCCCC
Confidence               3467899999885 46888864

Absorption, plasma transport and cellular uptake of Cbl in mammals involves three Cbl-transporting proteins, which are listed below in order of increasing Cbl-specificity: Haptocorrin (cobalophilin), which binds Cbl and Cbl-derivatives such as cobinamide; it may play a role in preventing the absorption of cobalamin analogues produced by bacteria. Transcobalamin (TC), which transport Cbl from blood to cells. Intrinsic factor (IF), which promotes Cbl absorption in the ileum by specific receptor-mediated endocytosis. The structure of TC reveals a two-domain structure, an N-terminal alpha(6)-alpha(6) barrel, and a smaller C-terminal domain []. Many interactions between Cbl and its binding site in the interface of the two domains are conserved among the other Cbl transporters. Specificity for Cbl between the different transporters may reside in a beta-hairpin motif found in the smaller C-terminal domain []. ; GO: 0031419 cobalamin binding, 0015889 cobalamin transport; PDB: 3KQ4_A 2PMV_A 2BB5_A 2V3N_A 2BBC_A 2BB6_D 2V3P_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	247
1n4p_B	377	Protein Geranylgeranyltransferase Type-I Complexed		3e-47
1dce_B	331	Crystal Structure Of Rab Geranylgeranyltransferase		3e-34
3pz1_B	330	Crystal Structure Of Rabggtase(Delta Lrr; Delta Ig)		4e-34
1o1r_B	427	Structure Of Fpt Bound To Ggpp Length = 427		1e-24
1ft2_B	401	Co-Crystal Structure Of Protein Farnesyltransferase		1e-24
1nl4_B	401	Crystal Structure Of Rat Farnesyl Transferase In Co		1e-24
1n95_B	402	Aryl Tetrahydrophyridine Inhbitors Of Farnesyltranf		1e-24
3pz4_B	426	Crystal Structure Of Ftase(Alpha-Subunit; Beta-Subu		1e-24
2zir_B	440	Crystal Structure Of Rat Protein Farnesyltransferas		1e-24
1n94_B	397	Aryl Tetrahydropyridine Inhbitors Of Farnesyltransf		1e-24
1ft1_B	437	Crystal Structure Of Protein Farnesyltransferase At		1e-24
2h6g_B	437	W102t Protein Farnesyltransferase Mutant Complexed		2e-24
1jcq_B	437	Crystal Structure Of Human Protein Farnesyltransfer		2e-24
2h6i_B	437	W102tY365F PROTEIN FARNESYLTRANSFERASE DOUBLE MUTAN		5e-24
2h6h_B	437	Y365f Protein Farnesyltransferase Mutant Complexed		6e-24
3euv_B	427	Crystal Structure Of Ftase(Alpha-Subunit; Beta-Subu		9e-24
3dra_B	390	Candida Albicans Protein Geranylgeranyltransferase-		7e-15
3q73_B	520	Cryptococcus Neoformans Protein Farnesyltransferase		8e-08

>pdb|1N4P|B Chain B, Protein Geranylgeranyltransferase Type-I Complexed With Geranylgeranyl Diphosphate Length = 377

Iteration: 1
 Score =  184 bits (468), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 92/230 (40%), Positives = 136/230 (59%), Gaps = 10/230 (4%)
Query: 2   HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
           ++  ++A TY  L+ L  +G + + +D ++ L  +R LQ  DGSF  +  G+E D+RFVY
Sbjct: 117 YDSGHIAMTYTGLSCLIILGDDLSRVDKEACLAGLRALQLEDGSFCAVPEGSENDMRFVY 176
Query: 62  CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
           CA+ IC++L +WSGMD ++A +YI    SYD G     G ESHGG T+C +ASL LMG +
Sbjct: 177 CASCICYMLNNWSGMDMKKAISYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKL 236
Query: 122 EDNVLSKNTXXXXXXXXXXXXWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
           E+    K              WC+ RQ    G+ GR NKP DTCY+FW+G+ L++L  + 
Sbjct: 237 EEVFSEKE-------LNRIKRWCIMRQQ--NGYHGRPNKPVDTCYSFWVGATLKLLKIFQ 287
Query: 182 LIDKEALRGFLLTCQSQ-YGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL 230
             + E  R ++L+ Q +  GGF K P   PD  H+++G    SL+EE G+
Sbjct: 288 YTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGI 337

>pdb|1DCE|B Chain B, Crystal Structure Of Rab Geranylgeranyltransferase From Rat Brain Length = 331

Iteration: 1
 Score =  141 bits (356), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 83/238 (34%), Positives = 123/238 (51%), Gaps = 16/238 (6%)
Query: 6   NLASTYCALAILKAV-GYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAA 64
           +L  T  A+ IL      +  N+D   ++  +++LQ+ DGSF    +G E D RF +CA 
Sbjct: 94  HLLYTLSAVQILTLYDSIHVINVDK--VVAYVQSLQKEDGSFAGDIWG-EIDTRFSFCAV 150
Query: 65  AICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDN 124
           A   LL     ++ E+A  ++L+C ++DGGFG  PGSESH G  YC        GF    
Sbjct: 151 ATLALLGKLDAINVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCT------GF---- 200
Query: 125 VLSKNTXXXXXXXXXXXXWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLID 184
            L+  +            W  +RQ   GG  GR  K  D CY++W+ + L+++G  + ID
Sbjct: 201 -LAITSQLHQVNSDLLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVLASLKIIGRLHWID 259
Query: 185 KEALRGFLLTCQ-SQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTE 241
           +E LR F+L CQ  + GGF   PGD+ D +H+ +G    SLL E  + P+     M E
Sbjct: 260 REKLRSFILACQDEETGGFADRPGDMVDPFHTLFGIAGLSLLGEEQIKPVSPVFCMPE 317

>pdb|3PZ1|B Chain B, Crystal Structure Of Rabggtase(Delta Lrr; Delta Ig) In Complex With Bms3 Length = 330

Iteration: 1
 Score =  141 bits (355), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 83/238 (34%), Positives = 123/238 (51%), Gaps = 16/238 (6%)
Query: 6   NLASTYCALAILKAV-GYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAA 64
           +L  T  A+ IL      +  N+D   ++  +++LQ+ DGSF    +G E D RF +CA 
Sbjct: 93  HLLYTLSAVQILTLYDSIHVINVDK--VVAYVQSLQKEDGSFAGDIWG-EIDTRFSFCAV 149
Query: 65  AICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDN 124
           A   LL     ++ E+A  ++L+C ++DGGFG  PGSESH G  YC        GF    
Sbjct: 150 ATLALLGKLDAINVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCT------GF---- 199
Query: 125 VLSKNTXXXXXXXXXXXXWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLID 184
            L+  +            W  +RQ   GG  GR  K  D CY++W+ + L+++G  + ID
Sbjct: 200 -LAITSQLHQVNSDLLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVLASLKIIGRLHWID 258
Query: 185 KEALRGFLLTCQ-SQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTE 241
           +E LR F+L CQ  + GGF   PGD+ D +H+ +G    SLL E  + P+     M E
Sbjct: 259 REKLRSFILACQDEETGGFADRPGDMVDPFHTLFGIAGLSLLGEEQIKPVSPVFCMPE 316

>pdb|1O1R|B Chain B, Structure Of Fpt Bound To Ggpp Length = 427

Iteration: 1
 Score =  109 bits (273), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 76/241 (31%), Positives = 121/241 (50%), Gaps = 29/241 (12%)
Query: 6   NLASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
           +LA TY A+  L  +G    +  I+ + +L  + +L+Q DGSF+ +H G E D+R  YCA
Sbjct: 149 HLAPTYAAVNALCIIGTEEAYNVINREKLLQYLYSLKQPDGSFL-MHVGGEVDVRSAYCA 207
Query: 64  AAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED 123
           A++  L    +    E    +I  CQ+++GG G  PG E+HGG T+C +A+L ++   ++
Sbjct: 208 ASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILK--KE 265
Query: 124 NVLSKNTXXXXXXXXXXXXWCLQRQAA-DGGFQGRANKPSDTCYAFWIGSVLRMLG---- 178
             L+  +            W   RQ   +GGFQGR NK  D CY+FW   +L +L     
Sbjct: 266 RSLNLKS---------LLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALH 316
Query: 179 ---------GYNLIDKEALRGFLLT-CQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP 228
                     + +  ++AL+ ++L  CQ   GG    PG   D YH+ Y  +  S+ +  
Sbjct: 317 AQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQHF 376
Query: 229 G 229
           G
Sbjct: 377 G 377

>pdb|1FT2|B Chain B, Co-Crystal Structure Of Protein Farnesyltransferase Complexed With A Farnesyl Diphosphate Substrate Length = 401

Iteration: 1
 Score =  109 bits (273), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 76/241 (31%), Positives = 121/241 (50%), Gaps = 29/241 (12%)
Query: 6   NLASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
           +LA TY A+  L  +G    +  I+ + +L  + +L+Q DGSF+ +H G E D+R  YCA
Sbjct: 128 HLAPTYAAVNALCIIGTEEAYNVINREKLLQYLYSLKQPDGSFL-MHVGGEVDVRSAYCA 186
Query: 64  AAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED 123
           A++  L    +    E    +I  CQ+++GG G  PG E+HGG T+C +A+L ++   ++
Sbjct: 187 ASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILK--KE 244
Query: 124 NVLSKNTXXXXXXXXXXXXWCLQRQAA-DGGFQGRANKPSDTCYAFWIGSVLRMLG---- 178
             L+  +            W   RQ   +GGFQGR NK  D CY+FW   +L +L     
Sbjct: 245 RSLNLKS---------LLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALH 295
Query: 179 ---------GYNLIDKEALRGFLLT-CQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP 228
                     + +  ++AL+ ++L  CQ   GG    PG   D YH+ Y  +  S+ +  
Sbjct: 296 AQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQHF 355
Query: 229 G 229
           G
Sbjct: 356 G 356

>pdb|1NL4|B Chain B, Crystal Structure Of Rat Farnesyl Transferase In Complex With A Potent Biphenyl Inhibitor Length = 401

Iteration: 1
 Score =  109 bits (273), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 76/241 (31%), Positives = 121/241 (50%), Gaps = 29/241 (12%)
Query: 6   NLASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
           +LA TY A+  L  +G    +  I+ + +L  + +L+Q DGSF+ +H G E D+R  YCA
Sbjct: 127 HLAPTYAAVNALCIIGTEEAYNVINREKLLQYLYSLKQPDGSFL-MHVGGEVDVRSAYCA 185
Query: 64  AAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED 123
           A++  L    +    E    +I  CQ+++GG G  PG E+HGG T+C +A+L ++   ++
Sbjct: 186 ASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILK--KE 243
Query: 124 NVLSKNTXXXXXXXXXXXXWCLQRQAA-DGGFQGRANKPSDTCYAFWIGSVLRMLG---- 178
             L+  +            W   RQ   +GGFQGR NK  D CY+FW   +L +L     
Sbjct: 244 RSLNLKS---------LLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALH 294
Query: 179 ---------GYNLIDKEALRGFLLT-CQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP 228
                     + +  ++AL+ ++L  CQ   GG    PG   D YH+ Y  +  S+ +  
Sbjct: 295 AQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQHF 354
Query: 229 G 229
           G
Sbjct: 355 G 355

>pdb|1N95|B Chain B, Aryl Tetrahydrophyridine Inhbitors Of Farnesyltranferase: Glycine, Phenylalanine And Histidine Derivatives Length = 402

Iteration: 1
 Score =  109 bits (273), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 76/241 (31%), Positives = 121/241 (50%), Gaps = 29/241 (12%)
Query: 6   NLASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
           +LA TY A+  L  +G    +  I+ + +L  + +L+Q DGSF+ +H G E D+R  YCA
Sbjct: 128 HLAPTYAAVNALCIIGTEEAYNVINREKLLQYLYSLKQPDGSFL-MHVGGEVDVRSAYCA 186
Query: 64  AAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED 123
           A++  L    +    E    +I  CQ+++GG G  PG E+HGG T+C +A+L ++   ++
Sbjct: 187 ASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILK--KE 244
Query: 124 NVLSKNTXXXXXXXXXXXXWCLQRQAA-DGGFQGRANKPSDTCYAFWIGSVLRMLG---- 178
             L+  +            W   RQ   +GGFQGR NK  D CY+FW   +L +L     
Sbjct: 245 RSLNLKS---------LLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALH 295
Query: 179 ---------GYNLIDKEALRGFLLT-CQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP 228
                     + +  ++AL+ ++L  CQ   GG    PG   D YH+ Y  +  S+ +  
Sbjct: 296 AQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQHF 355
Query: 229 G 229
           G
Sbjct: 356 G 356

>pdb|3PZ4|B Chain B, Crystal Structure Of Ftase(Alpha-Subunit; Beta-Subunit Delta C10) In Complex With Bms3 And Lipid Substrate Fpp Length = 426

Iteration: 1
 Score =  109 bits (273), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 76/241 (31%), Positives = 121/241 (50%), Gaps = 29/241 (12%)
Query: 6   NLASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
           +LA TY A+  L  +G    +  I+ + +L  + +L+Q DGSF+ +H G E D+R  YCA
Sbjct: 148 HLAPTYAAVNALCIIGTEEAYNVINREKLLQYLYSLKQPDGSFL-MHVGGEVDVRSAYCA 206
Query: 64  AAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED 123
           A++  L    +    E    +I  CQ+++GG G  PG E+HGG T+C +A+L ++   ++
Sbjct: 207 ASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILK--KE 264
Query: 124 NVLSKNTXXXXXXXXXXXXWCLQRQAA-DGGFQGRANKPSDTCYAFWIGSVLRMLG---- 178
             L+  +            W   RQ   +GGFQGR NK  D CY+FW   +L +L     
Sbjct: 265 RSLNLKS---------LLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALH 315
Query: 179 ---------GYNLIDKEALRGFLLT-CQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP 228
                     + +  ++AL+ ++L  CQ   GG    PG   D YH+ Y  +  S+ +  
Sbjct: 316 AQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQHF 375
Query: 229 G 229
           G
Sbjct: 376 G 376

>pdb|2ZIR|B Chain B, Crystal Structure Of Rat Protein Farnesyltransferase Complexed With A Benzofuran Inhibitor And Fpp Length = 440

Iteration: 1
 Score =  109 bits (273), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 76/241 (31%), Positives = 121/241 (50%), Gaps = 29/241 (12%)
Query: 6   NLASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
           +LA TY A+  L  +G    +  I+ + +L  + +L+Q DGSF+ +H G E D+R  YCA
Sbjct: 152 HLAPTYAAVNALCIIGTEEAYNVINREKLLQYLYSLKQPDGSFL-MHVGGEVDVRSAYCA 210
Query: 64  AAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED 123
           A++  L    +    E    +I  CQ+++GG G  PG E+HGG T+C +A+L ++   ++
Sbjct: 211 ASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILK--KE 268
Query: 124 NVLSKNTXXXXXXXXXXXXWCLQRQAA-DGGFQGRANKPSDTCYAFWIGSVLRMLG---- 178
             L+  +            W   RQ   +GGFQGR NK  D CY+FW   +L +L     
Sbjct: 269 RSLNLKS---------LLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALH 319
Query: 179 ---------GYNLIDKEALRGFLLT-CQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP 228
                     + +  ++AL+ ++L  CQ   GG    PG   D YH+ Y  +  S+ +  
Sbjct: 320 AQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQHF 379
Query: 229 G 229
           G
Sbjct: 380 G 380

>pdb|1N94|B Chain B, Aryl Tetrahydropyridine Inhbitors Of Farnesyltransferase: Glycine, Phenylalanine And Histidine Derivates Length = 397

Iteration: 1
 Score =  109 bits (273), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 76/241 (31%), Positives = 121/241 (50%), Gaps = 29/241 (12%)
Query: 6   NLASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
           +LA TY A+  L  +G    +  I+ + +L  + +L+Q DGSF+ +H G E D+R  YCA
Sbjct: 128 HLAPTYAAVNALCIIGTEEAYNVINREKLLQYLYSLKQPDGSFL-MHVGGEVDVRSAYCA 186
Query: 64  AAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED 123
           A++  L    +    E    +I  CQ+++GG G  PG E+HGG T+C +A+L ++   ++
Sbjct: 187 ASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILK--KE 244
Query: 124 NVLSKNTXXXXXXXXXXXXWCLQRQAA-DGGFQGRANKPSDTCYAFWIGSVLRMLG---- 178
             L+  +            W   RQ   +GGFQGR NK  D CY+FW   +L +L     
Sbjct: 245 RSLNLKS---------LLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALH 295
Query: 179 ---------GYNLIDKEALRGFLLT-CQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP 228
                     + +  ++AL+ ++L  CQ   GG    PG   D YH+ Y  +  S+ +  
Sbjct: 296 AQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQHF 355
Query: 229 G 229
           G
Sbjct: 356 G 356

>pdb|1FT1|B Chain B, Crystal Structure Of Protein Farnesyltransferase At 2.25 Angstroms Resolution Length = 437

Iteration: 1
 Score =  109 bits (273), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 76/241 (31%), Positives = 121/241 (50%), Gaps = 29/241 (12%)
Query: 6   NLASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
           +LA TY A+  L  +G    +  I+ + +L  + +L+Q DGSF+ +H G E D+R  YCA
Sbjct: 149 HLAPTYAAVNALCIIGTEEAYNVINREKLLQYLYSLKQPDGSFL-MHVGGEVDVRSAYCA 207
Query: 64  AAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED 123
           A++  L    +    E    +I  CQ+++GG G  PG E+HGG T+C +A+L ++   ++
Sbjct: 208 ASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILK--KE 265
Query: 124 NVLSKNTXXXXXXXXXXXXWCLQRQAA-DGGFQGRANKPSDTCYAFWIGSVLRMLG---- 178
             L+  +            W   RQ   +GGFQGR NK  D CY+FW   +L +L     
Sbjct: 266 RSLNLKS---------LLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALH 316
Query: 179 ---------GYNLIDKEALRGFLLT-CQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP 228
                     + +  ++AL+ ++L  CQ   GG    PG   D YH+ Y  +  S+ +  
Sbjct: 317 AQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQHF 376
Query: 229 G 229
           G
Sbjct: 377 G 377

>pdb|2H6G|B Chain B, W102t Protein Farnesyltransferase Mutant Complexed With A Geranylgeranylated Ddptasacvls Peptide Product At 1.85a Resolution Length = 437

Iteration: 1
 Score =  108 bits (271), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 76/238 (31%), Positives = 119/238 (50%), Gaps = 29/238 (12%)
Query: 6   NLASTYCALAILKAVGYNFAN--IDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
           +LA TY A+  L  +G   A   I+ + +L  + +L+Q DGSF+ +H G E D+R  YCA
Sbjct: 149 HLAPTYAAVNALCIIGTEEAYDIINREKLLQYLYSLKQPDGSFL-MHVGGEVDVRSAYCA 207
Query: 64  AAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED 123
           A++  L    +    E    +I  CQ+++GG G  PG E+HGG T+C +A+L ++    +
Sbjct: 208 ASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILK--RE 265
Query: 124 NVLSKNTXXXXXXXXXXXXWCLQRQAA-DGGFQGRANKPSDTCYAFWIGSVLRMLG---- 178
             L+  +            W   RQ   +GGFQGR NK  D CY+FW   +L +L     
Sbjct: 266 RSLNLKS---------LLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALH 316
Query: 179 ---------GYNLIDKEALRGFLLT-CQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLE 226
                     + +  ++AL+ ++L  CQ   GG    PG   D YH+ Y  +  S+ +
Sbjct: 317 AQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQ 374

>pdb|1JCQ|B Chain B, Crystal Structure Of Human Protein Farnesyltransferase Complexed With Farnesyl Diphosphate And The Peptidomimetic Inhibitor L-739,750 Length = 437

Iteration: 1
 Score =  108 bits (271), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 76/238 (31%), Positives = 119/238 (50%), Gaps = 29/238 (12%)
Query: 6   NLASTYCALAILKAVGYNFAN--IDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
           +LA TY A+  L  +G   A   I+ + +L  + +L+Q DGSF+ +H G E D+R  YCA
Sbjct: 149 HLAPTYAAVNALCIIGTEEAYDIINREKLLQYLYSLKQPDGSFL-MHVGGEVDVRSAYCA 207
Query: 64  AAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED 123
           A++  L    +    E    +I  CQ+++GG G  PG E+HGG T+C +A+L ++    +
Sbjct: 208 ASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILK--RE 265
Query: 124 NVLSKNTXXXXXXXXXXXXWCLQRQAA-DGGFQGRANKPSDTCYAFWIGSVLRMLG---- 178
             L+  +            W   RQ   +GGFQGR NK  D CY+FW   +L +L     
Sbjct: 266 RSLNLKS---------LLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALH 316
Query: 179 ---------GYNLIDKEALRGFLLT-CQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLE 226
                     + +  ++AL+ ++L  CQ   GG    PG   D YH+ Y  +  S+ +
Sbjct: 317 AQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQ 374

>pdb|2H6I|B Chain B, W102tY365F PROTEIN FARNESYLTRANSFERASE DOUBLE MUTANT COMPLEXED WITH A Geranylgeranylated Ddptasacvls Peptide Product At 3.0a Length = 437

Iteration: 1
 Score =  107 bits (268), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 75/238 (31%), Positives = 119/238 (50%), Gaps = 29/238 (12%)
Query: 6   NLASTYCALAILKAVGYNFAN--IDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
           +LA TY A+  L  +G   A   I+ + +L  + +L+Q DGSF+ +H G E D+R  YCA
Sbjct: 149 HLAPTYAAVNALCIIGTEEAYDIINREKLLQYLYSLKQPDGSFL-MHVGGEVDVRSAYCA 207
Query: 64  AAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED 123
           A++  L    +    E    +I  CQ+++GG G  PG E+HGG T+C +A+L ++    +
Sbjct: 208 ASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILK--RE 265
Query: 124 NVLSKNTXXXXXXXXXXXXWCLQRQAA-DGGFQGRANKPSDTCYAFWIGSVLRMLG---- 178
             L+  +            W   RQ   +GGFQGR NK  D CY+FW   +L +L     
Sbjct: 266 RSLNLKS---------LLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALH 316
Query: 179 ---------GYNLIDKEALRGFLLT-CQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLE 226
                     + +  ++AL+ ++L  CQ   GG    PG   D YH+ +  +  S+ +
Sbjct: 317 AQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCFCLSGLSIAQ 374

>pdb|2H6H|B Chain B, Y365f Protein Farnesyltransferase Mutant Complexed With A Farnesylated Ddptasacvls Peptide Product At 1.8a Length = 437

Iteration: 1
 Score =  107 bits (267), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 75/238 (31%), Positives = 119/238 (50%), Gaps = 29/238 (12%)
Query: 6   NLASTYCALAILKAVGYNFAN--IDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
           +LA TY A+  L  +G   A   I+ + +L  + +L+Q DGSF+ +H G E D+R  YCA
Sbjct: 149 HLAPTYAAVNALCIIGTEEAYDIINREKLLQYLYSLKQPDGSFL-MHVGGEVDVRSAYCA 207
Query: 64  AAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED 123
           A++  L    +    E    +I  CQ+++GG G  PG E+HGG T+C +A+L ++    +
Sbjct: 208 ASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILK--RE 265
Query: 124 NVLSKNTXXXXXXXXXXXXWCLQRQAA-DGGFQGRANKPSDTCYAFWIGSVLRMLG---- 178
             L+  +            W   RQ   +GGFQGR NK  D CY+FW   +L +L     
Sbjct: 266 RSLNLKS---------LLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALH 316
Query: 179 ---------GYNLIDKEALRGFLLT-CQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLE 226
                     + +  ++AL+ ++L  CQ   GG    PG   D YH+ +  +  S+ +
Sbjct: 317 AQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCFCLSGLSIAQ 374

>pdb|3EUV|B Chain B, Crystal Structure Of Ftase(Alpha-Subunit; Beta-Subunit Delta C10, W102t, Y154t) In Complex With Biotingpp Length = 427

Iteration: 1
 Score =  106 bits (265), Expect = 9e-24,   Method: Compositional matrix adjust.
 Identities = 75/241 (31%), Positives = 120/241 (49%), Gaps = 29/241 (12%)
Query: 6   NLASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCA 63
           +LA T  A+  L  +G    +  I+ + +L  + +L+Q DGSF+ +H G E D+R  YCA
Sbjct: 149 HLAPTTAAVNALCIIGTEEAYNVINREKLLQYLYSLKQPDGSFL-MHVGGEVDVRSAYCA 207
Query: 64  AAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIED 123
           A++  L    +    E    +I  CQ+++GG G  PG E+HGG T+C +A+L ++   ++
Sbjct: 208 ASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILK--KE 265
Query: 124 NVLSKNTXXXXXXXXXXXXWCLQRQAA-DGGFQGRANKPSDTCYAFWIGSVLRMLG---- 178
             L+  +            W   RQ   +GGFQGR NK  D CY+FW   +L +L     
Sbjct: 266 RSLNLKS---------LLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALH 316
Query: 179 ---------GYNLIDKEALRGFLLT-CQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP 228
                     + +  ++AL+ ++L  CQ   GG    PG   D YH+ Y  +  S+ +  
Sbjct: 317 AQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQHF 376
Query: 229 G 229
           G
Sbjct: 377 G 377

>pdb|3DRA|B Chain B, Candida Albicans Protein Geranylgeranyltransferase-I Complexed With Ggpp Length = 390

Iteration: 1
 Score = 77.4 bits (189), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 79/281 (28%), Positives = 118/281 (41%), Gaps = 76/281 (27%)
Query: 6   NLASTYCAL---AILKAVGYNFANIDSKSILTSMRNLQQHDG----SFMPIHFGAEK--- 55
           NL+ST  AL    ILK+  +    I+ K I+  +   Q  DG     F+P  +  E+   
Sbjct: 93  NLSSTLFALYNLLILKSPYHTI--INRKKIMNFLCKCQVKDGINKGGFVPTLYYNEENGD 150
Query: 56  -------DLRFVYCAAAICFLLE-------------DWSGMDRERAKAYILNCQSYDGGF 95
                  DLR  Y A  I  L++             + + +D    + +IL+  + +GGF
Sbjct: 151 YKQYGEPDLRVCYMALLIRHLMKYDDNNNNNNREDSNETDIDLISLQQFILDRININGGF 210
Query: 96  GLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTXXXXXXXXXXXXWCLQRQA------ 149
             T   ESH G T+CA+ASL+L+ +  + + S               W + RQ       
Sbjct: 211 SSTIMDESHLGFTFCAIASLKLLNYPLEKLKS------------TKEWLIHRQVDYPENL 258
Query: 150 ----------------------ADGGFQGRANKPSDTCYAFW-IGSVLRM-LGGYNLIDK 185
                                   GGF GR NK SDTCY++W  GS+  + +    L+D 
Sbjct: 259 YPKDGNGDGNGNGDNYEYYRNIDIGGFNGRENKLSDTCYSWWCTGSLYNIDVNFIKLVDL 318
Query: 186 EALRGFLLT-CQSQ-YGGFGKCPGDLPDLYHSFYGYTAFSL 224
                +LL   Q+Q +GGFG+ P   PD  HS+    + SL
Sbjct: 319 NKAEDYLLNKTQNQLFGGFGRDPDSTPDPMHSYLALASLSL 359

>pdb|3Q73|B Chain B, Cryptococcus Neoformans Protein Farnesyltransferase, Apo Enzyme Length = 520

Iteration: 1
 Score = 53.9 bits (128), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 62/284 (21%), Positives = 103/284 (36%), Gaps = 72/284 (25%)
Query: 9   STYCALAIL----KAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAA 64
           ++ C+LAI        G+       +SI       ++ DG F+ +  G E D+R  YC  
Sbjct: 145 ASVCSLAIAGNDSSTGGWKDLAAARQSIYEFFMRCKRPDGGFV-VCEGGEVDVRGTYCLL 203
Query: 65  AICFLLEDWSGMDRERAKAYILNCQSYDGGFG--------LTPGS--------------- 101
            +  LL+  +         ++  CQ+Y+GGF         + P +               
Sbjct: 204 VVATLLDIITPELLHNVDKFVSACQTYEGGFACASFPFPSVVPSTSAFPTSEPSCRVSMA 263
Query: 102 ESHGGGTYCAVASLRLMGFIEDNVLSKNTXXXXXXXXXXXXWCLQRQAAD---GGFQGRA 158
           E+HGG T C++ S  L+       +   +            W + +Q      GGF+GR 
Sbjct: 264 EAHGGYTSCSLNSHFLL-----TSVPLPSFPLSIDANAALRWTVLQQGEPIEGGGFRGRT 318
Query: 159 NKPSDTCYAFWIG-------SVLRMLGGYN-------------------------LIDKE 186
           NK  D CY++W+G        ++R                               + ++ 
Sbjct: 319 NKLVDGCYSWWVGGGAPVAEELVRREKSRKVKKSRIEVFEEEKEGDWEDVPPIPPIFNRV 378
Query: 187 ALRGFLLTCQSQ----YGGFGKCPGDLPDLYHSFYGYTAFSLLE 226
           AL+ F L    Q     GG    PG  PD YH+    +  S+ +
Sbjct: 379 ALQEFTLVAAQQDPGSTGGLRDKPGKRPDQYHTCNNLSGLSIAQ 422

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	247
1n4q_B	377	Geranyltransferase type-I beta subunit; protein ge	2e-81
1n4q_B	377	Geranyltransferase type-I beta subunit; protein ge	1e-15
3dss_B	331	Geranylgeranyl transferase type-2 subunit beta; pr	2e-72
3dss_B	331	Geranylgeranyl transferase type-2 subunit beta; pr	6e-27
3dss_B	331	Geranylgeranyl transferase type-2 subunit beta; pr	7e-12
3dss_B	331	Geranylgeranyl transferase type-2 subunit beta; pr	2e-06
2h6f_B	437	Protein farnesyltransferase beta subunit; ftase, f	4e-70
2h6f_B	437	Protein farnesyltransferase beta subunit; ftase, f	1e-26
2h6f_B	437	Protein farnesyltransferase beta subunit; ftase, f	1e-24
3dra_B	390	Geranylgeranyltransferase type I beta subunit; ger	2e-66
3dra_B	390	Geranylgeranyltransferase type I beta subunit; ger	3e-09
3q7a_B	520	Farnesyltransferase beta subunit; protein prenyltr	1e-61
3q7a_B	520	Farnesyltransferase beta subunit; protein prenyltr	1e-22
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-06
2sqc_A	631	Squalene-hopene cyclase; isomerase, triterpene cyc	1e-05
2sqc_A	631	Squalene-hopene cyclase; isomerase, triterpene cyc	2e-04

>1n4q_B Geranyltransferase type-I beta subunit; protein geranylgeranyltransferase type-I, ggtase; HET: MGM GER; 2.40A {Rattus norvegicus} SCOP: a.102.4.3 PDB: 1n4p_B* 1n4r_B* 1n4s_B* 1s64_B* 1tnb_B* 1tno_B* 1tnu_B* 1tny_B* 1tnz_B* Length = 377

 Score =  247 bits (632), Expect = 2e-81
 Identities = 93/241 (38%), Positives = 141/241 (58%), Gaps = 10/241 (4%)

Query: 2   HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVY 61
           ++  ++A TY  L+ L  +G + + +D ++ L  +R LQ  DGSF  +  G+E D+RFVY
Sbjct: 117 YDSGHIAMTYTGLSCLIILGDDLSRVDKEACLAGLRALQLEDGSFCAVPEGSENDMRFVY 176

Query: 62  CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
           CA+ IC++L +WSGMD ++A +YI    SYD G     G ESHGG T+C +ASL LMG +
Sbjct: 177 CASCICYMLNNWSGMDMKKAISYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKL 236

Query: 122 EDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
           E+         S  +L  +  WC+ RQ    G+ GR NKP DTCY+FW+G+ L++L  + 
Sbjct: 237 EE-------VFSEKELNRIKRWCIMRQ--QNGYHGRPNKPVDTCYSFWVGATLKLLKIFQ 287

Query: 182 LIDKEALRGFLLTC-QSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMT 240
             + E  R ++L+      GGF K P   PD  H+++G    SL+EE G+  +   L ++
Sbjct: 288 YTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGICKVHPALNVS 347

Query: 241 E 241
            
Sbjct: 348 T 348

>1n4q_B Geranyltransferase type-I beta subunit; protein geranylgeranyltransferase type-I, ggtase; HET: MGM GER; 2.40A {Rattus norvegicus} SCOP: a.102.4.3 PDB: 1n4p_B* 1n4r_B* 1n4s_B* 1s64_B* 1tnb_B* 1tno_B* 1tnu_B* 1tny_B* 1tnz_B* Length = 377

 Score = 74.4 bits (182), Expect = 1e-15
 Identities = 28/199 (14%), Positives = 59/199 (29%), Gaps = 37/199 (18%)

Query: 57  LRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYD------------------------ 92
           L   + A +   +L+    ++++    +I + Q                           
Sbjct: 48  LTIAFFALSGLDMLDSLDVVNKDDIIEWIYSLQVLPTEDRSNLDRCGFRGSSYLGIPFNP 107

Query: 93  --GGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAA 150
                   P    H   TY  ++ L ++G             S +D    L+     Q  
Sbjct: 108 SKNPGTAHPYDSGHIAMTYTGLSCLIILG----------DDLSRVDKEACLAGLRALQLE 157

Query: 151 DGGFQGRAN-KPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDL 209
           DG F        +D  + +    +  ML  ++ +D +    ++    S   G  +  G  
Sbjct: 158 DGSFCAVPEGSENDMRFVYCASCICYMLNNWSGMDMKKAISYIRRSMSYDNGLAQGAGLE 217

Query: 210 PDLYHSFYGYTAFSLLEEP 228
                +F G  +  L+ + 
Sbjct: 218 SHGGSTFCGIASLCLMGKL 236

>3dss_B Geranylgeranyl transferase type-2 subunit beta; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} SCOP: a.102.4.3 PDB: 1ltx_B* 3c72_B* 1dce_B 3dst_B* 3dsu_B* 3dsv_B* 3dsw_B* 3dsx_B* 3hxb_B* 3hxc_B* 3hxd_B* 3hxe_B* 3hxf_B* 3pz1_B* 3pz2_B* 3pz3_B* Length = 331

 Score =  223 bits (568), Expect = 2e-72
 Identities = 81/240 (33%), Positives = 122/240 (50%), Gaps = 14/240 (5%)

Query: 3   NGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYC 62
           +  +L  T  A+ IL         I+   ++  +++LQ+ DGSF       E D RF +C
Sbjct: 91  HDPHLLYTLSAVQILTLYDS-IHVINVDKVVAYVQSLQKEDGSFAG-DIWGEIDTRFSFC 148

Query: 63  AAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIE 122
           A A   LL     ++ E+A  ++L+C ++DGGFG  PGSESH G  YC    L +   + 
Sbjct: 149 AVATLALLGKLDAINVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCTGFLAITSQLH 208

Query: 123 DNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNL 182
                       ++  LL  W  +RQ   GG  GR  K  D CY++W+ + L+++G  + 
Sbjct: 209 Q-----------VNSDLLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVLASLKIIGRLHW 257

Query: 183 IDKEALRGFLLTCQSQ-YGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTE 241
           ID+E LR F+L CQ +  GGF   PGD+ D +H+ +G    SLL E  + P+     M E
Sbjct: 258 IDREKLRSFILACQDEETGGFADRPGDMVDPFHTLFGIAGLSLLGEEQIKPVSPVFCMPE 317

>3dss_B Geranylgeranyl transferase type-2 subunit beta; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} SCOP: a.102.4.3 PDB: 1ltx_B* 3c72_B* 1dce_B 3dst_B* 3dsu_B* 3dsv_B* 3dsw_B* 3dsx_B* 3hxb_B* 3hxc_B* 3hxd_B* 3hxe_B* 3hxf_B* 3pz1_B* 3pz2_B* 3pz3_B* Length = 331

 Score =  105 bits (262), Expect = 6e-27
 Identities = 45/222 (20%), Positives = 89/222 (40%), Gaps = 13/222 (5%)

Query: 5   SNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAA 64
             ++  Y  L ++  +G     ++ + IL  +++ Q   G       G +  L +   A 
Sbjct: 45  LRMSGVYWGLTVMDLMGQLHR-MNKEEILVFIKSCQHECGGVSA-SIGHDPHLLYTLSAV 102

Query: 65  AICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDN 124
            I  L +    ++ ++  AY+ + Q  DG F      E     ++CAVA+L L+G ++  
Sbjct: 103 QILTLYDSIHVINVDKVVAYVQSLQKEDGSFAGDIWGEIDTRFSFCAVATLALLGKLDA- 161

Query: 125 VLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLID 184
                     I++   + + L     DGGF  R    S     +     L +    + ++
Sbjct: 162 ----------INVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCTGFLAITSQLHQVN 211

Query: 185 KEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLE 226
            + L  +L   Q   GG    P  LPD+ +S++   +  ++ 
Sbjct: 212 SDLLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVLASLKIIG 253

>3dss_B Geranylgeranyl transferase type-2 subunit beta; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} SCOP: a.102.4.3 PDB: 1ltx_B* 3c72_B* 1dce_B 3dst_B* 3dsu_B* 3dsv_B* 3dsw_B* 3dsx_B* 3hxb_B* 3hxc_B* 3hxd_B* 3hxe_B* 3hxf_B* 3pz1_B* 3pz2_B* 3pz3_B* Length = 331

 Score = 63.2 bits (153), Expect = 7e-12
 Identities = 24/149 (16%), Positives = 46/149 (30%), Gaps = 11/149 (7%)

Query: 77  DRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIID 136
             E+   YI +  S    +           G Y  +  + LMG +             ++
Sbjct: 19  LLEKHADYIASYGSKKDDYEYCMSEYLRMSGVYWGLTVMDLMGQLHR-----------MN 67

Query: 137 LPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQ 196
              +L +    Q   GG            Y      +L +    ++I+ + +  ++ + Q
Sbjct: 68  KEEILVFIKSCQHECGGVSASIGHDPHLLYTLSAVQILTLYDSIHVINVDKVVAYVQSLQ 127

Query: 197 SQYGGFGKCPGDLPDLYHSFYGYTAFSLL 225
            + G F        D   SF      +LL
Sbjct: 128 KEDGSFAGDIWGEIDTRFSFCAVATLALL 156

>3dss_B Geranylgeranyl transferase type-2 subunit beta; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} SCOP: a.102.4.3 PDB: 1ltx_B* 3c72_B* 1dce_B 3dst_B* 3dsu_B* 3dsv_B* 3dsw_B* 3dsx_B* 3hxb_B* 3hxc_B* 3hxd_B* 3hxe_B* 3hxf_B* 3pz1_B* 3pz2_B* 3pz3_B* Length = 331

 Score = 47.0 bits (111), Expect = 2e-06
 Identities = 19/110 (17%), Positives = 46/110 (41%)

Query: 118 MGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRML 177
           MG  + +V  K+ +   + L     +     +    ++   ++       +W  +V+ ++
Sbjct: 1   MGTQQKDVTIKSDAPDTLLLEKHADYIASYGSKKDDYEYCMSEYLRMSGVYWGLTVMDLM 60

Query: 178 GGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEE 227
           G  + ++KE +  F+ +CQ + GG     G  P L ++       +L + 
Sbjct: 61  GQLHRMNKEEILVFIKSCQHECGGVSASIGHDPHLLYTLSAVQILTLYDS 110

>2h6f_B Protein farnesyltransferase beta subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.102.4.3 PDB: 1jcq_B* 1ld7_B* 1mzc_B* 1s63_B* 1sa4_B* 1tn6_B* 2f0y_B* 1ld8_B* 2iej_B* 3e37_B* 2h6h_B* 2h6g_B* 2h6i_B* 1o1t_B* 1o1s_B* 1o1r_B* 3eu5_B* 3pz4_B* 3e33_B* 1d8e_B* ... Length = 437

 Score =  220 bits (562), Expect = 4e-70
 Identities = 79/252 (31%), Positives = 124/252 (49%), Gaps = 29/252 (11%)

Query: 5   SNLASTYCALAILKAVGYNFA--NIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYC 62
            +LA TY A+  L  +G   A   I+ + +L  + +L+Q DGSF  +H G E D+R  YC
Sbjct: 148 PHLAPTYAAVNALCIIGTEEAYDIINREKLLQYLYSLKQPDGSF-LMHVGGEVDVRSAYC 206

Query: 63  AAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIE 122
           AA++  L    +    E    +I  CQ+++GG G  PG E+HGG T+C +A+L ++    
Sbjct: 207 AASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILK--- 263

Query: 123 DNVLSKNTSSSIIDLPLLLSWCLQRQ-AADGGFQGRANKPSDTCYAFWIGSVLRML---- 177
                       ++L  LL W   RQ   +GGFQGR NK  D CY+FW   +L +L    
Sbjct: 264 --------RERSLNLKSLLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRAL 315

Query: 178 ---------GGYNLIDKEALRGFLL-TCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEE 227
                      + +  ++AL+ ++L  CQ   GG    PG   D YH+ Y  +  S+ + 
Sbjct: 316 HAQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQH 375

Query: 228 PGLNPLCAELGM 239
            G   +  ++ +
Sbjct: 376 FGSGAMLHDVVL 387

>2h6f_B Protein farnesyltransferase beta subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.102.4.3 PDB: 1jcq_B* 1ld7_B* 1mzc_B* 1s63_B* 1sa4_B* 1tn6_B* 2f0y_B* 1ld8_B* 2iej_B* 3e37_B* 2h6h_B* 2h6g_B* 2h6i_B* 1o1t_B* 1o1s_B* 1o1r_B* 3eu5_B* 3pz4_B* 3e33_B* 1d8e_B* ... Length = 437

 Score =  106 bits (264), Expect = 1e-26
 Identities = 46/226 (20%), Positives = 81/226 (35%), Gaps = 16/226 (7%)

Query: 5   SNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAA 64
           S     Y  L  L+ +      I +  +   +   Q  +G F     G    L   Y A 
Sbjct: 99  SRPWLCYWILHSLELLDEPIPQIVATDVCQFLELCQSPEGGFGGGP-GQYPHLAPTYAAV 157

Query: 65  AICFLL---EDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFI 121
               ++   E +  ++RE+   Y+ + +  DG F +  G E      YCA +   L   I
Sbjct: 158 NALCIIGTEEAYDIINREKLLQYLYSLKQPDGSFLMHVGGEVDVRSAYCAASVASLTNII 217

Query: 122 EDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN 181
             ++                 W  + Q  +GG  G     +   Y F   + L +L    
Sbjct: 218 TPDLFEG-----------TAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILKRER 266

Query: 182 LIDKEALRGFLLTCQSQY-GGFGKCPGDLPDLYHSFYGYTAFSLLE 226
            ++ ++L  ++ + Q ++ GGF      L D  +SF+      LL 
Sbjct: 267 SLNLKSLLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLH 312

>2h6f_B Protein farnesyltransferase beta subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.102.4.3 PDB: 1jcq_B* 1ld7_B* 1mzc_B* 1s63_B* 1sa4_B* 1tn6_B* 2f0y_B* 1ld8_B* 2iej_B* 3e37_B* 2h6h_B* 2h6g_B* 2h6i_B* 1o1t_B* 1o1s_B* 1o1r_B* 3eu5_B* 3pz4_B* 3e33_B* 1d8e_B* ... Length = 437

 Score =  100 bits (249), Expect = 1e-24
 Identities = 42/169 (24%), Positives = 64/169 (37%), Gaps = 8/169 (4%)

Query: 61  YCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGF 120
           +   ++  L E    +       ++  CQS +GGFG  PG   H   TY AV +L ++G 
Sbjct: 106 WILHSLELLDEPIPQIVATDVCQFLELCQSPEGGFGGGPGQYPHLAPTYAAVNALCIIGT 165

Query: 121 IEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGY 180
            E           II+   LL +    +  DG F        D   A+   SV  +    
Sbjct: 166 EEA--------YDIINREKLLQYLYSLKQPDGSFLMHVGGEVDVRSAYCAASVASLTNII 217

Query: 181 NLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPG 229
                E    ++  CQ+  GG G  PG      ++F G  A  +L+   
Sbjct: 218 TPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILKRER 266

>3dra_B Geranylgeranyltransferase type I beta subunit; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans} Length = 390

 Score =  209 bits (533), Expect = 2e-66
 Identities = 74/293 (25%), Positives = 113/293 (38%), Gaps = 50/293 (17%)

Query: 2   HNGSNLASTYCALAILKAVGYNFAN-IDSKSILTSMRNLQQHDGSFM------------- 47
           ++  NL+ST  AL  L  +   +   I+ K I+  +   Q  DG                
Sbjct: 89  YDCPNLSSTLFALYNLLILKSPYHTIINRKKIMNFLCKCQVKDGINKGGFVPTLYYNEEN 148

Query: 48  -PIHFGAEKDLRFVYCAAAICFLL-------------EDWSGMDRERAKAYILNCQSYDG 93
                  E DLR  Y A  I  L+              + + +D    + +IL+  + +G
Sbjct: 149 GDYKQYGEPDLRVCYMALLIRHLMKYDDNNNNNNREDSNETDIDLISLQQFILDRINING 208

Query: 94  GFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLS----------------KNTSSSIIDL 137
           GF  T   ESH G T+CA+ASL+L+ +  + + S                     +    
Sbjct: 209 GFSSTIMDESHLGFTFCAIASLKLLNYPLEKLKSTKEWLIHRQVDYPENLYPKDGNGDGN 268

Query: 138 PLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRML--GGYNLIDKEALRGFLLTC 195
               ++   R    GGF GR NK SDTCY++W    L  +      L+D      +LL  
Sbjct: 269 GNGDNYEYYRNIDIGGFNGRENKLSDTCYSWWCTGSLYNIDVNFIKLVDLNKAEDYLLNK 328

Query: 196 Q--SQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP--GLNPLCAELGMTEFSA 244
                +GGFG+ P   PD  HS+    + SL       L  +   L +T+ S 
Sbjct: 329 TQNQLFGGFGRDPDSTPDPMHSYLALASLSLWNHEKFALQEINPILTITKESY 381

>3dra_B Geranylgeranyltransferase type I beta subunit; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans} Length = 390

 Score = 55.6 bits (133), Expect = 3e-09
 Identities = 23/173 (13%), Positives = 48/173 (27%), Gaps = 37/173 (21%)

Query: 87  NCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQ 146
              ++            +   T  A+ +L ++          +   +II+   ++++  +
Sbjct: 76  FRSTHYFQKTNQKYDCPNLSSTLFALYNLLILK---------SPYHTIINRKKIMNFLCK 126

Query: 147 RQAADGGFQGRANKPSDTCYAFWIG---------------SVLRMLGG------------ 179
            Q  DG  +G                               +  ++              
Sbjct: 127 CQVKDGINKGGFVPTLYYNEENGDYKQYGEPDLRVCYMALLIRHLMKYDDNNNNNNREDS 186

Query: 180 -YNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLN 231
               ID  +L+ F+L   +  GGF     D   L  +F    +  LL  P   
Sbjct: 187 NETDIDLISLQQFILDRININGGFSSTIMDESHLGFTFCAIASLKLLNYPLEK 239

>3q7a_B Farnesyltransferase beta subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3CX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_B* 3q78_B* 3q79_B* 3q75_B* 3q7f_B* 3sfx_B* 3sfy_B* Length = 520

 Score =  200 bits (510), Expect = 1e-61
 Identities = 63/297 (21%), Positives = 104/297 (35%), Gaps = 75/297 (25%)

Query: 5   SNLASTYCALAILKAVGYNFAN-------IDSKSILTSMRNLQQHDGSFMPIHFGAEKDL 57
            +L  TY ++  L   G + +           +SI       ++ DG F+ +  G E D+
Sbjct: 138 PHLLPTYASVCSLAIAGNDSSTGGWKDLAAARQSIYEFFMRCKRPDGGFV-VCEGGEVDV 196

Query: 58  RFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLT------------------- 98
           R  YC   +  LL+  +         ++  CQ+Y+GGF                      
Sbjct: 197 RGTYCLLVVATLLDIITPELLHNVDKFVSACQTYEGGFACASFPFPSVVPSTSAFPTSEP 256

Query: 99  ----PGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAA---D 151
                 +E+HGG T C++ S  L+       +   +    ID    L W + +Q      
Sbjct: 257 SCRVSMAEAHGGYTSCSLNSHFLLTS-----VPLPSFPLSIDANAALRWTVLQQGEPIEG 311

Query: 152 GGFQGRANKPSDTCYAFWIGSVLRMLGGY------------------------------- 180
           GGF+GR NK  D CY++W+G    +                                   
Sbjct: 312 GGFRGRTNKLVDGCYSWWVGGGAPVAEELVRREKSRKVKKSRIEVFEEEKEGDWEDVPPI 371

Query: 181 -NLIDKEALRGFLLTCQSQ----YGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNP 232
             + ++ AL+ F L    Q     GG    PG  PD YH+    +  S+ +    + 
Sbjct: 372 PPIFNRVALQEFTLVAAQQDPGSTGGLRDKPGKRPDQYHTCNNLSGLSIAQHKMSHS 428

>3q7a_B Farnesyltransferase beta subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3CX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_B* 3q78_B* 3q79_B* 3q75_B* 3q7f_B* 3sfx_B* 3sfy_B* Length = 520

 Score = 95.0 bits (235), Expect = 1e-22
 Identities = 35/188 (18%), Positives = 59/188 (31%), Gaps = 8/188 (4%)

Query: 61  YCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPG--SESHGGGTYCAVASLRLM 118
           +   ++  L        ++R  + +L+  S  GGFG  P      H   TY +V SL + 
Sbjct: 94  WTVHSLDLLGVALDQGTKDRVVSTLLHFLSPKGGFGGGPANSQIPHLLPTYASVCSLAIA 153

Query: 119 GFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLG 178
           G                    +  + ++ +  DGGF        D    + +  V  +L 
Sbjct: 154 GNDSST---GGWKDLAAARQSIYEFFMRCKRPDGGFVVCEGGEVDVRGTYCLLVVATLLD 210

Query: 179 GYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELG 238
                    +  F+  CQ+  GGF       P         +AF   E      +    G
Sbjct: 211 IITPELLHNVDKFVSACQTYEGGFACASFPFP---SVVPSTSAFPTSEPSCRVSMAEAHG 267

Query: 239 MTEFSALG 246
                +L 
Sbjct: 268 GYTSCSLN 275

>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 = 46.0 bits (108), Expect = 7e-06
 Identities = 46/303 (15%), Positives = 79/303 (26%), Gaps = 117/303 (38%)

Query: 23  NFANIDS-KSILTSMRNL---------QQHDGSF---MPIHFGAEKDLRFV----YCAAA 65
           N  N +S +++L  ++ L          + D S    + IH    +  R +    Y    
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE--- 244

Query: 66  ICFL-LED-WSGMDRERAKAYILNCQ----SYDGGFGLTPGSESHGGGTYCAVAS-LRLM 118
            C L L +     + +   A+ L+C+    +          ++     T   ++     M
Sbjct: 245 NCLLVLLNVQ---NAKAWNAFNLSCKILLTTRFKQV-----TDFLSAATTTHISLDHHSM 296

Query: 119 GFIED---NVLSKNTSSSIIDL--------PLLLS------------W------------ 143
               D   ++L K       DL        P  LS            W            
Sbjct: 297 TLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLT 356

Query: 144 -----CLQRQAAD---------GGFQGRANKPSDTCYAFWIGS-------VLRMLGGYNL 182
                 L                 F   A+ P+      W          V+  L  Y+L
Sbjct: 357 TIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416

Query: 183 IDKEALRG--------FLLTCQS------------QYGGFGK-CPGDLP----DLY-HSF 216
           ++K+              L  +              Y         DL     D Y +S 
Sbjct: 417 VEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSH 476

Query: 217 YGY 219
            G+
Sbjct: 477 IGH 479

>2sqc_A Squalene-hopene cyclase; isomerase, triterpene cyclase, monotopic membrane protein, QW-sequence, repeat; HET: C8E; 2.00A {Alicyclobacillus acidocaldarius} SCOP: a.102.4.2 a.102.4.2 PDB: 3sqc_A 1ump_A* 1h35_A* 1h36_A* 1h37_A* 1h39_A* 1h3a_A* 1h3b_A* 1h3c_A* 1o6h_A* 1o6q_A* 1gsz_A* 1o79_A* 1sqc_A* 1o6r_A* Length = 631

 Score = 45.2 bits (106), Expect = 1e-05
 Identities = 18/105 (17%), Positives = 40/105 (38%), Gaps = 10/105 (9%)

Query: 27  IDSKSILTSMRN-------LQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRE 79
           +++ +   ++          Q+ +G +         ++        +C +L+       E
Sbjct: 6   VEAPAYARTLDRAVEYLLSCQKDEGYW---WGPLLSNVTMEAEYVLLCHILDRVDRDRME 62

Query: 80  RAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDN 124
           + + Y+L+ Q  DG + L PG       T  A  +L+ +G   D 
Sbjct: 63  KIRRYLLHEQREDGTWALYPGGPPDLDTTIEAYVALKYIGMSRDE 107

>2sqc_A Squalene-hopene cyclase; isomerase, triterpene cyclase, monotopic membrane protein, QW-sequence, repeat; HET: C8E; 2.00A {Alicyclobacillus acidocaldarius} SCOP: a.102.4.2 a.102.4.2 PDB: 3sqc_A 1ump_A* 1h35_A* 1h36_A* 1h37_A* 1h39_A* 1h3a_A* 1h3b_A* 1h3c_A* 1o6h_A* 1o6q_A* 1gsz_A* 1o79_A* 1sqc_A* 1o6r_A* Length = 631

 Score = 41.7 bits (97), Expect = 2e-04
 Identities = 34/135 (25%), Positives = 48/135 (35%), Gaps = 21/135 (15%)

Query: 79  ERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLP 138
            RA  Y+   Q  DG +    G  ++  GT   V++L+ +G         +T    I   
Sbjct: 469 RRAVEYLKREQKPDGSWFGRWG-VNYLYGTGAVVSALKAVG--------IDTREPYIQKA 519

Query: 139 LLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGS-------VLRMLGGYNLIDKEALR-- 189
             L W  Q Q  DGG+        D  YA    S        L  L      + EA R  
Sbjct: 520 --LDWVEQHQNPDGGWGEDCRSYEDPAYAGKGASTPSQTAWALMALIAGGRAESEAARRG 577

Query: 190 -GFLLTCQSQYGGFG 203
             +L+  Q   GG+ 
Sbjct: 578 VQYLVETQRPDGGWD 592

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	247
3dss_B	331	Geranylgeranyl transferase type-2 subunit beta; pr	100.0
1n4q_B	377	Geranyltransferase type-I beta subunit; protein ge	100.0
3dra_B	390	Geranylgeranyltransferase type I beta subunit; ger	100.0
2h6f_B	437	Protein farnesyltransferase beta subunit; ftase, f	100.0
3q7a_B	520	Farnesyltransferase beta subunit; protein prenyltr	100.0
3dss_B	331	Geranylgeranyl transferase type-2 subunit beta; pr	100.0
2h6f_B	437	Protein farnesyltransferase beta subunit; ftase, f	100.0
3q7a_B	520	Farnesyltransferase beta subunit; protein prenyltr	100.0
1n4q_B	377	Geranyltransferase type-I beta subunit; protein ge	100.0
3dra_B	390	Geranylgeranyltransferase type I beta subunit; ger	100.0
2sqc_A	631	Squalene-hopene cyclase; isomerase, triterpene cyc	99.9
2sqc_A	631	Squalene-hopene cyclase; isomerase, triterpene cyc	99.9
1w6k_A	732	Lanosterol synthase; cyclase, cholesterol, monotop	99.89
1w6k_A	732	Lanosterol synthase; cyclase, cholesterol, monotop	99.85
1qqf_A	277	Protein (complement C3DG); alpha-alpha barrel, imm	99.63
2wy7_A	310	Complement C3D fragment; immune system, immune res	99.59
1hzf_A	367	Complement factor C4A; alpha-alpha 6 barrel, immun	99.42
1qqf_A	277	Protein (complement C3DG); alpha-alpha barrel, imm	99.35
2wy7_A	310	Complement C3D fragment; immune system, immune res	99.32
2hr0_B	915	Complement C3 alpha' chain; complement component C	99.09
1hzf_A	367	Complement factor C4A; alpha-alpha 6 barrel, immun	99.02
2pn5_A	1325	TEP1R, thioester-containing protein I; FULL-length	98.98
1r76_A	408	Pectate lyase; A-helical structure; 2.65A {Azospir	98.97
4acq_A	1451	Alpha-2-macroglobulin; hydrolase inhibitor, protei	98.95
2pn5_A	1325	TEP1R, thioester-containing protein I; FULL-length	98.79
1gxm_A	332	Pectate lyase; mechanism, elimination; 1.32A {Cell	98.67
2hr0_B	915	Complement C3 alpha' chain; complement component C	98.61
4fxk_B	767	Complement C4-A alpha chain; immune system, proteo	98.52
2bb6_A	414	TCII, TC II, transcobalamin II; alpha_6 - alpha_6	98.49
4acq_A	1451	Alpha-2-macroglobulin; hydrolase inhibitor, protei	98.46
2b39_A	1661	C3; thioester, immune defense, immune system; HET:	98.41
1r76_A	408	Pectate lyase; A-helical structure; 2.65A {Azospir	98.4
2bb6_A	414	TCII, TC II, transcobalamin II; alpha_6 - alpha_6	98.23
3prx_B	1642	Cobra venom factor; immune system, complement, imm	98.17
2pmv_A	399	Gastric intrinsic factor; cobalamin transport prot	97.98
1gxm_A	332	Pectate lyase; mechanism, elimination; 1.32A {Cell	97.91
3cu7_A	1676	Complement C5; Mg domain, inflammation, anaphylato	97.88
2pmv_A	399	Gastric intrinsic factor; cobalamin transport prot	97.78
4fxk_B	767	Complement C4-A alpha chain; immune system, proteo	97.69
2b39_A	1661	C3; thioester, immune defense, immune system; HET:	97.62
3cu7_A	1676	Complement C5; Mg domain, inflammation, anaphylato	97.09
3s9v_A	785	Abietadiene synthase, chloroplastic; alpha bundle/	97.03
3sdr_A	817	Alpha-bisabolene synthase; lyase, terpene synthase	96.95
3p5p_A	764	Taxadiene synthase; class I and II terpene cyclase	96.92
3pya_A	727	ENT-copalyl diphosphate synthase, chloroplastic; c	96.86
3prx_B	1642	Cobra venom factor; immune system, complement, imm	96.37
3sdr_A	817	Alpha-bisabolene synthase; lyase, terpene synthase	95.42
3s9v_A	785	Abietadiene synthase, chloroplastic; alpha bundle/	94.39
3p5p_A	764	Taxadiene synthase; class I and II terpene cyclase	94.14
3pya_A	727	ENT-copalyl diphosphate synthase, chloroplastic; c	90.81

>3dss_B Geranylgeranyl transferase type-2 subunit beta; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} SCOP: a.102.4.3 PDB: 1ltx_B* 3c72_B* 1dce_B 3dst_B* 3dsu_B* 3dsv_B* 3dsw_B* 3dsx_B* 3hxb_B* 3hxc_B* 3hxd_B* 3hxe_B* 3hxf_B* 3pz1_B* 3pz2_B* 3pz3_B* 4ehm_B* 4gts_B* 4gtt_B* 4gtv_B*

Probab=100.00  E-value=3.7e-56  Score=394.74  Aligned_cols=226  Identities=36%  Similarity=0.714  Sum_probs=215.5

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHHHH
Q 025813            3 NGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAK   82 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~~~   82 (247)
                      +.+|+.+||+|+++|.+++ .++.++++++++||+++|++||+|...++ +++|++.||||+.+|.+++.++.+++++++
T Consensus        91 ~~~~l~~Ty~Al~~L~~l~-~~~~id~~k~~~fL~~~Q~~DGsf~~~~~-ge~d~~~ty~Al~~L~llg~~~~~~~~k~v  168 (331)
T 3dss_B           91 HDPHLLYTLSAVQILTLYD-SIHVINVDKVVAYVQSLQKEDGSFAGDIW-GEIDTRFSFCAVATLALLGKLDAINVEKAI  168 (331)
T ss_dssp             SCBCHHHHHHHHHHHHHTT-CGGGSCHHHHHHHHHHTBCTTSCBBSSTT-CCBCHHHHHHHHHHHHHHTCGGGSCHHHHH
T ss_pred             CCccHHHHHHHHHHHHHcC-CccHHHHHHHHHHHhccCCCCCCEecccC-CCCchHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            5789999999999999998 47778999999999999999999987665 789999999999999999987778999999


Q ss_pred             HHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCC
Q 025813           83 AYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPS  162 (247)
Q Consensus        83 ~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~  162 (247)
                      +||++||++||||+..|+.++|+.+||||+++|.++|..+           .++++++++||.++|.+||||+++|++++
T Consensus       169 ~~L~s~Q~~dGGfg~~pg~esh~~~T~~al~aL~llg~~~-----------~~~~~~~~~wL~~~Q~~dGGf~gr~~k~~  237 (331)
T 3dss_B          169 EFVLSCMNFDGGFGCRPGSESHAGQIYCCTGFLAITSQLH-----------QVNSDLLGWWLCERQLPSGGLNGRPEKLP  237 (331)
T ss_dssp             HHHHTTBCTTSCBCSSTTCCCCHHHHHHHHHHHHHTTCGG-----------GSCHHHHHHHHHTTBCTTSCBCSSTTCCC
T ss_pred             HHHHHhCcCCCCcCCCCCCCCcHHHHHHHHHHHHhccccc-----------hhhHHHHHHHHHHhCCCCCCcCCCCCCCC
Confidence            9999999999999999999999999999999999999875           46899999999999999999999999999


Q ss_pred             chhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCC-CCcCCCCCCCccHHHHHHHHHHHHhcCCCCCCCCCccccccc
Q 025813          163 DTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQY-GGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTE  241 (247)
Q Consensus       163 D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~-GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~~~~~~~~~~~~  241 (247)
                      |+||+||++++|++|++.+.++.+++++||++||+.+ |||+++|+++||++||||++++|+++++.++.++||.+|||+
T Consensus       238 D~cys~w~l~~L~llg~~~~~~~~~~~~fil~cQ~~~~GGf~~~pg~~~d~~hT~~~l~~Ls~~g~~~l~~~~p~~~~~~  317 (331)
T 3dss_B          238 DVCYSWWVLASLKIIGRLHWIDREKLRSFILACQDEETGGFADRPGDMVDPFHTLFGIAGLSLLGEEQIKPVSPVFCMPE  317 (331)
T ss_dssp             CHHHHHHHHHHHHHTTCGGGSCHHHHHHHHHHTBCTTTCCBCSSTTSCCBHHHHHHHHHHHHHTTCTTSCCBCTTTSSBH
T ss_pred             cchhHHHHHHHHHHcCCcchhhHHHHHHHHHHhcCCCCCCcCCCCCCCCCHHHHHHHHHHHHHcCCCCCCCCCccccCCH
Confidence            9999999999999999888899999999999999987 999999999999999999999999999999999999999996

>1n4q_B Geranyltransferase type-I beta subunit; protein geranylgeranyltransferase type-I, ggtase; HET: MGM GER; 2.40A {Rattus norvegicus} SCOP: a.102.4.3 PDB: 1n4p_B* 1n4r_B* 1n4s_B* 1s64_B* 1tnb_B* 1tno_B* 1tnu_B* 1tny_B* 1tnz_B*

Probab=100.00  E-value=2.8e-56  Score=400.59  Aligned_cols=232  Identities=41%  Similarity=0.824  Sum_probs=215.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHH
Q 025813            1 MHNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRER   80 (247)
Q Consensus         1 ~~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~   80 (247)
                      |.|+||+.+||+||++|.+||..++.++++++++||+++|+|||+|...+..++.|+++||+|+.++.+++..+.+++++
T Consensus       116 ~~d~~~v~~T~~Al~~L~~lg~~~~~id~~~~~~fL~~~Q~~DGSf~g~~~wGe~DirftY~Al~~l~llg~~~~~~v~k  195 (377)
T 1n4q_B          116 PYDSGHIAMTYTGLSCLIILGDDLSRVDKEACLAGLRALQLEDGSFCAVPEGSENDMRFVYCASCICYMLNNWSGMDMKK  195 (377)
T ss_dssp             TTCCCCHHHHHHHHHHHHHTTCCSTTSCHHHHHHHHHHHBCTTSCBCSSTTCCCCBHHHHHHHHHHHHHTTCGGGSCHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHhcCCCCCeeeccCCCcchhHHHHHHHHHHHHhcCCChHHHHH
Confidence            45789999999999999999987888999999999999999999998753448999999999999999999877889999


Q ss_pred             HHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCC
Q 025813           81 AKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANK  160 (247)
Q Consensus        81 ~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~  160 (247)
                      +++||++||++|||||..|+.|||..+||||+++|.+++..+...       ...+++++++||.++|  +|||+|||+|
T Consensus       196 a~~fL~scQn~DGGfGe~p~~ESh~g~T~cAlaaL~llg~~~~~~-------~~~~~~rli~wL~~rQ--~gGf~GR~nK  266 (377)
T 1n4q_B          196 AISYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKLEEVF-------SEKELNRIKRWCIMRQ--QNGYHGRPNK  266 (377)
T ss_dssp             HHHHHHHTBCTTSSBBSSTTSCBCHHHHHHHHHHHHHHTCHHHHS-------CHHHHHHHHHHHHTTB--SSSBCSSTTS
T ss_pred             HHHHHHHhcCCCCCCCCCCCCCCchhHHHHHHHHHHHhcCccccc-------chhhHHHHHHHHHhcC--CCCcCCCCCc
Confidence            999999999999999999999999999999999999999865210       0126899999999999  8999999999


Q ss_pred             CCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCC-CCCcCCCCCCCccHHHHHHHHHHHHhcCCCCCCCCCccccc
Q 025813          161 PSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQ-YGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGM  239 (247)
Q Consensus       161 ~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~-~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~~~~~~~~~~  239 (247)
                      .+|+||+||++++|.+|+...++|.+++.+||++||+. +|||+++|++.||++|||+++++|+++++.++.++||.+||
T Consensus       267 ~~D~CYSfWv~~~l~iL~~~~~~d~~~l~~fil~cQ~~~~GGf~~~p~~~~D~~HT~~~LagLsl~~~~~l~~i~p~~~i  346 (377)
T 1n4q_B          267 PVDTCYSFWVGATLKLLKIFQYTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGICKVHPALNV  346 (377)
T ss_dssp             CCCTTHHHHHHHHHHHTTCGGGSCHHHHHHHHHTTBCTTTCSBCSSTTSCCBHHHHHHHHHHHHHTTCTTCCCEETTTTE
T ss_pred             chhHHHHHHHHHHHHHhCCccccCHHHHHHHHHHHcCCCCCCcCCCCCCCCCHHHHHHHHHHHHhcCCCCCCCCCCcccC
Confidence            99999999999999999988889999999999999998 99999999999999999999999999999999999999999


Q ss_pred             cc
Q 025813          240 TE  241 (247)
Q Consensus       240 ~~  241 (247)
                      |.
T Consensus       347 ~~  348 (377)
T 1n4q_B          347 ST  348 (377)
T ss_dssp             EH
T ss_pred             CH
Confidence            95

>3dra_B Geranylgeranyltransferase type I beta subunit; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=100.00  E-value=2e-54  Score=388.26  Aligned_cols=227  Identities=34%  Similarity=0.519  Sum_probs=208.7

Q ss_pred             CCCcHHHHHHHHHHHHHhCCC-CCCCCHHHHHHHHHhccc---C-CCCccccC----------CCCCcchHHHHHHHHHH
Q 025813            3 NGSNLASTYCALAILKAVGYN-FANIDSKSILTSMRNLQQ---H-DGSFMPIH----------FGAEKDLRFVYCAAAIC   67 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~~-~~~~~~~~~i~~l~~~q~---~-dGgf~~~~----------~~~~~d~~~ty~al~~l   67 (247)
                      +.||++.||+|+++|.+||.+ ++.+||+++++||+++|+   | ||+|...+          .+++.|+|++|||++++
T Consensus        90 ~~~hl~~Ty~Al~~L~ilg~~~~~~vdr~~i~~~l~~lQ~~~~~~dGsF~~~~~~~~~dg~~~~~ge~D~R~~YcA~~i~  169 (390)
T 3dra_B           90 DCPNLSSTLFALYNLLILKSPYHTIINRKKIMNFLCKCQVKDGINKGGFVPTLYYNEENGDYKQYGEPDLRVCYMALLIR  169 (390)
T ss_dssp             SCCBHHHHHHHHHHHHHTTCCGGGTCCHHHHHHHHHHHBCCSSTTTTCBCSEEEEETTTTEEEEESCCCHHHHHHHHHHH
T ss_pred             CcccHHHHHHHHHHHHHhCchhhccccHHHHHHHHHHHhCCCCCCCCceeeeccccccccccccCCcchHHHHHHHHHHH
Confidence            689999999999999999976 477899999999999999   7 89998543          14789999999999999


Q ss_pred             HHhcCCC-------------cccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCC
Q 025813           68 FLLEDWS-------------GMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSI  134 (247)
Q Consensus        68 ~ll~~~~-------------~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~  134 (247)
                      .+|+.+.             .++++++++||++||+.||||+..|+.|||..+|||||++|.++++..            
T Consensus       170 ~lL~~~~~~~~~~~~~~~~~~id~~~~~~~I~~cq~ydGGfg~~p~~EsH~G~TfCalaaL~lL~~~~------------  237 (390)
T 3dra_B          170 HLMKYDDNNNNNNREDSNETDIDLISLQQFILDRININGGFSSTIMDESHLGFTFCAIASLKLLNYPL------------  237 (390)
T ss_dssp             HHTTCC-------------CCCCHHHHHHHHHTTBCTTSCBCSSTTSCCCHHHHHHHHHHHHHTTCCG------------
T ss_pred             HHhCCCcccccccccccccccccHHHHHHHHHHhcCCCCCcCCCCCcccccchhHHHHHHHHHhCccc------------
Confidence            9999765             578999999999999999999999999999999999999999999862            


Q ss_pred             CCHHHHHHHHHhcCC----------------------------CCCccccccCCCCchhhHHHHHHHHHHhcC--CCCCC
Q 025813          135 IDLPLLLSWCLQRQA----------------------------ADGGFQGRANKPSDTCYAFWIGSVLRMLGG--YNLID  184 (247)
Q Consensus       135 ~~~~~~~~~l~~~Q~----------------------------~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~--~~~~~  184 (247)
                      ++++++++||.++|.                            ++|||+||++|.+|+||+||++++|.+|+.  ..++|
T Consensus       238 ~d~~~l~~WL~~RQ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~GGFnGR~nKl~D~CYS~Wv~~sL~iL~~~~~~l~d  317 (390)
T 3dra_B          238 EKLKSTKEWLIHRQVDYPENLYPKDGNGDGNGNGDNYEYYRNIDIGGFNGRENKLSDTCYSWWCTGSLYNIDVNFIKLVD  317 (390)
T ss_dssp             GGCHHHHHHHHTTBCCCCTTTCC------------CCTTCCGGGTTSBBSSTTCCBCTHHHHHHHHHHHHHCGGGGGGSC
T ss_pred             ccHHHHHHHHHHcCccccccccccccccccccccccccccccccCCCccCCCCCccchhHHHHHHHHHHHhccccccccC
Confidence            367899999999997                            479999999999999999999999999994  46789


Q ss_pred             HHHHHHHHHhc-CCC-CCCcCCCCCCCccHHHHHHHHHHHHhcCC--CCCCCCCccccccc
Q 025813          185 KEALRGFLLTC-QSQ-YGGFGKCPGDLPDLYHSFYGYTAFSLLEE--PGLNPLCAELGMTE  241 (247)
Q Consensus       185 ~~~~~~~L~~~-Q~~-~GGf~~~p~~~~d~~~T~~al~~L~ll~~--~~~~~~~~~~~~~~  241 (247)
                      .+++.+||+.| |+. .|||+++|++.||++|||+++++|+++++  .++.+|||.+|||+
T Consensus       318 ~~~l~~yiL~c~Q~~~~GGf~d~Pg~~pD~yHT~~gLagLsl~~~~~~~l~~vdp~~~ip~  378 (390)
T 3dra_B          318 LNKAEDYLLNKTQNQLFGGFGRDPDSTPDPMHSYLALASLSLWNHEKFALQEINPILTITK  378 (390)
T ss_dssp             HHHHHHHHHHTTBCTTTCSBCSSTTSCCCHHHHHHHHHHHHHHHHHHHTCCCEETTTTEEH
T ss_pred             HHHHHHHHHHhccCCCCCCcCCCCCCCCchHHHHHHHHHHHHcCCccCCCceeCchhcCCH
Confidence            99999999997 565 89999999999999999999999999987  79999999999996

>2h6f_B Protein farnesyltransferase beta subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.102.4.3 PDB: 1jcq_B* 1ld7_B* 1mzc_B* 1s63_B* 1sa4_B* 1tn6_B* 2f0y_B* 1ld8_B* 2iej_B* 3e37_B* 2h6h_B* 2h6g_B* 2h6i_B* 1o1t_B* 1o1s_B* 1o1r_B* 3eu5_B* 3pz4_B* 3e33_B* 1d8e_B* ...

Probab=100.00  E-value=7e-51  Score=371.87  Aligned_cols=227  Identities=34%  Similarity=0.613  Sum_probs=209.7

Q ss_pred             CCCcHHHHHHHHHHHHHhCCC--CCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHH
Q 025813            3 NGSNLASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRER   80 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~~--~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~   80 (247)
                      +.+++..||+|+++|.++|..  .+.++++++++||+++|++||||...++ +++|++.||+|+.++.+++..+...+++
T Consensus       146 ~~~~i~~T~~Al~aL~~lg~~~~~~~i~i~kav~~L~s~Q~~DGsf~~~~~-Ge~d~~~ty~A~~~L~llg~~~~~~v~k  224 (437)
T 2h6f_B          146 QYPHLAPTYAAVNALCIIGTEEAYDIINREKLLQYLYSLKQPDGSFLMHVG-GEVDVRSAYCAASVASLTNIITPDLFEG  224 (437)
T ss_dssp             CCBCHHHHHHHHHHHHHHCCHHHHTTSCHHHHHHHHHTTBCTTSCBBSSTT-CCBSHHHHHHHHHHHHHTTCCCTTTTTT
T ss_pred             CCcchhHHHHHHHHHHHhCCcccccchHHHHHHHHHHHhCCCCCCeeecCC-CCccchhHHHHHHHHHHhCCCChHHHHH
Confidence            468999999999999999964  4668999999999999999999996555 7899999999999999999877778899


Q ss_pred             HHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCC-CCCccccccC
Q 025813           81 AKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQA-ADGGFQGRAN  159 (247)
Q Consensus        81 ~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~-~dGgf~~~~~  159 (247)
                      +++||++||++||||+..|+.++|+.+|||||++|.++|..+           .++++++++||.++|. ++|||++||+
T Consensus       225 ~~~~L~s~Q~~DGGwg~~pg~eSh~~~T~~Al~aL~~lg~~~-----------~~~~~rl~~wL~~rQ~~~~GGf~gRp~  293 (437)
T 2h6f_B          225 TAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILKRER-----------SLNLKSLLQWVTSRQMRFEGGFQGRCN  293 (437)
T ss_dssp             HHHHHHHHBCTTSSBCSSTTSCCCHHHHHHHHHHHHHHTCGG-----------GSCHHHHHHHHHHTBCTTTCSBBSSTT
T ss_pred             HHHHHHHccCCCCCcCCCCCCCCCccHHHHHHHHHHHcCCCC-----------cccHHHHHHHHHhcCCCCCCCccCCCC
Confidence            999999999999999999999999999999999999999875           5689999999999998 8999999999


Q ss_pred             CCCchhhHHHHHHHHHHhcCC-------------CCCCHHHHHHHHHh-cCCCCCCcCCCCCCCccHHHHHHHHHHHHhc
Q 025813          160 KPSDTCYAFWIGSVLRMLGGY-------------NLIDKEALRGFLLT-CQSQYGGFGKCPGDLPDLYHSFYGYTAFSLL  225 (247)
Q Consensus       160 ~~~D~~~~y~a~~~L~lL~~~-------------~~~~~~~~~~~L~~-~Q~~~GGf~~~p~~~~d~~~T~~al~~L~ll  225 (247)
                      |.+|+||+||++++|.+|+..             .++|.+++.+||+. ||+.+|||+++|++.+|++||||++++|+++
T Consensus       294 K~~D~cYSfw~~a~L~lL~~~~~~~~~~~~~~~~~l~d~~~l~~yIL~~~Q~~~GGf~d~Pg~~~D~yHT~y~L~gLsl~  373 (437)
T 2h6f_B          294 KLVDGCYSFWQAGLLPLLHRALHAQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIA  373 (437)
T ss_dssp             SCBCTTHHHHTTTHHHHHHHHHHHTTCTTCCSSCCSSCHHHHHHHHHHHSBCTTSCBCSSTTSCCCHHHHHHHHHHHHHH
T ss_pred             CccchHHHHHHHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHccCCCCCccCCCCCCCCHHHHHHHHHHHHHh
Confidence            999999999999999999742             25889999999987 8999999999999999999999999999999


Q ss_pred             CC----------------CCCCCCCccccccc
Q 025813          226 EE----------------PGLNPLCAELGMTE  241 (247)
Q Consensus       226 ~~----------------~~~~~~~~~~~~~~  241 (247)
                      ++                ..+.++||.+|||.
T Consensus       374 ~~~~~~~~~~~~~~~~~~~~l~~i~p~~~i~~  405 (437)
T 2h6f_B          374 QHFGSGAMLHDVVLGVPENALQPTHPVYNIGP  405 (437)
T ss_dssp             HEEEETTEEEECCCSSGGGCCCCCCTTTSSCH
T ss_pred             ccccccccccccccCCcccCccccCCcccCCH
Confidence            85                47899999999995

>3q7a_B Farnesyltransferase beta subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_B* 3q78_B* 3q79_B* 3q75_B* 3q7f_B* 3sfx_B* 3sfy_B*

Probab=100.00  E-value=7.5e-50  Score=366.86  Aligned_cols=223  Identities=28%  Similarity=0.500  Sum_probs=198.7

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCC-----CCCCC--HHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCC
Q 025813            2 HNGSNLASTYCALAILKAVGYN-----FANID--SKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWS   74 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~-----~~~~~--~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~   74 (247)
                      .+.+||.+||+||++|.+|+..     ++.+|  ++++++||+++|++||+|....+ ++.|+++||+|+.++.+|+..+
T Consensus       135 ~~~~hla~TysAV~aL~ilg~~~p~~~~~~Id~~r~k~v~fL~slQ~~DGSF~g~~w-Ge~Dir~TY~Al~~L~lLg~~~  213 (520)
T 3q7a_B          135 SQIPHLLPTYASVCSLAIAGNDSSTGGWKDLAAARQSIYEFFMRCKRPDGGFVVCEG-GEVDVRGTYCLLVVATLLDIIT  213 (520)
T ss_dssp             TSCCCHHHHHHHHHHHHHHCBSSTTSBHHHHHHTHHHHHHHHHHHBCTTSCBBSSTT-CCBCHHHHHHHHHHHHHHTCCC
T ss_pred             CCCCcHHHHHHHHHHHHHhCccccchhhhhhhhHHHHHHHHHHHHhCCCCCEecCCC-CCchHHHHHHHHHHHHHcCCCC
Confidence            4789999999999999999964     34567  89999999999999999986555 7899999999999999999877


Q ss_pred             cccHHHHHHHHHhcCCCCCCccC-----------------------CCCCCCChhhHHHHHHHHHHhCCccccccccCCC
Q 025813           75 GMDRERAKAYILNCQSYDGGFGL-----------------------TPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTS  131 (247)
Q Consensus        75 ~~~~~~~~~~l~~~Q~~dGGFg~-----------------------~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~  131 (247)
                      ..+++++++||++||+.|||||.                       .|+.|+|..+|||||++|.+++..+...     .
T Consensus       214 ~~~v~kav~fI~scQn~DGGfGe~s~~~~~~~~~~~~~~~~rp~~~~Pg~EaHgGyTfCalAaL~lL~~l~~~~-----~  288 (520)
T 3q7a_B          214 PELLHNVDKFVSACQTYEGGFACASFPFPSVVPSTSAFPTSEPSCRVSMAEAHGGYTSCSLNSHFLLTSVPLPS-----F  288 (520)
T ss_dssp             HHHHTTHHHHHHTTBCTTSSBCSCEEEEC------------CCSEEEECSCCCHHHHHHHHHHHHHHHTSCCTT-----C
T ss_pred             hHHHHHHHHHHHHhcCCCCCccCccccccccccccccccccccccCCCCCccchhHHHHHHHHHHHhccccccc-----c
Confidence            78899999999999999999999                       6799999999999999999999863100     0


Q ss_pred             CCCCCHHHHHHHHHhcCC---CCCccccccCCCCchhhHHHHHHHHHHhcCC----------------------------
Q 025813          132 SSIIDLPLLLSWCLQRQA---ADGGFQGRANKPSDTCYAFWIGSVLRMLGGY----------------------------  180 (247)
Q Consensus       132 ~~~~~~~~~~~~l~~~Q~---~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~----------------------------  180 (247)
                      ...+|++++++||.++|.   ++|||+||++|.+|+||+||++++|.||+..                            
T Consensus       289 ~~~~d~~~l~~WL~~RQ~~~~e~GGF~GR~NKlvD~CYSfWvggsl~iL~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~  368 (520)
T 3q7a_B          289 PLSIDANAALRWTVLQQGEPIEGGGFRGRTNKLVDGCYSWWVGGGAPVAEELVRREKSRKVKKSRIEVFEEEKEGDWEDV  368 (520)
T ss_dssp             SCCCCHHHHHHHHHHTBCCGGGTTCBBSSTTSCBCTTHHHHTGGGHHHHHHHHHHHHHHHC-------------------
T ss_pred             ccccCHHHHHHHHHHhCCcccCCCcccCCCCCCCchhhhhHHHHHHHHHHHHhhcccccccccccccccccccccccccc
Confidence            125789999999999996   4699999999999999999999999998752                            


Q ss_pred             ----CCCCHHHHHHHHH-hcCCCC---CCcCCCCCCCccHHHHHHHHHHHHhcCCCCC
Q 025813          181 ----NLIDKEALRGFLL-TCQSQY---GGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL  230 (247)
Q Consensus       181 ----~~~~~~~~~~~L~-~~Q~~~---GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~  230 (247)
                          .++|.+++.+||+ .||...   |||+++|++.+|++||||++++|+++++...
T Consensus       369 ~~~~~l~d~~~L~~yIL~~~Q~~~~~~GGf~DkPg~~pD~yHT~y~LaGLSl~qh~~~  426 (520)
T 3q7a_B          369 PPIPPIFNRVALQEFTLVAAQQDPGSTGGLRDKPGKRPDQYHTCNNLSGLSIAQHKMS  426 (520)
T ss_dssp             --CCCSSCHHHHHHHHHHTTBCCTTSSCCBCSSTTSCCCHHHHHHHHHHHHHHHSCEE
T ss_pred             cccccccCHHHHHHHHHHHccCCCCCCCCCCCCCCCCcchhHHHHHHHHHHHhCCCCC
Confidence                3578999999998 699987   9999999999999999999999999998754

>3dss_B Geranylgeranyl transferase type-2 subunit beta; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} SCOP: a.102.4.3 PDB: 1ltx_B* 3c72_B* 1dce_B 3dst_B* 3dsu_B* 3dsv_B* 3dsw_B* 3dsx_B* 3hxb_B* 3hxc_B* 3hxd_B* 3hxe_B* 3hxf_B* 3pz1_B* 3pz2_B* 3pz3_B* 4ehm_B* 4gts_B* 4gtt_B* 4gtv_B*

Probab=100.00  E-value=5.6e-48  Score=342.21  Aligned_cols=216  Identities=21%  Similarity=0.349  Sum_probs=203.1

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHHH
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERA   81 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~~   81 (247)
                      +|.++++.|||++.+|.+||. ++.++++++++||+++|++||||...+ +..+++..||+|+.+|.+++..+.++++++
T Consensus        42 ~d~~r~~~~yw~l~~L~lLg~-l~~~~r~~~i~~l~s~Q~~dGGF~g~~-g~~~~l~~Ty~Al~~L~~l~~~~~id~~k~  119 (331)
T 3dss_B           42 SEYLRMSGVYWGLTVMDLMGQ-LHRMNKEEILVFIKSCQHECGGVSASI-GHDPHLLYTLSAVQILTLYDSIHVINVDKV  119 (331)
T ss_dssp             GGGGHHHHHHHHHHHHHHTTC-GGGSCHHHHHHHHHHTBCTTSCBBSST-TSCBCHHHHHHHHHHHHHTTCGGGSCHHHH
T ss_pred             ccccHHHHHHHHHHHHHHhCC-CchhhHHHHHHHHhhhcCCCCCcCCCC-CCCccHHHHHHHHHHHHHcCCccHHHHHHH
Confidence            577899999999999999994 666799999999999999999999765 578999999999999999997777899999


Q ss_pred             HHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCC
Q 025813           82 KAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKP  161 (247)
Q Consensus        82 ~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~  161 (247)
                      ++||+++|++||||++.+..++|+..||||+++|.++|..+           .++++++++||+++|++||||.++|+.+
T Consensus       120 ~~fL~~~Q~~DGsf~~~~~ge~d~~~ty~Al~~L~llg~~~-----------~~~~~k~v~~L~s~Q~~dGGfg~~pg~e  188 (331)
T 3dss_B          120 VAYVQSLQKEDGSFAGDIWGEIDTRFSFCAVATLALLGKLD-----------AINVEKAIEFVLSCMNFDGGFGCRPGSE  188 (331)
T ss_dssp             HHHHHHTBCTTSCBBSSTTCCBCHHHHHHHHHHHHHHTCGG-----------GSCHHHHHHHHHTTBCTTSCBCSSTTCC
T ss_pred             HHHHhccCCCCCCEecccCCCCchHHHHHHHHHHHhcCCCC-----------HHHHHHHHHHHHHhCcCCCCcCCCCCCC
Confidence            99999999999999999999999999999999999999864           4689999999999999999999999999


Q ss_pred             CchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHHhcCCCCC
Q 025813          162 SDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL  230 (247)
Q Consensus       162 ~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~  230 (247)
                      +|+++|||++++|.+++..+.++.+++++||.++|+++|||+++|++++|++||||++++|.++++.+.
T Consensus       189 sh~~~T~~al~aL~llg~~~~~~~~~~~~wL~~~Q~~dGGf~gr~~k~~D~cys~w~l~~L~llg~~~~  257 (331)
T 3dss_B          189 SHAGQIYCCTGFLAITSQLHQVNSDLLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVLASLKIIGRLHW  257 (331)
T ss_dssp             CCHHHHHHHHHHHHHTTCGGGSCHHHHHHHHHTTBCTTSCBCSSTTCCCCHHHHHHHHHHHHHTTCGGG
T ss_pred             CcHHHHHHHHHHHHhccccchhhHHHHHHHHHHhCCCCCCcCCCCCCCCcchhHHHHHHHHHHcCCcch
Confidence            999999999999999998877889999999999999999999999999999999999999999998653

>2h6f_B Protein farnesyltransferase beta subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.102.4.3 PDB: 1jcq_B* 1ld7_B* 1mzc_B* 1s63_B* 1sa4_B* 1tn6_B* 2f0y_B* 1ld8_B* 2iej_B* 3e37_B* 2h6h_B* 2h6g_B* 2h6i_B* 1o1t_B* 1o1s_B* 1o1r_B* 3eu5_B* 3pz4_B* 3e33_B* 1d8e_B* ...

Probab=100.00  E-value=3e-43  Score=321.49  Aligned_cols=214  Identities=21%  Similarity=0.223  Sum_probs=195.1

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC---CcccHH
Q 025813            3 NGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW---SGMDRE   79 (247)
Q Consensus         3 ~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~---~~~~~~   79 (247)
                      |..+...+||++.+|.+||...+..+++++++||.++|++||||...++ +.+++..||+|+.+|.++|..   +.++++
T Consensus        97 D~~r~~l~y~~l~aL~lLg~~~~~~~~~r~v~~l~s~Q~~dGGf~g~~~-~~~~i~~T~~Al~aL~~lg~~~~~~~i~i~  175 (437)
T 2h6f_B           97 DASRPWLCYWILHSLELLDEPIPQIVATDVCQFLELCQSPEGGFGGGPG-QYPHLAPTYAAVNALCIIGTEEAYDIINRE  175 (437)
T ss_dssp             TTCHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHBCTTSSBBSSTT-CCBCHHHHHHHHHHHHHHCCHHHHTTSCHH
T ss_pred             cCCCccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhCCCCCCcCCccC-CCcchhHHHHHHHHHHHhCCcccccchHHH
Confidence            3456778999999999999654445678999999999999999998776 778999999999999999853   567899


Q ss_pred             HHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccC
Q 025813           80 RAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRAN  159 (247)
Q Consensus        80 ~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~  159 (247)
                      ++++||+++|++||||+..++.++|+..||+|+++|.++|..+           ...++++++||+++|++||||+++|+
T Consensus       176 kav~~L~s~Q~~DGsf~~~~~Ge~d~~~ty~A~~~L~llg~~~-----------~~~v~k~~~~L~s~Q~~DGGwg~~pg  244 (437)
T 2h6f_B          176 KLLQYLYSLKQPDGSFLMHVGGEVDVRSAYCAASVASLTNIIT-----------PDLFEGTAEWIARCQNWEGGIGGVPG  244 (437)
T ss_dssp             HHHHHHHTTBCTTSCBBSSTTCCBSHHHHHHHHHHHHHTTCCC-----------TTTTTTHHHHHHHHBCTTSSBCSSTT
T ss_pred             HHHHHHHHhCCCCCCeeecCCCCccchhHHHHHHHHHHhCCCC-----------hHHHHHHHHHHHHccCCCCCcCCCCC
Confidence            9999999999999999999999999999999999999999754           34577899999999999999999999


Q ss_pred             CCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCC-CCCCcCCCCCCCccHHHHHHHHHHHHhcCCC
Q 025813          160 KPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQS-QYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP  228 (247)
Q Consensus       160 ~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~-~~GGf~~~p~~~~d~~~T~~al~~L~ll~~~  228 (247)
                      +++|+++||||+++|.++|..+.++++++++||.+||. ++|||.+||++.+|+|||||++++|.++++.
T Consensus       245 ~eSh~~~T~~Al~aL~~lg~~~~~~~~rl~~wL~~rQ~~~~GGf~gRp~K~~D~cYSfw~~a~L~lL~~~  314 (437)
T 2h6f_B          245 MEAHGGYTFCGLAALVILKRERSLNLKSLLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRA  314 (437)
T ss_dssp             SCCCHHHHHHHHHHHHHHTCGGGSCHHHHHHHHHHTBCTTTCSBBSSTTSCBCTTHHHHTTTHHHHHHHH
T ss_pred             CCCCccHHHHHHHHHHHcCCCCcccHHHHHHHHHhcCCCCCCCccCCCCCccchHHHHHHHHHHHHHhhh
Confidence            99999999999999999998877899999999999998 7999999999999999999999999999753

>3q7a_B Farnesyltransferase beta subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_B* 3q78_B* 3q79_B* 3q75_B* 3q7f_B* 3sfx_B* 3sfy_B*

Probab=100.00  E-value=1.7e-41  Score=311.55  Aligned_cols=216  Identities=19%  Similarity=0.210  Sum_probs=194.1

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCC-CCCcchHHHHHHHHHHHHhcCC------C
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHF-GAEKDLRFVYCAAAICFLLEDW------S   74 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~-~~~~d~~~ty~al~~l~ll~~~------~   74 (247)
                      .|.++++..||++.+|.+||..++..+++++++||.++|++||||...+. +..+++..||+|+.+|.+++..      +
T Consensus        84 ~Dasr~wl~Yw~l~aL~LLg~~ld~~~~~~~I~~Ils~Q~~dGGFgg~p~~~~~~hla~TysAV~aL~ilg~~~p~~~~~  163 (520)
T 3q7a_B           84 LDASRPWLVFWTVHSLDLLGVALDQGTKDRVVSTLLHFLSPKGGFGGGPANSQIPHLLPTYASVCSLAIAGNDSSTGGWK  163 (520)
T ss_dssp             GGGGHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHTTBCTTSSBCSSCTTTSCCCHHHHHHHHHHHHHHCBSSTTSBHH
T ss_pred             cccchHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHHcCCCCCCCCCCCCCCCCcHHHHHHHHHHHHHhCccccchhhh
Confidence            36788999999999999999666555788999999999999999987651 3788999999999999999863      2


Q ss_pred             ccc--HHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCC
Q 025813           75 GMD--RERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADG  152 (247)
Q Consensus        75 ~~~--~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dG  152 (247)
                      .++  ++++++||+++|++||+|.+.++.+.|++.||||+.+|.++|..+           .++++++++||+++|+.||
T Consensus       164 ~Id~~r~k~v~fL~slQ~~DGSF~g~~wGe~Dir~TY~Al~~L~lLg~~~-----------~~~v~kav~fI~scQn~DG  232 (520)
T 3q7a_B          164 DLAAARQSIYEFFMRCKRPDGGFVVCEGGEVDVRGTYCLLVVATLLDIIT-----------PELLHNVDKFVSACQTYEG  232 (520)
T ss_dssp             HHHHTHHHHHHHHHHHBCTTSCBBSSTTCCBCHHHHHHHHHHHHHHTCCC-----------HHHHTTHHHHHHTTBCTTS
T ss_pred             hhhhHHHHHHHHHHHHhCCCCCEecCCCCCchHHHHHHHHHHHHHcCCCC-----------hHHHHHHHHHHHHhcCCCC
Confidence            356  889999999999999999998889999999999999999999854           3467889999999999999


Q ss_pred             cccc-----------------------ccCCCCchhhHHHHHHHHHHhcCC------CCCCHHHHHHHHHhcCC---CCC
Q 025813          153 GFQG-----------------------RANKPSDTCYAFWIGSVLRMLGGY------NLIDKEALRGFLLTCQS---QYG  200 (247)
Q Consensus       153 gf~~-----------------------~~~~~~D~~~~y~a~~~L~lL~~~------~~~~~~~~~~~L~~~Q~---~~G  200 (247)
                      ||+.                       .|+.|+|..||||++++|.+|+..      +.++.+++++||..+|.   ++|
T Consensus       233 GfGe~s~~~~~~~~~~~~~~~~rp~~~~Pg~EaHgGyTfCalAaL~lL~~l~~~~~~~~~d~~~l~~WL~~RQ~~~~e~G  312 (520)
T 3q7a_B          233 GFACASFPFPSVVPSTSAFPTSEPSCRVSMAEAHGGYTSCSLNSHFLLTSVPLPSFPLSIDANAALRWTVLQQGEPIEGG  312 (520)
T ss_dssp             SBCSCEEEEC------------CCSEEEECSCCCHHHHHHHHHHHHHHHTSCCTTCSCCCCHHHHHHHHHHTBCCGGGTT
T ss_pred             CccCccccccccccccccccccccccCCCCCccchhHHHHHHHHHHHhccccccccccccCHHHHHHHHHHhCCcccCCC
Confidence            9998                       679999999999999999999985      36789999999999997   469


Q ss_pred             CcCCCCCCCccHHHHHHHHHHHHhcCCC
Q 025813          201 GFGKCPGDLPDLYHSFYGYTAFSLLEEP  228 (247)
Q Consensus       201 Gf~~~p~~~~d~~~T~~al~~L~ll~~~  228 (247)
                      ||++||+|.+|.||+||..++|.+++..
T Consensus       313 GF~GR~NKlvD~CYSfWvggsl~iL~~~  340 (520)
T 3q7a_B          313 GFRGRTNKLVDGCYSWWVGGGAPVAEEL  340 (520)
T ss_dssp             CBBSSTTSCBCTTHHHHTGGGHHHHHHH
T ss_pred             cccCCCCCCCchhhhhHHHHHHHHHHHH
Confidence            9999999999999999999999999864

>1n4q_B Geranyltransferase type-I beta subunit; protein geranylgeranyltransferase type-I, ggtase; HET: MGM GER; 2.40A {Rattus norvegicus} SCOP: a.102.4.3 PDB: 1n4p_B* 1n4r_B* 1n4s_B* 1s64_B* 1tnb_B* 1tno_B* 1tnu_B* 1tny_B* 1tnz_B*

Probab=100.00  E-value=1.2e-40  Score=299.10  Aligned_cols=215  Identities=20%  Similarity=0.240  Sum_probs=192.9

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhccc---------CCCCccccCCC----------------CCcc
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQ---------HDGSFMPIHFG----------------AEKD   56 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~---------~dGgf~~~~~~----------------~~~d   56 (247)
                      .|.++++.+||++.+|.+||. ++.++++++++||.++|+         ++|||...+..                ..++
T Consensus        43 ~d~~r~~~~yw~l~~L~lLg~-l~~~~~~~~i~wils~Q~~p~~~~~~~~~GGF~g~~~~~~p~~d~~~~~~~~~~d~~~  121 (377)
T 1n4q_B           43 LETSRLTIAFFALSGLDMLDS-LDVVNKDDIIEWIYSLQVLPTEDRSNLDRCGFRGSSYLGIPFNPSKNPGTAHPYDSGH  121 (377)
T ss_dssp             GGGGHHHHHHHHHHHHHHTTC-GGGSCHHHHHHHHHTTEECCCTTCTTGGGCEECSSSTTCCCCCSSCSCCCCCTTCCCC
T ss_pred             cccchHHHHHHHHHHHHHhCC-CCccCHHHHHHHHHHhcCCccccccCCCCCccCCCcccCCChhhhccccccccCCCCC
Confidence            467899999999999999994 455679999999999999         68999875421                1378


Q ss_pred             hHHHHHHHHHHHHhcC-CCcccHHHHHHHHHhcCCCCCCccCC-CCCCCChhhHHHHHHHHHHhCCccccccccCCCCCC
Q 025813           57 LRFVYCAAAICFLLED-WSGMDRERAKAYILNCQSYDGGFGLT-PGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSI  134 (247)
Q Consensus        57 ~~~ty~al~~l~ll~~-~~~~~~~~~~~~l~~~Q~~dGGFg~~-p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~  134 (247)
                      +..||.|+.+|.+++. .+.++++++++||+++|++||+|.+. .+.+.|++.||+|+++|.++|..+           .
T Consensus       122 v~~T~~Al~~L~~lg~~~~~id~~~~~~fL~~~Q~~DGSf~g~~~wGe~DirftY~Al~~l~llg~~~-----------~  190 (377)
T 1n4q_B          122 IAMTYTGLSCLIILGDDLSRVDKEACLAGLRALQLEDGSFCAVPEGSENDMRFVYCASCICYMLNNWS-----------G  190 (377)
T ss_dssp             HHHHHHHHHHHHHTTCCSTTSCHHHHHHHHHHHBCTTSCBCSSTTCCCCBHHHHHHHHHHHHHTTCGG-----------G
T ss_pred             HHHHHHHHHHHHHhCcccchhhHHHHHHHHHHhcCCCCCeeeccCCCcchhHHHHHHHHHHHHhcCCC-----------h
Confidence            9999999999999984 46688999999999999999999987 578999999999999999999854           5


Q ss_pred             CCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCCCCC----CHHHHHHHHHhcCCCCCCcCCCCCCCc
Q 025813          135 IDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLI----DKEALRGFLLTCQSQYGGFGKCPGDLP  210 (247)
Q Consensus       135 ~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~~~~----~~~~~~~~L~~~Q~~~GGf~~~p~~~~  210 (247)
                      ++++++++||+++|++||||+..|+.+++..+||||+++|.+|+..+..    +++++++||.++|  +|||.+||+|.+
T Consensus       191 ~~v~ka~~fL~scQn~DGGfGe~p~~ESh~g~T~cAlaaL~llg~~~~~~~~~~~~rli~wL~~rQ--~gGf~GR~nK~~  268 (377)
T 1n4q_B          191 MDMKKAISYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKLEEVFSEKELNRIKRWCIMRQ--QNGYHGRPNKPV  268 (377)
T ss_dssp             SCHHHHHHHHHHTBCTTSSBBSSTTSCBCHHHHHHHHHHHHHHTCHHHHSCHHHHHHHHHHHHTTB--SSSBCSSTTSCC
T ss_pred             HHHHHHHHHHHHhcCCCCCCCCCCCCCCchhHHHHHHHHHHHhcCcccccchhhHHHHHHHHHhcC--CCCcCCCCCcch
Confidence            6899999999999999999999999999999999999999999975433    6789999999999  999999999999


Q ss_pred             cHHHHHHHHHHHHhcCCCCC
Q 025813          211 DLYHSFYGYTAFSLLEEPGL  230 (247)
Q Consensus       211 d~~~T~~al~~L~ll~~~~~  230 (247)
                      |+||+||.+++|.++++...
T Consensus       269 D~CYSfWv~~~l~iL~~~~~  288 (377)
T 1n4q_B          269 DTCYSFWVGATLKLLKIFQY  288 (377)
T ss_dssp             CTTHHHHHHHHHHHTTCGGG
T ss_pred             hHHHHHHHHHHHHHhCCccc
Confidence            99999999999999998653

>3dra_B Geranylgeranyltransferase type I beta subunit; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=100.00  E-value=4.5e-40  Score=295.26  Aligned_cols=225  Identities=22%  Similarity=0.258  Sum_probs=190.7

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCC-CCCCCHHHHHHHHHhcccCC----CCccccC----CC---CCcchHHHHHHHHHHHH
Q 025813            2 HNGSNLASTYCALAILKAVGYN-FANIDSKSILTSMRNLQQHD----GSFMPIH----FG---AEKDLRFVYCAAAICFL   69 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~-~~~~~~~~~i~~l~~~q~~d----Ggf~~~~----~~---~~~d~~~ty~al~~l~l   69 (247)
                      .|.++++.+||++.+|.+||.. +...++++.++||.++|.++    |||...+    .+   ..+++..||+|+.+|.+
T Consensus        27 ~D~~R~~l~Yw~l~~L~lLg~~~~~~~~~~~~i~~i~~~q~~~~~~~gGF~g~~~~~~~g~~~~~~hl~~Ty~Al~~L~i  106 (390)
T 3dra_B           27 EDSNKLAIIYFCLHGLQLIQKFQFTNQELIYYRNFIINQFMIENNQIISFRSTHYFQKTNQKYDCPNLSSTLFALYNLLI  106 (390)
T ss_dssp             GTTCHHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHHHHHEEECSSCEEECSSGGGGGSCTTTSCCBHHHHHHHHHHHHH
T ss_pred             cchhhHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHhccccCCCCCcCCCccCCCCCCccCcccHHHHHHHHHHHHH
Confidence            4678999999999999999963 23346789999999998764    8998764    22   36899999999999999


Q ss_pred             hcCC--CcccHHHHHHHHHhcCC---C-CCCccCCC-----------CCCCChhhHHHHHHHHHHhCCcccccccc--CC
Q 025813           70 LEDW--SGMDRERAKAYILNCQS---Y-DGGFGLTP-----------GSESHGGGTYCAVASLRLMGFIEDNVLSK--NT  130 (247)
Q Consensus        70 l~~~--~~~~~~~~~~~l~~~Q~---~-dGGFg~~p-----------~~~s~~~~T~~al~~L~~lg~~~~~~~~~--~~  130 (247)
                      |+..  +.++++++.+||.+||+   + ||||+..+           +.+.|++.+|||++++.+++...+....+  ..
T Consensus       107 lg~~~~~~vdr~~i~~~l~~lQ~~~~~~dGsF~~~~~~~~~dg~~~~~ge~D~R~~YcA~~i~~lL~~~~~~~~~~~~~~  186 (390)
T 3dra_B          107 LKSPYHTIINRKKIMNFLCKCQVKDGINKGGFVPTLYYNEENGDYKQYGEPDLRVCYMALLIRHLMKYDDNNNNNNREDS  186 (390)
T ss_dssp             TTCCGGGTCCHHHHHHHHHHHBCCSSTTTTCBCSEEEEETTTTEEEEESCCCHHHHHHHHHHHHHTTCC-----------
T ss_pred             hCchhhccccHHHHHHHHHHHhCCCCCCCCceeeeccccccccccccCCcchHHHHHHHHHHHHHhCCCccccccccccc
Confidence            9974  56899999999999999   7 89999654           67999999999999999998764100000  00


Q ss_pred             CCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCC-------------
Q 025813          131 SSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQS-------------  197 (247)
Q Consensus       131 ~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~-------------  197 (247)
                      -...+|++++++||.+||+.||||+..|+.|+|..|||||+++|++|+.. ..+.+++++||.++|.             
T Consensus       187 ~~~~id~~~~~~~I~~cq~ydGGfg~~p~~EsH~G~TfCalaaL~lL~~~-~~d~~~l~~WL~~RQ~~~~~~~~~~~~~~  265 (390)
T 3dra_B          187 NETDIDLISLQQFILDRININGGFSSTIMDESHLGFTFCAIASLKLLNYP-LEKLKSTKEWLIHRQVDYPENLYPKDGNG  265 (390)
T ss_dssp             --CCCCHHHHHHHHHTTBCTTSCBCSSTTSCCCHHHHHHHHHHHHHTTCC-GGGCHHHHHHHHTTBCCCCTTTCC-----
T ss_pred             ccccccHHHHHHHHHHhcCCCCCcCCCCCcccccchhHHHHHHHHHhCcc-cccHHHHHHHHHHcCcccccccccccccc
Confidence            00147899999999999999999999999999999999999999999976 4678999999999997             


Q ss_pred             ---------------CCCCcCCCCCCCccHHHHHHHHHHHHhcCC
Q 025813          198 ---------------QYGGFGKCPGDLPDLYHSFYGYTAFSLLEE  227 (247)
Q Consensus       198 ---------------~~GGf~~~p~~~~d~~~T~~al~~L~ll~~  227 (247)
                                     .+|||.+||+|.+|.||+||++++|.+++.
T Consensus       266 ~~~~~~~~~~~~~~~~~GGFnGR~nKl~D~CYS~Wv~~sL~iL~~  310 (390)
T 3dra_B          266 DGNGNGDNYEYYRNIDIGGFNGRENKLSDTCYSWWCTGSLYNIDV  310 (390)
T ss_dssp             -------CCTTCCGGGTTSBBSSTTCCBCTHHHHHHHHHHHHHCG
T ss_pred             ccccccccccccccccCCCccCCCCCccchhHHHHHHHHHHHhcc
Confidence                           469999999999999999999999999996

>2sqc_A Squalene-hopene cyclase; isomerase, triterpene cyclase, monotopic membrane protein, QW-sequence, repeat; HET: C8E; 2.00A {Alicyclobacillus acidocaldarius} SCOP: a.102.4.2 a.102.4.2 PDB: 3sqc_A 1ump_A* 1h35_A* 1h36_A* 1h37_A* 1h39_A* 1h3a_A* 1h3b_A* 1h3c_A* 1o6h_A* 1o6q_A* 1gsz_A* 1o79_A* 1sqc_A* 1o6r_A*

Probab=99.90  E-value=5.1e-23  Score=196.56  Aligned_cols=211  Identities=16%  Similarity=0.076  Sum_probs=159.8

Q ss_pred             CcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCC-C------------CccccC-CCCCcchHHHHHHHHHHHHh
Q 025813            5 SNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHD-G------------SFMPIH-FGAEKDLRFVYCAAAICFLL   70 (247)
Q Consensus         5 ~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~d-G------------gf~~~~-~~~~~d~~~ty~al~~l~ll   70 (247)
                      +.++.|.+++++|...|...+.+..+++++||++.|..+ |            ||.... ..+.++++.|.+++.+|..+
T Consensus       309 s~vwdta~~l~AL~~~G~~~~~~~~~ka~~~L~~~q~~~~g~~~~~~~~~s~GgW~f~~~~~~~p~v~dTA~al~AL~~~  388 (631)
T 2sqc_A          309 SPVWDTGLAVLALRAAGLPADHDRLVKAGEWLLDRQITVPGDWAVKRPNLKPGGFAFQFDNVYYPDVCDTAVVVWALNTL  388 (631)
T ss_dssp             CHHHHHHHHHHHHHHTTCCTTCHHHHHHHHHHHHTCCCSCCGGGGTCTTSCCCCBCSSSSCTTCCBHHHHHHHHHHHTTC
T ss_pred             ChHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCCCCCChhhhcCCCCCCCCccccCCCCCCchHHHHHHHHHHHHc
Confidence            568899999999999996444445789999999988643 3            332111 11347899999999999988


Q ss_pred             cCCC----cccHHHHHHHHHhcCCCCCCccCCCC-------------------CCCChhhHHHHHHHHHHhCCccccccc
Q 025813           71 EDWS----GMDRERAKAYILNCQSYDGGFGLTPG-------------------SESHGGGTYCAVASLRLMGFIEDNVLS  127 (247)
Q Consensus        71 ~~~~----~~~~~~~~~~l~~~Q~~dGGFg~~p~-------------------~~s~~~~T~~al~~L~~lg~~~~~~~~  127 (247)
                      +...    ....+++++||+++|++||||+..+.                   +.+++..|..++.+|..++....    
T Consensus       389 ~~~~~~~~~~~l~~a~~wLls~Q~~dGgf~~~~~~~~~~~~~~~~F~~~~~~~d~~~vd~Ta~vl~aL~~~g~~~~----  464 (631)
T 2sqc_A          389 RLPDERRRRDAMTKGFRWIVGMQSSNGGWGAYDVDNTSDLPNHIPFSDFGEVTDPPSEDVTAHVLECFGSFGYDDA----  464 (631)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHTCCTTSCBCSSCSSCCCSGGGGSTTCSSSCSSCCCBHHHHHHHHHHHHTTTCCTT----
T ss_pred             CCCccchhHHHHHHHHHHHHhhcCCCCCCCccCCCCccccccccccccCCcccCCCCchHHHHHHHHHHhcCCCcc----
Confidence            8632    22467999999999999999976422                   12677889999999998875321    


Q ss_pred             cCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHH---HhcCCC-CCCHHHHHHHHHhcCCCCCCcC
Q 025813          128 KNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLR---MLGGYN-LIDKEALRGFLLTCQSQYGGFG  203 (247)
Q Consensus       128 ~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~---lL~~~~-~~~~~~~~~~L~~~Q~~~GGf~  203 (247)
                            ...++++++||.++|++||||.++++    ++++|+...++.   .++... ...++++++||+++|+.||||+
T Consensus       465 ------~~~i~rai~~L~~~Q~~DGsw~g~wg----~~~~y~Ta~~l~aL~~~g~~~~~~~i~rav~~L~s~Q~~DGgWg  534 (631)
T 2sqc_A          465 ------WKVIRRAVEYLKREQKPDGSWFGRWG----VNYLYGTGAVVSALKAVGIDTREPYIQKALDWVEQHQNPDGGWG  534 (631)
T ss_dssp             ------SHHHHHHHHHHHHHCCTTSCCCCSSB----SSHHHHHHHHHHHHHHTTCCTTSHHHHHHHHHHHHTCCTTSCCC
T ss_pred             ------HHHHHHHHHHHHHhcCCCCCCCCCCC----CCchHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHhCcCCCCcC
Confidence                  34578999999999999999987765    556676555544   444321 2346899999999999999998


Q ss_pred             CCC----------CCCccHHHHHHHHHHHHhcCCCC
Q 025813          204 KCP----------GDLPDLYHSFYGYTAFSLLEEPG  229 (247)
Q Consensus       204 ~~p----------~~~~d~~~T~~al~~L~ll~~~~  229 (247)
                      ..+          ...+|+.+|+|++.+|..++..+
T Consensus       535 ~~~~sy~~~~~~~~~~s~v~~Ta~ALlaL~~ag~~~  570 (631)
T 2sqc_A          535 EDCRSYEDPAYAGKGASTPSQTAWALMALIAGGRAE  570 (631)
T ss_dssp             CCGGGGTCGGGTTCSSCCHHHHHHHHHHHHHTTCSS
T ss_pred             CccccccccccCCCCCCCHHHHHHHHHHHHHcCCCC
Confidence            653          35689999999999999998763

>2sqc_A Squalene-hopene cyclase; isomerase, triterpene cyclase, monotopic membrane protein, QW-sequence, repeat; HET: C8E; 2.00A {Alicyclobacillus acidocaldarius} SCOP: a.102.4.2 a.102.4.2 PDB: 3sqc_A 1ump_A* 1h35_A* 1h36_A* 1h37_A* 1h39_A* 1h3a_A* 1h3b_A* 1h3c_A* 1o6h_A* 1o6q_A* 1gsz_A* 1o79_A* 1sqc_A* 1o6r_A*

Probab=99.90  E-value=1.3e-22  Score=193.87  Aligned_cols=211  Identities=16%  Similarity=0.083  Sum_probs=161.3

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCC---CCCHHHHHHHHHhcccCCCCccccCCC------------------CCcchHHHHH
Q 025813            4 GSNLASTYCALAILKAVGYNFA---NIDSKSILTSMRNLQQHDGSFMPIHFG------------------AEKDLRFVYC   62 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~~~~---~~~~~~~i~~l~~~q~~dGgf~~~~~~------------------~~~d~~~ty~   62 (247)
                      .|++.+|.+++.+|..++....   ....+++++||.++|++||||......                  +.+++..|..
T Consensus       372 ~p~v~dTA~al~AL~~~~~~~~~~~~~~l~~a~~wLls~Q~~dGgf~~~~~~~~~~~~~~~~F~~~~~~~d~~~vd~Ta~  451 (631)
T 2sqc_A          372 YPDVCDTAVVVWALNTLRLPDERRRRDAMTKGFRWIVGMQSSNGGWGAYDVDNTSDLPNHIPFSDFGEVTDPPSEDVTAH  451 (631)
T ss_dssp             CCBHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHTCCTTSCBCSSCSSCCCSGGGGSTTCSSSCSSCCCBHHHHHH
T ss_pred             CCchHHHHHHHHHHHHcCCCccchhHHHHHHHHHHHHhhcCCCCCCCccCCCCccccccccccccCCcccCCCCchHHHH
Confidence            3789999999999999885211   112468999999999999999653210                  1257778888


Q ss_pred             HHHHHHHhcCC-CcccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHH
Q 025813           63 AAAICFLLEDW-SGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLL  141 (247)
Q Consensus        63 al~~l~ll~~~-~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~  141 (247)
                      ++.+|..++.. ....++++++||+++|++||||.+..+ ..+...|..++.+|..+|...          ....+++++
T Consensus       452 vl~aL~~~g~~~~~~~i~rai~~L~~~Q~~DGsw~g~wg-~~~~y~Ta~~l~aL~~~g~~~----------~~~~i~rav  520 (631)
T 2sqc_A          452 VLECFGSFGYDDAWKVIRRAVEYLKREQKPDGSWFGRWG-VNYLYGTGAVVSALKAVGIDT----------REPYIQKAL  520 (631)
T ss_dssp             HHHHHHTTTCCTTSHHHHHHHHHHHHHCCTTSCCCCSSB-SSHHHHHHHHHHHHHHTTCCT----------TSHHHHHHH
T ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHHhcCCCCCCCCCCC-CCchHHHHHHHHHHHHhCCcc----------cHHHHHHHH
Confidence            88888888753 234678999999999999999966543 345666777888888887642          134688999


Q ss_pred             HHHHhcCCCCCcccccc----------CCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCC--
Q 025813          142 SWCLQRQAADGGFQGRA----------NKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDL--  209 (247)
Q Consensus       142 ~~l~~~Q~~dGgf~~~~----------~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~--  209 (247)
                      +||+++|++||||...+          .+++|+..|+|++.+|..++......++++++||.++|+++|||...+...  
T Consensus       521 ~~L~s~Q~~DGgWg~~~~sy~~~~~~~~~~s~v~~Ta~ALlaL~~ag~~~~~~i~rav~wL~~~Q~~dGgw~~~~~tg~g  600 (631)
T 2sqc_A          521 DWVEQHQNPDGGWGEDCRSYEDPAYAGKGASTPSQTAWALMALIAGGRAESEAARRGVQYLVETQRPDGGWDEPYYTGTG  600 (631)
T ss_dssp             HHHHHTCCTTSCCCCCGGGGTCGGGTTCSSCCHHHHHHHHHHHHHTTCSSSHHHHHHHHHHHHHCCTTSCCCCCSCCEEE
T ss_pred             HHHHHhCcCCCCcCCccccccccccCCCCCCCHHHHHHHHHHHHHcCCCChHHHHHHHHHHHhccCCCCCcCCCCccccc
Confidence            99999999999996432          356899999999999999887544457899999999999999999876431  


Q ss_pred             --------ccHHHHHHHHHHHHhc
Q 025813          210 --------PDLYHSFYGYTAFSLL  225 (247)
Q Consensus       210 --------~d~~~T~~al~~L~ll  225 (247)
                              -+.+.+++++-||+..
T Consensus       601 f~~~~yl~y~~y~~~f~l~AL~~y  624 (631)
T 2sqc_A          601 FPGDFYLGYTMYRHVFPTLALGRY  624 (631)
T ss_dssp             ETTTEEEEETTHHHHHHHHHHHHH
T ss_pred             ccccceeeccchhhHHHHHHHHHH
Confidence                    1356677888887654

>1w6k_A Lanosterol synthase; cyclase, cholesterol, monotopic membrane protein, B-octyl-glucoside, isomerase, steroid biosynthesis; HET: BOG LAN; 2.1A {Homo sapiens} SCOP: a.102.4.2 a.102.4.2 PDB: 1w6j_A*

Probab=99.89  E-value=3.9e-22  Score=192.95  Aligned_cols=221  Identities=19%  Similarity=0.161  Sum_probs=163.8

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCC---CCCHHHHHHHHHhcccCC--------------CCccccCC-CCCcchHHHHHHHH
Q 025813            4 GSNLASTYCALAILKAVGYNFA---NIDSKSILTSMRNLQQHD--------------GSFMPIHF-GAEKDLRFVYCAAA   65 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~~~~---~~~~~~~i~~l~~~q~~d--------------Ggf~~~~~-~~~~d~~~ty~al~   65 (247)
                      .+.+..|-+++++|.-.|...+   ....+++++||.++|..+              |||..... .+.+++..|..++.
T Consensus       383 gs~vwdTalal~AL~~ag~~~~~~~~~~l~ka~~~L~~~Q~~~~~~d~~~~~r~~~~GGW~f~~~~~~~pd~d~TA~vl~  462 (732)
T 1w6k_A          383 GSQIWDTAFAIQALLEAGGHHRPEFSSCLQKAHEFLRLSQVPDNPPDYQKYYRQMRKGGFSFSTLDCGWIVSDCTAEALK  462 (732)
T ss_dssp             CCHHHHHHHHHHHHHHTTGGGCGGGHHHHHHHHHHHHHHSCCCCCTTGGGGTCCCCTTCCBSSCTTTCCBCHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHHHcCCCcchhhHHHHHHHHHHHHHhcccccCCcccccccCCCCCeecCCCCCCCCCccccHHHHHH
Confidence            3679999999999998885221   112479999999999766              88864322 13578899999998


Q ss_pred             HHHHhcCC--------CcccHHHHHHHHHhcCCCCCCccCCCC---------------------CCCChhhHHHHHHHHH
Q 025813           66 ICFLLEDW--------SGMDRERAKAYILNCQSYDGGFGLTPG---------------------SESHGGGTYCAVASLR  116 (247)
Q Consensus        66 ~l~ll~~~--------~~~~~~~~~~~l~~~Q~~dGGFg~~p~---------------------~~s~~~~T~~al~~L~  116 (247)
                      +|..+...        ....++++++||+++|++||||+....                     ..+++..|..++.+|.
T Consensus       463 aL~~~~~~~~~~g~~~~~~~i~~av~wLls~Q~~DGgw~a~~~~~~~~~l~~i~~~e~fg~~~~d~s~v~~Ta~vL~aL~  542 (732)
T 1w6k_A          463 AVLLLQEKCPHVTEHIPRERLCDAVAVLLNMRNPDGGFATYETKRGGHLLELLNPSEVFGDIMIDYTYVECTSAVMQALK  542 (732)
T ss_dssp             HHHHHHHHCTTCCSCCCHHHHHHHHHHHHTTCCTTSCBCSSSCCCSCGGGGGGCCCSSCSSCSSCCCBHHHHHHHHHHHH
T ss_pred             HHHHHhcccccccchhhHHHHHHHHHHHHHhcCCCCCEEeecCCCchHHHhhCcchhcccccccCCCcchHHHHHHHHHH
Confidence            88887421        223458999999999999999974321                     2246778999999998


Q ss_pred             HhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCCCC-----CCHHHHHHH
Q 025813          117 LMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNL-----IDKEALRGF  191 (247)
Q Consensus       117 ~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~~~-----~~~~~~~~~  191 (247)
                      .++...+....+.   ....++++++||+++|++||||.++++ ..++..+++++.+|.++|....     ..++++++|
T Consensus       543 ~~~~~~~~~~~~~---~~~~i~rAv~yL~~~Q~~DGsW~g~wg-~~~~Y~T~~al~AL~~aG~~~~~~~~~~~i~rav~~  618 (732)
T 1w6k_A          543 YFHKRFPEHRAAE---IRETLTQGLEFCRRQQRADGSWEGSWG-VCFTYGTWFGLEAFACMGQTYRDGTACAEVSRACDF  618 (732)
T ss_dssp             HHHHHCTTSSHHH---HHHHHHHHHHHHHHHSCTTSCCCCSSB-SSHHHHHHHHHHHHHHTTCCCBTTBCCHHHHHHHHH
T ss_pred             Hhccccccccchh---hHHHHHHHHHHHHhhcCCCCCccCcCC-CccchHHHHHHHHHHHhCCcccccchhHHHHHHHHH
Confidence            8864211100000   013478999999999999999998776 2455567788888988886422     247899999


Q ss_pred             HHhcCCCCCCcCCC----------CCCCccHHHHHHHHHHHHhcCCC
Q 025813          192 LLTCQSQYGGFGKC----------PGDLPDLYHSFYGYTAFSLLEEP  228 (247)
Q Consensus       192 L~~~Q~~~GGf~~~----------p~~~~d~~~T~~al~~L~ll~~~  228 (247)
                      |+++|+.||||+..          ++..+++..|+||+.+|..+++.
T Consensus       619 Lls~Q~~DGGWge~~~s~~~~~y~~~~~s~v~~TAwALlALl~ag~~  665 (732)
T 1w6k_A          619 LLSRQMADGGWGEDFESCEERRYVQSAQSQIHNTCWAMMGLMAVRHP  665 (732)
T ss_dssp             HHTTCCTTSCCCBCTHHHHHTSCCBCSSCCHHHHHHHHHHHHHTTCS
T ss_pred             HHHhcccCCCCCCCCccccccccCCCCCCCHHHHHHHHHHHHHcCCC
Confidence            99999999999874          35678999999999999888764

>1w6k_A Lanosterol synthase; cyclase, cholesterol, monotopic membrane protein, B-octyl-glucoside, isomerase, steroid biosynthesis; HET: BOG LAN; 2.1A {Homo sapiens} SCOP: a.102.4.2 a.102.4.2 PDB: 1w6j_A*

Probab=99.85  E-value=2.4e-20  Score=180.47  Aligned_cols=197  Identities=16%  Similarity=0.125  Sum_probs=146.9

Q ss_pred             CCcHHHHHHHHHHHHHhCCCC----CCCC---HHHHHHHHHhcccCCCCccccCC----------------C----CCcc
Q 025813            4 GSNLASTYCALAILKAVGYNF----ANID---SKSILTSMRNLQQHDGSFMPIHF----------------G----AEKD   56 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~~~----~~~~---~~~~i~~l~~~q~~dGgf~~~~~----------------~----~~~d   56 (247)
                      .|++.+|..++.+|..++...    ..++   .+++++||.++|++||||..+..                +    ..+.
T Consensus       451 ~pd~d~TA~vl~aL~~~~~~~~~~g~~~~~~~i~~av~wLls~Q~~DGgw~a~~~~~~~~~l~~i~~~e~fg~~~~d~s~  530 (732)
T 1w6k_A          451 WIVSDCTAEALKAVLLLQEKCPHVTEHIPRERLCDAVAVLLNMRNPDGGFATYETKRGGHLLELLNPSEVFGDIMIDYTY  530 (732)
T ss_dssp             CBCHHHHHHHHHHHHHHHHHCTTCCSCCCHHHHHHHHHHHHTTCCTTSCBCSSSCCCSCGGGGGGCCCSSCSSCSSCCCB
T ss_pred             CCccccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHHhcCCCCCEEeecCCCchHHHhhCcchhcccccccCCCc
Confidence            478999999999999885311    1123   37899999999999999964321                0    1134


Q ss_pred             hHHHHHHHHHHHHhcCC--C------cccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCcccccccc
Q 025813           57 LRFVYCAAAICFLLEDW--S------GMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSK  128 (247)
Q Consensus        57 ~~~ty~al~~l~ll~~~--~------~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~  128 (247)
                      +..|..++.+|..++..  .      ...++++++||+++|++||||++..+ ..+...|++++.+|..+|....+.   
T Consensus       531 v~~Ta~vL~aL~~~~~~~~~~~~~~~~~~i~rAv~yL~~~Q~~DGsW~g~wg-~~~~Y~T~~al~AL~~aG~~~~~~---  606 (732)
T 1w6k_A          531 VECTSAVMQALKYFHKRFPEHRAAEIRETLTQGLEFCRRQQRADGSWEGSWG-VCFTYGTWFGLEAFACMGQTYRDG---  606 (732)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTSSHHHHHHHHHHHHHHHHHHSCTTSCCCCSSB-SSHHHHHHHHHHHHHHTTCCCBTT---
T ss_pred             chHHHHHHHHHHHhccccccccchhhHHHHHHHHHHHHhhcCCCCCccCcCC-CccchHHHHHHHHHHHhCCccccc---
Confidence            55677777878777531  1      23578999999999999999987654 345567889999999998753110   


Q ss_pred             CCCCCCCCHHHHHHHHHhcCCCCCccccc----------cCCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCC
Q 025813          129 NTSSSIIDLPLLLSWCLQRQAADGGFQGR----------ANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQ  198 (247)
Q Consensus       129 ~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~----------~~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~  198 (247)
                         .....++++++||+++|++||||...          +++.+|+..|.||+.+|..++..+...++++++||.++|++
T Consensus       607 ---~~~~~i~rav~~Lls~Q~~DGGWge~~~s~~~~~y~~~~~s~v~~TAwALlALl~ag~~~~~~i~r~v~wL~~~Q~~  683 (732)
T 1w6k_A          607 ---TACAEVSRACDFLLSRQMADGGWGEDFESCEERRYVQSAQSQIHNTCWAMMGLMAVRHPDIEAQERGVRCLLEKQLP  683 (732)
T ss_dssp             ---BCCHHHHHHHHHHHTTCCTTSCCCBCTHHHHHTSCCBCSSCCHHHHHHHHHHHHHTTCSCHHHHHHHHHHHHHHCCT
T ss_pred             ---chhHHHHHHHHHHHHhcccCCCCCCCCccccccccCCCCCCCHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHhcCC
Confidence               00135789999999999999999853          24567899999999888777754434578899999999999


Q ss_pred             CCCcCCCCC
Q 025813          199 YGGFGKCPG  207 (247)
Q Consensus       199 ~GGf~~~p~  207 (247)
                      +|||...+.
T Consensus       684 ~Ggf~~~~~  692 (732)
T 1w6k_A          684 NGDWPQENI  692 (732)
T ss_dssp             TSCCCCCSC
T ss_pred             CCCccCCcc
Confidence            999997653

>1qqf_A Protein (complement C3DG); alpha-alpha barrel, immune system; 1.45A {Rattus norvegicus} SCOP: a.102.4.4 PDB: 1qsj_A 3d5r_A 2noj_A 2gox_A 3d5s_A 1c3d_A 2xqw_A

Probab=99.63  E-value=8.1e-15  Score=126.38  Aligned_cols=180  Identities=12%  Similarity=0.032  Sum_probs=120.2

Q ss_pred             HHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC---CcccHHHHHHHHHh-cCCCCCCccCCCCC-----
Q 025813           31 SILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW---SGMDRERAKAYILN-CQSYDGGFGLTPGS-----  101 (247)
Q Consensus        31 ~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~---~~~~~~~~~~~l~~-~Q~~dGGFg~~p~~-----  101 (247)
                      +.++++.++|++||||..++ +..++++.|-+++.++......   +...++++++||.+ .|++||+|....+-     
T Consensus        42 ~g~~~~l~~q~~dGgf~~f~-~~~~s~wlTa~v~~~l~~a~~~~~v~~~~i~~a~~~L~~~~Q~~dG~f~~~~~~~~~~~  120 (277)
T 1qqf_A           42 KGYTQQLAFKQPISAYAAFN-NRPPSTWLTAYVSRVFSLAANLIAIDSQVLCGAVKWLILEKQKPDGVFQEDGPVIHQEM  120 (277)
T ss_dssp             HHHHHHHTTBCTTSCBCSST-TSCCCHHHHHHHHHHHHHHTTTSCCCHHHHHHHHHHHHHHHBCTTSCBCCSSCCSCGGG
T ss_pred             HHHHHHHHhcCCCCCccccC-CCCccHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHhccCCCCCccCCccccchhh
Confidence            34455999999999998765 3677899998899888888743   22345799999996 99999999765321     


Q ss_pred             --------CCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCC-----------------------
Q 025813          102 --------ESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAA-----------------------  150 (247)
Q Consensus       102 --------~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~-----------------------  150 (247)
                              ++++..|+.++.+|...+....+-..    ...+.++++++||.++++.                       
T Consensus       121 ~g~~~~~~~~~~~lta~vl~aL~~~~~~~~~~~~----~~~~~i~~A~~~L~~~~~~~~~~y~~a~~ayAl~l~g~~~~~  196 (277)
T 1qqf_A          121 IGGFRNTKEADVSLTAFVLIALQEARDICEGQVN----SLPGSINKAGEYLEASYLNLQRPYTVAIAGYALALMNKLEEP  196 (277)
T ss_dssp             GGGGGSCTTHHHHHHHHHHHHHHHHHHHHTTTCT----THHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHTTCCCTT
T ss_pred             cCCCCCCccCccchHHHHHHHHHhhhhccccCCC----chHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHcCChHHH
Confidence                    23355677778877766331000000    0023467899999888653                       


Q ss_pred             ----------CCccccccCCC-CchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHH
Q 025813          151 ----------DGGFQGRANKP-SDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGY  219 (247)
Q Consensus       151 ----------dGgf~~~~~~~-~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al  219 (247)
                                +|+|-..++.. .++..|-|++-++...+.  ....+++++||.+.|+.+|||...       ..|..|+
T Consensus       197 ~l~~l~~~~~~~~~w~~~~~~~~~ve~Ta~aLlal~~~~~--~~~~~~~v~wL~~qq~~~Ggw~sT-------q~T~~aL  267 (277)
T 1qqf_A          197 YLTKFLNTAKDRNRWEEPGQQLYNVEATSYALLALLLLKD--FDSVPPVVRWLNDERYYGGGYGST-------QATFMVF  267 (277)
T ss_dssp             HHHHHHHHSBTTTBCCCTTCHHHHHHHHHHHHHHHHHTTC--TTSHHHHHHHHHHCCCCTTSTTCH-------HHHHHHH
T ss_pred             HHHHHHHhccCCCCCCCCCCccchhHHHHHHHHHHHhcCC--hhhHHHHHHHHHHccCCCCCeecc-------hHHHHHH
Confidence                      33333223211 145555566555544443  456789999999999999999874       5777888


Q ss_pred             HHHHh
Q 025813          220 TAFSL  224 (247)
Q Consensus       220 ~~L~l  224 (247)
                      -||+-
T Consensus       268 ~AL~~  272 (277)
T 1qqf_A          268 QALAQ  272 (277)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77753

>2wy7_A Complement C3D fragment; immune system, immune response, innate immunity, complement inflammatory response; 1.70A {Homo sapiens} PDB: 2wy8_A 3oed_A 3oxu_A 3rj3_A 1ghq_A* 1w2s_A

Probab=99.59  E-value=2.8e-14  Score=124.93  Aligned_cols=183  Identities=14%  Similarity=0.021  Sum_probs=122.4

Q ss_pred             HHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCC---cccHHHHHHHHHh-cCCCCCCccCCCCC-----
Q 025813           31 SILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWS---GMDRERAKAYILN-CQSYDGGFGLTPGS-----  101 (247)
Q Consensus        31 ~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~---~~~~~~~~~~l~~-~Q~~dGGFg~~p~~-----  101 (247)
                      +.++++.++|++||||..+.. ..++++.|-+++..+.......   ...++++++||.+ .|++||+|....+.     
T Consensus        58 ~g~~~~l~~q~~dGgf~~f~~-~~~s~wlTa~v~~~l~~a~~~~~v~~~~i~~a~~~L~~~~Q~~dGsf~~~~~~~~~~~  136 (310)
T 2wy7_A           58 KGYTQQLAFRQPSSAFAAFVK-RAPSTWLTAYVVKVFSLAVNLIAIDSQVLCGAVKWLILEKQKPDGVFQEDAPVIHQEM  136 (310)
T ss_dssp             HHHHHHHTTBCTTSCBCSSTT-SCCCHHHHHHHHHHHHHHTTTSCCCHHHHHHHHHHHHHHHBCTTSCBCCSSCCSCGGG
T ss_pred             HHHHHHHHhcCCCCCcccCCC-CCccHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhhcCCCCccccCCCccCHhh
Confidence            445559999999999987653 6778999988988888886432   2345799999996 99999999765321     


Q ss_pred             --------CCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCC-----------------------
Q 025813          102 --------ESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAA-----------------------  150 (247)
Q Consensus       102 --------~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~-----------------------  150 (247)
                              ++++..|++++.+|...+....+-..    ...+.++++++||.++|+.                       
T Consensus       137 ~g~~~~~~~~~~~~ta~vl~aL~~~~~~~~~~~~----~~~~~i~~A~~~L~~~~~~~~~~y~~a~~ayAL~l~g~~~~~  212 (310)
T 2wy7_A          137 IGGLRNNNEKDMALTAFVLISLQEAKDICEEQVN----SLPGSITKAGDFLEANYMNLQRSYTVAIAGYALAQMGRLKGP  212 (310)
T ss_dssp             GGGGTTCSCHHHHHHHHHHHHHHHHHHHHTTTCT----THHHHHHHHHHHHHHHGGGCCCHHHHHHHHHHHHHTTCCCHH
T ss_pred             cCCcccccccccchHHHHHHHHHhcccccccCCc----chHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcCCcHHH
Confidence                    23455677778877766431000000    0023467889999887653                       


Q ss_pred             ----------CCccccccCCC-CchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHH
Q 025813          151 ----------DGGFQGRANKP-SDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGY  219 (247)
Q Consensus       151 ----------dGgf~~~~~~~-~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al  219 (247)
                                +|+|-..++.. .++..|-|++-++...+.  ....+++++||.+.|+.+|||...       ..|..++
T Consensus       213 ~l~~l~~~~~~~~~w~~~~~~~~~ve~Ta~aLlal~~~~~--~~~~~~~v~wL~~qq~~~Ggw~sT-------q~T~~aL  283 (310)
T 2wy7_A          213 LLNKFLTTAKDKNRWEDPGKQLYNVEATSYALLALLQLKD--FDFVPPVVRWLNEQRYYGGGYGST-------QATFMVF  283 (310)
T ss_dssp             HHHHHHHHSBTTTBCCCSSCHHHHHHHHHHHHHHHHHHTC--TTTHHHHHHHHHHTTCCCCSTTCH-------HHHHHHH
T ss_pred             HHHHHHHhccCCCCCCCCCCcccchHHHHHHHHHHHhcCC--hhhHHHHHHHHHHccCCCCCeecc-------HHHHHHH
Confidence                      23332222211 145566666666655554  346789999999999999999653       5777888


Q ss_pred             HHHHhcCC
Q 025813          220 TAFSLLEE  227 (247)
Q Consensus       220 ~~L~ll~~  227 (247)
                      -||+....
T Consensus       284 ~AL~~y~~  291 (310)
T 2wy7_A          284 QALAQYQK  291 (310)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88776544

>1hzf_A Complement factor C4A; alpha-alpha 6 barrel, immune system; 2.30A {Homo sapiens} SCOP: a.102.4.4

Probab=99.42  E-value=1.3e-12  Score=117.10  Aligned_cols=183  Identities=13%  Similarity=0.096  Sum_probs=116.2

Q ss_pred             HHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC---CcccHHHHHHHHHhcCCCCCCccCCCC------
Q 025813           30 KSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW---SGMDRERAKAYILNCQSYDGGFGLTPG------  100 (247)
Q Consensus        30 ~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~---~~~~~~~~~~~l~~~Q~~dGGFg~~p~------  100 (247)
                      ++.++||.++|++||||..+.. ..++.+.|.+++..|...+..   +....+++++||++.|++||+|.....      
T Consensus        94 ~~g~~~ll~~Q~~dGgf~~~~~-~~~~~~lTa~v~~~l~~a~~~~~v~~~~i~~a~~~L~~~Q~~dG~~~~~~~~~~~~~  172 (367)
T 1hzf_A           94 QKGYMRIQQFRKADGSYAAWLS-RDSSTWLTAFVLKVLSLAQEQVGGSPEKLQETSNWLLSQQQADGSFQDPCPVLDRSM  172 (367)
T ss_dssp             HHHHHHHHTTBCTTSCBCSSTT-SCCCHHHHHHHHHHHHHHGGGTCCCHHHHHHHHHHHGGGBCTTSCBCCSSCCSCGGG
T ss_pred             HHHHHHHHhccCCCCCeeccCC-CCCcHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhhccCCCcccccccccccc
Confidence            4678899999999999987653 466788888888888777632   233568999999999999999987521      


Q ss_pred             ------CCCChhhHHHHHHHHHHhCCcccc-----ccccCCCCCCCCHHHHHHHHHhc--CC------------------
Q 025813          101 ------SESHGGGTYCAVASLRLMGFIEDN-----VLSKNTSSSIIDLPLLLSWCLQR--QA------------------  149 (247)
Q Consensus       101 ------~~s~~~~T~~al~~L~~lg~~~~~-----~~~~~~~~~~~~~~~~~~~l~~~--Q~------------------  149 (247)
                            .++++..|.+++.+|...+...++     +..+    ....++++++||.++  ++                  
T Consensus       173 ~gg~~~~~~~~~lTA~vl~aL~~~g~~~~~~~~~~~~~~----~~~~i~ra~~yL~~~~~~~~~~~y~~Al~ayAL~l~~  248 (367)
T 1hzf_A          173 QGGLVGNDETVALTAFVTIALHHGLAVFQDEGAEPLKQR----VEASISKASSFLGEKASAGLLGAHAAAITAYALTLTK  248 (367)
T ss_dssp             GGGGSSTTHHHHHHHHHHHHHHHHHTTCCTTTTHHHHHH----HHHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHTT
T ss_pred             cCCCCCCcccccchHHHHHHHHhhhccccccccchhhhh----hHHHHHHHHHHHHHhhhcccCCHHHHHHHHHHHHhcC
Confidence                  123467788888888765531100     0000    012356777888654  21                  


Q ss_pred             ------------------CCCc---ccccc--------------------C-CC-CchhhHHHHHHHHHHhcCCCCCCHH
Q 025813          150 ------------------ADGG---FQGRA--------------------N-KP-SDTCYAFWIGSVLRMLGGYNLIDKE  186 (247)
Q Consensus       150 ------------------~dGg---f~~~~--------------------~-~~-~D~~~~y~a~~~L~lL~~~~~~~~~  186 (247)
                                        .+|+   |....                    + .. .++.-|-|++-++...+. .....+
T Consensus       249 ~~~~~~~~~~~~L~~~a~~~~~~~~W~~~~~s~~~~~~~~~~~~~~~~~~~~~~s~~vE~TAyaLLall~~~~-~~~~~~  327 (367)
T 1hzf_A          249 APADLRGVAHNNLMAMAQETGDNLYWGSVTGSQSNAVSPTPAPRNPSDPMPQAPALWIETTAYALLHLLLHEG-KAEMAD  327 (367)
T ss_dssp             CCHHHHHHHHHHHHTTCEECSSCEECC------------------------CCCHHHHHHHHHHHHHHHHHTC-SSHHHH
T ss_pred             CcHHHHHHHHHHHHHHhhhcCCCCccCCCCCcccccccccccccccccccCCCccchhHHHHHHHHHHHhccC-chhhhH
Confidence                              1333   32110                    0 01 145555555555543332 122367


Q ss_pred             HHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHHhc
Q 025813          187 ALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLL  225 (247)
Q Consensus       187 ~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~ll  225 (247)
                      ++++||.+.|+.+|||+..       ..|..|+-||+..
T Consensus       328 ~iv~WL~~qrn~~Ggw~sT-------qdTvvAL~AL~~y  359 (367)
T 1hzf_A          328 QASAWLTRQGSFQGGFRST-------QDTVIALDALSAY  359 (367)
T ss_dssp             HHHHHHHHHTTSTTCSCSH-------HHHHHHHHHHHHH
T ss_pred             HHHHHHHhCcCCCCCcccH-------HHHHHHHHHHHHH
Confidence            8999999999999999865       4677777777543

>1qqf_A Protein (complement C3DG); alpha-alpha barrel, immune system; 1.45A {Rattus norvegicus} SCOP: a.102.4.4 PDB: 1qsj_A 3d5r_A 2noj_A 2gox_A 3d5s_A 1c3d_A 2xqw_A

Probab=99.35  E-value=6.9e-12  Score=107.93  Aligned_cols=141  Identities=14%  Similarity=0.089  Sum_probs=99.3

Q ss_pred             HHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHh-cCCCCCccccc
Q 025813           79 ERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQ-RQAADGGFQGR  157 (247)
Q Consensus        79 ~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~-~Q~~dGgf~~~  157 (247)
                      ++++++++++|++||||+..++.+++...|.+++.+|..+..... +       ....++++++||.+ .|.+||+|.++
T Consensus        41 ~~g~~~~l~~q~~dGgf~~f~~~~~s~wlTa~v~~~l~~a~~~~~-v-------~~~~i~~a~~~L~~~~Q~~dG~f~~~  112 (277)
T 1qqf_A           41 KKGYTQQLAFKQPISAYAAFNNRPPSTWLTAYVSRVFSLAANLIA-I-------DSQVLCGAVKWLILEKQKPDGVFQED  112 (277)
T ss_dssp             HHHHHHHHTTBCTTSCBCSSTTSCCCHHHHHHHHHHHHHHTTTSC-C-------CHHHHHHHHHHHHHHHBCTTSCBCCS
T ss_pred             HHHHHHHHHhcCCCCCccccCCCCccHHHHHHHHHHHHHHhhcCC-C-------CHHHHHHHHHHHHHhccCCCCCccCC
Confidence            456667999999999999999989999999999999998875320 0       01235789999995 99999999876


Q ss_pred             cCC-------------CCchhhHHHHHHHHHHhcC-----CC--CCCHHHHHHHHHhcCCC-------------------
Q 025813          158 ANK-------------PSDTCYAFWIGSVLRMLGG-----YN--LIDKEALRGFLLTCQSQ-------------------  198 (247)
Q Consensus       158 ~~~-------------~~D~~~~y~a~~~L~lL~~-----~~--~~~~~~~~~~L~~~Q~~-------------------  198 (247)
                      ...             +.++.++.+++.+|...+.     .+  ...++++++||.++|+.                   
T Consensus       113 ~~~~~~~~~g~~~~~~~~~~~lta~vl~aL~~~~~~~~~~~~~~~~~i~~A~~~L~~~~~~~~~~y~~a~~ayAl~l~g~  192 (277)
T 1qqf_A          113 GPVIHQEMIGGFRNTKEADVSLTAFVLIALQEARDICEGQVNSLPGSINKAGEYLEASYLNLQRPYTVAIAGYALALMNK  192 (277)
T ss_dssp             SCCSCGGGGGGGGSCTTHHHHHHHHHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHTTC
T ss_pred             ccccchhhcCCCCCCccCccchHHHHHHHHHhhhhccccCCCchHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHcCC
Confidence            531             2234445556666544421     11  11357899999998764                   


Q ss_pred             --------------CCCcCCCCCCC-ccHHHHHHHHHHHHhcCC
Q 025813          199 --------------YGGFGKCPGDL-PDLYHSFYGYTAFSLLEE  227 (247)
Q Consensus       199 --------------~GGf~~~p~~~-~d~~~T~~al~~L~ll~~  227 (247)
                                    +|++-..|+.. .++..|.|++.+|...+.
T Consensus       193 ~~~~~l~~l~~~~~~~~~w~~~~~~~~~ve~Ta~aLlal~~~~~  236 (277)
T 1qqf_A          193 LEEPYLTKFLNTAKDRNRWEEPGQQLYNVEATSYALLALLLLKD  236 (277)
T ss_dssp             CCTTHHHHHHHHSBTTTBCCCTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhccCCCCCCCCCCccchhHHHHHHHHHHHhcCC
Confidence                          34444444432 267899999999988765

>2wy7_A Complement C3D fragment; immune system, immune response, innate immunity, complement inflammatory response; 1.70A {Homo sapiens} PDB: 2wy8_A 3oed_A 3oxu_A 3rj3_A 1ghq_A* 1w2s_A

Probab=99.32  E-value=1.3e-11  Score=107.90  Aligned_cols=142  Identities=16%  Similarity=0.081  Sum_probs=99.3

Q ss_pred             HHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHh-cCCCCCcccc
Q 025813           78 RERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQ-RQAADGGFQG  156 (247)
Q Consensus        78 ~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~-~Q~~dGgf~~  156 (247)
                      +++++++++++|++||||+..++.+++...|.+++.+|..+..... +       ....++++++||.+ .|.+||+|.+
T Consensus        56 i~~g~~~~l~~q~~dGgf~~f~~~~~s~wlTa~v~~~l~~a~~~~~-v-------~~~~i~~a~~~L~~~~Q~~dGsf~~  127 (310)
T 2wy7_A           56 IKKGYTQQLAFRQPSSAFAAFVKRAPSTWLTAYVVKVFSLAVNLIA-I-------DSQVLCGAVKWLILEKQKPDGVFQE  127 (310)
T ss_dssp             HHHHHHHHHTTBCTTSCBCSSTTSCCCHHHHHHHHHHHHHHTTTSC-C-------CHHHHHHHHHHHHHHHBCTTSCBCC
T ss_pred             HHHHHHHHHHhcCCCCCcccCCCCCccHHHHHHHHHHHHHHHhcCC-C-------CHHHHHHHHHHHHHhhcCCCCcccc
Confidence            3566777999999999999999888999999999999998875320 0       01135789999996 9999999987


Q ss_pred             ccCC-------------CCchhhHHHHHHHHHHhcC-----CC--CCCHHHHHHHHHhcCCC------------------
Q 025813          157 RANK-------------PSDTCYAFWIGSVLRMLGG-----YN--LIDKEALRGFLLTCQSQ------------------  198 (247)
Q Consensus       157 ~~~~-------------~~D~~~~y~a~~~L~lL~~-----~~--~~~~~~~~~~L~~~Q~~------------------  198 (247)
                      +...             +.++.++.+++.+|...+.     .+  ...++++++||.++|+.                  
T Consensus       128 ~~~~~~~~~~g~~~~~~~~~~~~ta~vl~aL~~~~~~~~~~~~~~~~~i~~A~~~L~~~~~~~~~~y~~a~~ayAL~l~g  207 (310)
T 2wy7_A          128 DAPVIHQEMIGGLRNNNEKDMALTAFVLISLQEAKDICEEQVNSLPGSITKAGDFLEANYMNLQRSYTVAIAGYALAQMG  207 (310)
T ss_dssp             SSCCSCGGGGGGGTTCSCHHHHHHHHHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHHHHGGGCCCHHHHHHHHHHHHHTT
T ss_pred             CCCccCHhhcCCcccccccccchHHHHHHHHHhcccccccCCcchHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC
Confidence            6531             2234445556655544421     11  11357899999998763                  


Q ss_pred             ---------------CCCcCCCCCCC-ccHHHHHHHHHHHHhcCC
Q 025813          199 ---------------YGGFGKCPGDL-PDLYHSFYGYTAFSLLEE  227 (247)
Q Consensus       199 ---------------~GGf~~~p~~~-~d~~~T~~al~~L~ll~~  227 (247)
                                     +|++-..|+.. .++..|+|++.+|...+.
T Consensus       208 ~~~~~~l~~l~~~~~~~~~w~~~~~~~~~ve~Ta~aLlal~~~~~  252 (310)
T 2wy7_A          208 RLKGPLLNKFLTTAKDKNRWEDPGKQLYNVEATSYALLALLQLKD  252 (310)
T ss_dssp             CCCHHHHHHHHHHSBTTTBCCCSSCHHHHHHHHHHHHHHHHHHTC
T ss_pred             CcHHHHHHHHHHhccCCCCCCCCCCcccchHHHHHHHHHHHhcCC
Confidence                           33443344332 267899999999988765

>2hr0_B Complement C3 alpha' chain; complement component C3B, immune system; HET: THC; 2.26A {Homo sapiens} PDB: 2icf_B* 2wii_B* 2win_B* 3g6j_B 3l5n_B* 2a73_B* 2i07_B* 2xwj_B* 2xwb_B* 2a74_C* 2ice_C* 2qki_C* 3l3o_F* 3nms_C* 3nsa_C* 3ohx_C* 3t4a_C 2ice_B* 3l3o_B* 3nms_B* ...

Probab=99.09  E-value=6.1e-10  Score=110.44  Aligned_cols=180  Identities=14%  Similarity=0.048  Sum_probs=115.0

Q ss_pred             HHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC---CcccHHHHHHHHHh-cCCCCCCccCCCC------
Q 025813           31 SILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW---SGMDRERAKAYILN-CQSYDGGFGLTPG------  100 (247)
Q Consensus        31 ~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~---~~~~~~~~~~~l~~-~Q~~dGGFg~~p~------  100 (247)
                      +.++++.++|++||||..+.. +.++.+.|-+++..|......   +....+++++||.+ .|.+||.|.....      
T Consensus       303 ~g~~rll~~Q~~DGsfs~w~~-~~~s~wlTAyv~~~l~~a~~~~~v~~~~i~~al~~L~~~~Q~~dG~f~~~~~~~~~~m  381 (915)
T 2hr0_B          303 KGYTQQLAFRQPSSAFAAFVK-RAPSTWLTAYVVKVFSLAVNLIAIDSQVLCGAVKWLILEKQKPDGVFQEDAPVIHQEM  381 (915)
T ss_dssp             HHHHHHGGGCCTTTCCBSSSS-SCBCHHHHHHHHHHHHTTTTTSCCCHHHHHHHHHHHHHHHBCTTSCBCCCSCCSSSCC
T ss_pred             HHHHHHHHhhcCCCCccccCC-CCCcceehHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHhhccCCCccccCccccchhh
Confidence            456668889999999997663 577888888888877777533   22346789999995 9999999965321      


Q ss_pred             --C-----CCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCC-----------------------
Q 025813          101 --S-----ESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAA-----------------------  150 (247)
Q Consensus       101 --~-----~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~-----------------------  150 (247)
                        .     ++++..|.+++.+|...|....+-..    .....+.++++||.+.+..                       
T Consensus       382 ~gg~~~~~~~~~~ltAyvl~aL~~~g~~~~~~~~----~~~~~i~~A~~yL~~~~~~~~~~y~~a~layAL~l~g~~a~~  457 (915)
T 2hr0_B          382 IGGLRNNNEKDMALTAFVLISLQEAKDICEEQVN----SLPGSITKAGDFLEANYMNLQRSYTVAIAGYALAQMGRLKGP  457 (915)
T ss_dssp             CCSCCCCTTHHHHHHHHHHHHHHHHTTTSTTTCT----THHHHHHHHHHHHHHHGGGCCSHHHHHHHHHHHHTTTCCCHH
T ss_pred             cCCccCccccccccHHHHHHHHHhcccccccCcc----cchHHHHHHHHHHHHhhhccCCHHHHHHHHHHHHHcCChHHH
Confidence              0     23466677888888877653100000    0011345677777765432                       


Q ss_pred             ----------CCc-cccccCC-CCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHH
Q 025813          151 ----------DGG-FQGRANK-PSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYG  218 (247)
Q Consensus       151 ----------dGg-f~~~~~~-~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~a  218 (247)
                                +|. |.. ++. ..++.-+-|++-+|...+..  ....++++||.+.|+.+|||...       ..|..|
T Consensus       458 ~l~~L~~~~~~~~~w~~-~~~~~~~ve~TayaLlall~~~~~--~~~~~~v~wL~~qq~~~Ggw~ST-------QdT~~A  527 (915)
T 2hr0_B          458 LLNKFLTTAKDKNRWED-PGKQLYNVEATSYALLALLQLKDF--DFVPPVVRWLNEQRYYGGGYGST-------QATFMV  527 (915)
T ss_dssp             HHHHHHHTSBTTTBCCC-SSCHHHHHHHHHHHHHHHHHTTCT--TTHHHHHHHHHTCCCSSSSCCSH-------HHHHHH
T ss_pred             HHHHHHhhccCCCCCCC-CCCCccchHHHHHHHHHHHhcCCh--hhHHHHHHHHHhcccCCCCccch-------hhHHHH
Confidence                      222 221 111 12455556666666555543  34688999999999999999754       357777


Q ss_pred             HHHHHhc
Q 025813          219 YTAFSLL  225 (247)
Q Consensus       219 l~~L~ll  225 (247)
                      +-||+..
T Consensus       528 l~AL~~y  534 (915)
T 2hr0_B          528 FQALAQY  534 (915)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7777654

>1hzf_A Complement factor C4A; alpha-alpha 6 barrel, immune system; 2.30A {Homo sapiens} SCOP: a.102.4.4

Probab=99.02  E-value=3.6e-09  Score=94.55  Aligned_cols=110  Identities=18%  Similarity=0.097  Sum_probs=78.8

Q ss_pred             HHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccc
Q 025813           78 RERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGR  157 (247)
Q Consensus        78 ~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~  157 (247)
                      ++++++||+++|++||||+..++..++...|.+++..|..++... .+       ....++++++||.++|.+||+|.++
T Consensus        93 i~~g~~~ll~~Q~~dGgf~~~~~~~~~~~lTa~v~~~l~~a~~~~-~v-------~~~~i~~a~~~L~~~Q~~dG~~~~~  164 (367)
T 1hzf_A           93 IQKGYMRIQQFRKADGSYAAWLSRDSSTWLTAFVLKVLSLAQEQV-GG-------SPEKLQETSNWLLSQQQADGSFQDP  164 (367)
T ss_dssp             HHHHHHHHHTTBCTTSCBCSSTTSCCCHHHHHHHHHHHHHHGGGT-CC-------CHHHHHHHHHHHGGGBCTTSCBCCS
T ss_pred             HHHHHHHHHhccCCCCCeeccCCCCCcHHHHHHHHHHHHHHHHHh-CC-------CHHHHHHHHHHHHHhhccCCCcccc
Confidence            467899999999999999999887788898999999998886531 00       0124678999999999999999875


Q ss_pred             cCC------------CCchhhHHHHHHHHHHhcCC-CC-----------CCHHHHHHHHHhc
Q 025813          158 ANK------------PSDTCYAFWIGSVLRMLGGY-NL-----------IDKEALRGFLLTC  195 (247)
Q Consensus       158 ~~~------------~~D~~~~y~a~~~L~lL~~~-~~-----------~~~~~~~~~L~~~  195 (247)
                      ...            +.++.-|.|++.+|...+.. +.           ..++++++||.++
T Consensus       165 ~~~~~~~~~gg~~~~~~~~~lTA~vl~aL~~~g~~~~~~~~~~~~~~~~~~i~ra~~yL~~~  226 (367)
T 1hzf_A          165 CPVLDRSMQGGLVGNDETVALTAFVTIALHHGLAVFQDEGAEPLKQRVEASISKASSFLGEK  226 (367)
T ss_dssp             SCCSCGGGGGGGSSTTHHHHHHHHHHHHHHHHHTTCCTTTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccCCCCCCcccccchHHHHHHHHhhhccccccccchhhhhhHHHHHHHHHHHHHh
Confidence            332            23355556676666544421 00           1256788998665

>2pn5_A TEP1R, thioester-containing protein I; FULL-length mature peptide, immune system; HET: NAG; 2.70A {Anopheles gambiae}

Probab=98.98  E-value=2.7e-09  Score=109.48  Aligned_cols=178  Identities=12%  Similarity=0.110  Sum_probs=111.1

Q ss_pred             HHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC----CcccHHHHHHHHHhcCCCCCCccCCCC------
Q 025813           31 SILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW----SGMDRERAKAYILNCQSYDGGFGLTPG------  100 (247)
Q Consensus        31 ~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~----~~~~~~~~~~~l~~~Q~~dGGFg~~p~------  100 (247)
                      +.++++.++|++||||..++. +.++.+.|.+++..|..+...    +....+++++||.+.|++||.|.....      
T Consensus       876 ~g~~rll~~q~~dGgf~~f~~-~~~s~~lTa~v~~~l~~a~~~~~~v~~~~l~~a~~~L~~~q~~dG~f~~~~~~~~~~~  954 (1325)
T 2pn5_A          876 QGYQNQMRYRQTDGSFGLWET-TNGSVFLTAFVGTSMQTAVKYISDIDAAMVEKALDWLASKQHFSGRFDKAGAEYHKEM  954 (1325)
T ss_dssp             HHHHHHGGGBCTTSCBCSSSS-SCCCHHHHHHHHHHHHHHTTTCSCSCHHHHHHHHHHHHHTCCTTSCCCCCSCCSCHHH
T ss_pred             HHHHHHHhcCCCCCCeeccCC-CCCCeeehHHHHHHHHHHHhhEEcCCHHHHHHHHHHHHhhhccCCCccccccccChhh
Confidence            345566889999999998764 678899999999888887533    223357999999999999999865421      


Q ss_pred             ---CCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCC-CCccc-----------cc--------
Q 025813          101 ---SESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAA-DGGFQ-----------GR--------  157 (247)
Q Consensus       101 ---~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~-dGgf~-----------~~--------  157 (247)
                         -......|.+++.+|.-.|....+.        ...++++++||.++|.. +++|.           +.        
T Consensus       955 ~g~~~~~~~~tayvl~aL~~~g~~~~~~--------~~~i~~a~~~L~~~~~~~~~~~~~a~~ayaL~l~g~~~~~~~l~ 1026 (1325)
T 2pn5_A          955 QGGLRNGVALTSYVLMALLENDIAKAKH--------AEVIQKGMTYLSNQFGSINNAYDLSIATYAMMLNGHTMKEEALN 1026 (1325)
T ss_dssp             HCCSSTTHHHHHHHHHHHHTCHHHHHHT--------HHHHHHHHHHHHHHGGGCCCHHHHHHHHHHHHHHTCTTHHHHHH
T ss_pred             cCcccCCccccHHHHHHHhhCccccccc--------HHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHhcCCchHHHHHH
Confidence               0123445555555554333221000        12356677888776654 55552           11        


Q ss_pred             ----------------cCCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHH
Q 025813          158 ----------------ANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTA  221 (247)
Q Consensus       158 ----------------~~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~  221 (247)
                                      +...++++-+=|++-+|...+  ......++++||.+.|+.+|||...       ..|.+++-|
T Consensus      1027 ~L~~~~~~~~~~~~~~w~~~s~ve~tA~aLlall~~~--~~~~~~~~v~wL~~q~~~~g~w~sT-------q~T~~aL~A 1097 (1325)
T 2pn5_A         1027 KLIDMSFIDADKNERFWNTTNPIETTAYALLSFVMAE--KYTDGIPVMNWLVNQRYVTGSFPST-------QDTFVGLKA 1097 (1325)
T ss_dssp             HHHHTCEEETTTTEEECCSSSHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTCCTTSSCSSH-------HHHHHHHHH
T ss_pred             HHHhhhhhccCCCcccCCCCCchHHHHHHHHHHhhhc--cchhhHHHHHHHHhccCCCCCccch-------HHHHHHHHH
Confidence                            001224444444443333333  2223467899999999999999754       467787777


Q ss_pred             HHhcC
Q 025813          222 FSLLE  226 (247)
Q Consensus       222 L~ll~  226 (247)
                      |+...
T Consensus      1098 L~~y~ 1102 (1325)
T 2pn5_A         1098 LTKMA 1102 (1325)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76543

>1r76_A Pectate lyase; A-helical structure; 2.65A {Azospirillum irakense} SCOP: a.102.5.1

Probab=98.97  E-value=2.8e-09  Score=95.44  Aligned_cols=174  Identities=10%  Similarity=-0.026  Sum_probs=101.1

Q ss_pred             HHHHHHHHHhcccCCCCccccCC-------------------------------------CCCcchHHHHHHHHHHHHhc
Q 025813           29 SKSILTSMRNLQQHDGSFMPIHF-------------------------------------GAEKDLRFVYCAAAICFLLE   71 (247)
Q Consensus        29 ~~~~i~~l~~~q~~dGgf~~~~~-------------------------------------~~~~d~~~ty~al~~l~ll~   71 (247)
                      .+++.+.|...|+++|||.....                                     .+..|...|...+..|.-+.
T Consensus        83 A~~iAd~ll~~Q~~~GGW~kn~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~T~DnddTa~vl~aL~rv~  162 (408)
T 1r76_A           83 ARHVADVIVSFQTPAGGWGKNQPRDGALRLPGQHYTGENVAKVKSGSNDLDAARDRDWHYVGTIDNDATVTEIRFLAQVV  162 (408)
T ss_dssp             HHHHHHHHHHHCCTTSCCCSSCCSSSCCCCTTCCSSCCCCCCCC---------CCCCCSSSSBCGGGTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccccCCCCCCccccccccchhhhhcccccccccccccccchhhcccccCCCCCCCCchHHHHHHHHHHHH
Confidence            45789999999999999954110                                     01235556766666665543


Q ss_pred             CC-----C---cccHHHHHHHHHhcCCCCCCccCCCCCC---------CChhhHHHHHHHHHHhCC--ccccccccCCC-
Q 025813           72 DW-----S---GMDRERAKAYILNCQSYDGGFGLTPGSE---------SHGGGTYCAVASLRLMGF--IEDNVLSKNTS-  131 (247)
Q Consensus        72 ~~-----~---~~~~~~~~~~l~~~Q~~dGGFg~~p~~~---------s~~~~T~~al~~L~~lg~--~~~~~~~~~~~-  131 (247)
                      ..     +   ....+|+++||+++|++||||+..--..         +| ..|..+|..|..++.  .+.+.+.+..+ 
T Consensus       163 ~~~t~~~~~~y~~Ai~Rgl~wlL~mQ~~nGGWpqFdpdn~~y~~~IpFnD-Dvt~rvle~L~~~~~~~~~~~~~~~~~~~  241 (408)
T 1r76_A          163 SQLAPEEAAPYRDAALKGIEYLLASQFPNGGWPQVWPLEGGYHDAITYND-DALVHVAELLSDIAAGRDGFGFVPPAIRT  241 (408)
T ss_dssp             HHSCGGGCHHHHHHHHHHHHHHHHHSCTTSCCBSBSSCCCGGGGSEECGG-GHHHHHHHHHHHHHHTCTTCTTSCHHHHH
T ss_pred             hhccccccHHHHHHHHHHHHHHHHccCCCCCCcCcCccccccccCCCcCc-HHHHHHHHHHHHHHhccCcccccchhhhh
Confidence            21     1   1235799999999999999998863211         11 235556666665544  11111100000 


Q ss_pred             CCCCCHHHHHHHHHhcCCC-CCccccccCCCC----------------chhhHHHHHHHHHHhcCCCCC-----CHHHHH
Q 025813          132 SSIIDLPLLLSWCLQRQAA-DGGFQGRANKPS----------------DTCYAFWIGSVLRMLGGYNLI-----DKEALR  189 (247)
Q Consensus       132 ~~~~~~~~~~~~l~~~Q~~-dGgf~~~~~~~~----------------D~~~~y~a~~~L~lL~~~~~~-----~~~~~~  189 (247)
                      .....++++++||+..|.+ ||.|. +++..-                -.+..-.+...+.+++.....     .+++++
T Consensus       242 ~~~~av~Rgi~~Ll~~Qe~~dGsw~-rWg~qY~ygT~~Pa~aRsYE~psLs~~esa~il~~LM~~~~~~~~~~~aI~~Av  320 (408)
T 1r76_A          242 RALEATNAAIHCIVETQVVQDGKRL-GWGQQHDALTLRPTSARNFEPAALSSTESARILLFLMEIEAPSDAVKQAIRGGV  320 (408)
T ss_dssp             HHHHHHHHHHHHHHHHSCEETTEEC-CCCSEECTTTCSBCCCSTTCCSCEEHHHHHHHHHHHTTSSSCCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhcccCCccc-chhcccccccCcchhhhccCCccccHHHHHHHHHHHccCCCCCHHHHHHHHHHH
Confidence            0023578899999999999 99998 665310                111111222334445543221     268999


Q ss_pred             HHHHhcCCCCCCcCC
Q 025813          190 GFLLTCQSQYGGFGK  204 (247)
Q Consensus       190 ~~L~~~Q~~~GGf~~  204 (247)
                      +||.++|+.+|+|-.
T Consensus       321 ~WL~s~Q~~dg~w~~  335 (408)
T 1r76_A          321 AWLNTSVIRDRAWVK  335 (408)
T ss_dssp             HHHHHSCCCC-----
T ss_pred             HHHHHhhcCCCceee
Confidence            999999999999873

>4acq_A Alpha-2-macroglobulin; hydrolase inhibitor, proteinase inhibitor, irreversible PROT inhibitor, conformational change, blood plasma inhibitor; HET: MEQ NAG MAN; 4.30A {Homo sapiens}

Probab=98.95  E-value=3.7e-09  Score=109.07  Aligned_cols=118  Identities=11%  Similarity=0.040  Sum_probs=81.9

Q ss_pred             CCcHHHHHHHHHHHHHhCC--CCCCCCH-------HHHHHHHHhcccCCCCccccCC-C--CCcchHHHHHHHHHHHHhc
Q 025813            4 GSNLASTYCALAILKAVGY--NFANIDS-------KSILTSMRNLQQHDGSFMPIHF-G--AEKDLRFVYCAAAICFLLE   71 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~--~~~~~~~-------~~~i~~l~~~q~~dGgf~~~~~-~--~~~d~~~ty~al~~l~ll~   71 (247)
                      +++|+..+-.+.++..|..  .+..-.+       ++.++++.++|++||||..+.. .  +.++.+.|-+++..|....
T Consensus       951 EQ~ms~~~P~l~~~~yL~~t~q~~~~~~~~a~~~i~~g~~~ll~~q~~dGgf~~f~~~~~~~~~s~wlTAyv~~~l~~a~ 1030 (1451)
T 4acq_A          951 EXNMVLFAPNIYVLDYLNETQQLTPEIKSKAIGYLNTGYQRQLNYKHYDGSYSTFGERYGRNQGNTWLTAFVLKTFAQAR 1030 (1451)
T ss_dssp             TTTHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHGGGBCTTSCBCSSTTGGGCCCCCHHHHHHHHHHHHHHT
T ss_pred             hhhhhhhhhHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHhhcCCCCCeeeccCCCCCCCCchhHHHHHHHHHHHhh
Confidence            3556666666666655542  1211111       3567899999999999987642 1  4578888888888887765


Q ss_pred             CC---CcccHHHHHHHHHhcCCCCCCccCCC---------CCCCChhhHHHHHHHHHHhCCc
Q 025813           72 DW---SGMDRERAKAYILNCQSYDGGFGLTP---------GSESHGGGTYCAVASLRLMGFI  121 (247)
Q Consensus        72 ~~---~~~~~~~~~~~l~~~Q~~dGGFg~~p---------~~~s~~~~T~~al~~L~~lg~~  121 (247)
                      ..   +....+++++||++.|++||+|...-         +.++++..|.+++.+|...|..
T Consensus      1031 ~~~~v~~~~l~~a~~wL~~~Q~~dG~f~~~g~~~~~~m~gg~~~~~~lTAyvl~aL~~~g~~ 1092 (1451)
T 4acq_A         1031 AYIFIDEAHITQALIWLSQRQKDNGCFRSSGSLLNNAIKGGVEDEVTLSAYITIALLEIPLT 1092 (1451)
T ss_dssp             TTSCCCTHHHHHHHHHHHHTEETTTEECCCCCCSCGGGCCSCSCHHHHHHHHHHHHHHTTCC
T ss_pred             hhcccCHHHHHHHHHHHHhhcccCCcccccCcccchhhcCCCCCCccchHHHHHHHHHcCCC
Confidence            32   33456899999999999999997421         1235677899999999988864

>2pn5_A TEP1R, thioester-containing protein I; FULL-length mature peptide, immune system; HET: NAG; 2.70A {Anopheles gambiae}

Probab=98.79  E-value=3.5e-08  Score=101.29  Aligned_cols=117  Identities=13%  Similarity=0.057  Sum_probs=78.3

Q ss_pred             HHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCcccccc
Q 025813           79 ERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRA  158 (247)
Q Consensus        79 ~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~  158 (247)
                      ++++++++++|++||||+..++.+++.+.|.+++..|..+.....++       ....++++++||.+.|.+||+|.+++
T Consensus       875 ~~g~~rll~~q~~dGgf~~f~~~~~s~~lTa~v~~~l~~a~~~~~~v-------~~~~l~~a~~~L~~~q~~dG~f~~~~  947 (1325)
T 2pn5_A          875 RQGYQNQMRYRQTDGSFGLWETTNGSVFLTAFVGTSMQTAVKYISDI-------DAAMVEKALDWLASKQHFSGRFDKAG  947 (1325)
T ss_dssp             HHHHHHHGGGBCTTSCBCSSSSSCCCHHHHHHHHHHHHHHTTTCSCS-------CHHHHHHHHHHHHHTCCTTSCCCCCS
T ss_pred             HHHHHHHHhcCCCCCCeeccCCCCCCeeehHHHHHHHHHHHhhEEcC-------CHHHHHHHHHHHHhhhccCCCccccc
Confidence            45566779999999999999999999999999999999875432100       01136789999999999999998754


Q ss_pred             C-------CCCchhhHHHHHHHHHHhcCCC-----CCCHHHHHHHHHhcCCC-CCCc
Q 025813          159 N-------KPSDTCYAFWIGSVLRMLGGYN-----LIDKEALRGFLLTCQSQ-YGGF  202 (247)
Q Consensus       159 ~-------~~~D~~~~y~a~~~L~lL~~~~-----~~~~~~~~~~L~~~Q~~-~GGf  202 (247)
                      .       +..+.+.+|.+....++++...     ...++++++||.++|+. ++++
T Consensus       948 ~~~~~~~~g~~~~~~~~tayvl~aL~~~g~~~~~~~~~i~~a~~~L~~~~~~~~~~~ 1004 (1325)
T 2pn5_A          948 AEYHKEMQGGLRNGVALTSYVLMALLENDIAKAKHAEVIQKGMTYLSNQFGSINNAY 1004 (1325)
T ss_dssp             CCSCHHHHCCSSTTHHHHHHHHHHHHTCHHHHHHTHHHHHHHHHHHHHHGGGCCCHH
T ss_pred             cccChhhcCcccCCccccHHHHHHHhhCcccccccHHHHHHHHHHHHHhhcccCCHH
Confidence            2       1223334443332233333211     12356788899887754 4443

>1gxm_A Pectate lyase; mechanism, elimination; 1.32A {Cellvibrio cellulosa} SCOP: a.102.5.1 PDB: 1gxn_A 1gxo_A*

Probab=98.67  E-value=2.8e-08  Score=86.65  Aligned_cols=165  Identities=10%  Similarity=0.004  Sum_probs=100.2

Q ss_pred             HHHHHHhcccCCCCccccCC------------CCCcchHHHHHHHHHHHHhcCC--C---cccHHHHHHHHHhcCCCCCC
Q 025813           32 ILTSMRNLQQHDGSFMPIHF------------GAEKDLRFVYCAAAICFLLEDW--S---GMDRERAKAYILNCQSYDGG   94 (247)
Q Consensus        32 ~i~~l~~~q~~dGgf~~~~~------------~~~~d~~~ty~al~~l~ll~~~--~---~~~~~~~~~~l~~~Q~~dGG   94 (247)
                      +.+-|..-|+++|||...-.            ....|-..|...+..|.-+...  +   ....+|+++||+++|++|||
T Consensus        36 ~Ad~~l~~Q~~~GGW~kn~d~~~~~~~~~~~~~~t~DnddTa~vl~~Larv~~~~~~~~y~~Ai~Rgl~wlL~mQ~~nGG  115 (332)
T 1gxm_A           36 RADVVLSYQQNNGGWPKNLDYNSVGNGGGGNESGTIDNGATITEMVFLAEVYKSGGNTKYRDAVRKAANFLVNSQYSTGA  115 (332)
T ss_dssp             GHHHHHHTCCTTSCCCSCCCTTTCCCCCCCCSCEECGGGTTHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCTTSC
T ss_pred             HHHHHHHcCcCCCCCCcceecccccccCCCCCCCCccCccHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhccCCCCC
Confidence            46777778999999965211            1235777787777777555321  1   23457999999999999999


Q ss_pred             ccCC-CCC--------CCChhhHHHHHHHHHHhCCccccc----c-ccCCCCCCCCHHHHHHHHHhcCCCCCccccccCC
Q 025813           95 FGLT-PGS--------ESHGGGTYCAVASLRLMGFIEDNV----L-SKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANK  160 (247)
Q Consensus        95 Fg~~-p~~--------~s~~~~T~~al~~L~~lg~~~~~~----~-~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~  160 (247)
                      |+.. |..        -+| ..|..+|..|..++......    . .+........++++++||++.|.++|||.++++.
T Consensus       116 WpqFdpd~~~Yl~~IpFnD-DvtarvLelL~~~~~~~~~~~~~~~~~~~~~~~~~av~Rgid~Llk~Qe~dggw~g~Wg~  194 (332)
T 1gxm_A          116 LPQFYPLKGGYSDHATFND-NGMAYALTVLDFAANKRAPFDTDVFSDNDRTRFKTAVTKGTDYILKAQWKQNGVLTVWCA  194 (332)
T ss_dssp             CBSEESCCSGGGGSEECGG-GHHHHHHHHHHHHHTTCTTSCSTTSCHHHHHHHHHHHHHHHHHHHHHSCEETTEECCCCS
T ss_pred             ccccCCCcccccccCCcch-HHHHHHHHHHHHHHhccCCccccccccchhhhhHHHHHHHHHHHHHhhCccCCCcCeecc
Confidence            9986 221        112 34666777777764311000    0 0000000235789999999999999999988874


Q ss_pred             CCc--hhh----------HHHHH---H-HHHHhcCCCCC----CHHHHHHHHHhcCC
Q 025813          161 PSD--TCY----------AFWIG---S-VLRMLGGYNLI----DKEALRGFLLTCQS  197 (247)
Q Consensus       161 ~~D--~~~----------~y~a~---~-~L~lL~~~~~~----~~~~~~~~L~~~Q~  197 (247)
                      .-|  +..          +.+++   . +..+++.....    .++++++||.++|+
T Consensus       195 qydygT~~Pa~ARayE~psL~~~es~giv~~LM~~~~~~~v~~aI~~Av~WL~~~q~  251 (332)
T 1gxm_A          195 QHGALDYQPKKARAYELESLSGSESVGVLAFLMTQPQTAEIEQAVRAGVAWFNSPRT  251 (332)
T ss_dssp             EECTTTCCBCCCSTTCCSSEETTTHHHHHHHHTTSCCCHHHHHHHHHHHHHHTCTTT
T ss_pred             ccccccccccccccccccchhHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhccc
Confidence            311  111          22222   2 22234432200    26889999999998

>2hr0_B Complement C3 alpha' chain; complement component C3B, immune system; HET: THC; 2.26A {Homo sapiens} PDB: 2icf_B* 2wii_B* 2win_B* 3g6j_B 3l5n_B* 2a73_B* 2i07_B* 2xwj_B* 2xwb_B* 2a74_C* 2ice_C* 2qki_C* 3l3o_F* 3nms_C* 3nsa_C* 3ohx_C* 3t4a_C 2ice_B* 3l3o_B* 3nms_B* ...

Probab=98.61  E-value=1.6e-07  Score=93.04  Aligned_cols=142  Identities=15%  Similarity=0.094  Sum_probs=94.6

Q ss_pred             HHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHh-cCCCCCccccc
Q 025813           79 ERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQ-RQAADGGFQGR  157 (247)
Q Consensus        79 ~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~-~Q~~dGgf~~~  157 (247)
                      ++++++++++|++||||+..++.+++.+.|.+++..|..+..... +       ....+.++++||.+ .|.+||+|...
T Consensus       302 ~~g~~rll~~Q~~DGsfs~w~~~~~s~wlTAyv~~~l~~a~~~~~-v-------~~~~i~~al~~L~~~~Q~~dG~f~~~  373 (915)
T 2hr0_B          302 KKGYTQQLAFRQPSSAFAAFVKRAPSTWLTAYVVKVFSLAVNLIA-I-------DSQVLCGAVKWLILEKQKPDGVFQED  373 (915)
T ss_dssp             HHHHHHHGGGCCTTTCCBSSSSSCBCHHHHHHHHHHHHTTTTTSC-C-------CHHHHHHHHHHHHHHHBCTTSCBCCC
T ss_pred             HHHHHHHHHhhcCCCCccccCCCCCcceehHHHHHHHHHhhhcCC-C-------CHHHHHHHHHHHHHhhccCCCccccC
Confidence            456778999999999999999888899999999998887754310 0       01236789999995 99999999754


Q ss_pred             cCC-------------CCchhhHHHHHHHHHHhcCC---CC--C--CHHHHHHHHHhcCCC-------------------
Q 025813          158 ANK-------------PSDTCYAFWIGSVLRMLGGY---NL--I--DKEALRGFLLTCQSQ-------------------  198 (247)
Q Consensus       158 ~~~-------------~~D~~~~y~a~~~L~lL~~~---~~--~--~~~~~~~~L~~~Q~~-------------------  198 (247)
                      ..-             +.+...+.+++.+|...+..   ..  .  .++++++||.+.+..                   
T Consensus       374 ~~~~~~~m~gg~~~~~~~~~~ltAyvl~aL~~~g~~~~~~~~~~~~~i~~A~~yL~~~~~~~~~~y~~a~layAL~l~g~  453 (915)
T 2hr0_B          374 APVIHQEMIGGLRNNNEKDMALTAFVLISLQEAKDICEEQVNSLPGSITKAGDFLEANYMNLQRSYTVAIAGYALAQMGR  453 (915)
T ss_dssp             SCCSSSCCCCSCCCCTTHHHHHHHHHHHHHHHHTTTSTTTCTTHHHHHHHHHHHHHHHGGGCCSHHHHHHHHHHHHTTTC
T ss_pred             ccccchhhcCCccCccccccccHHHHHHHHHhcccccccCcccchHHHHHHHHHHHHhhhccCCHHHHHHHHHHHHHcCC
Confidence            321             12444455566666655432   11  1  245788898876533                   


Q ss_pred             --------------CCC-cCCCCCCCccHHHHHHHHHHHHhcCCC
Q 025813          199 --------------YGG-FGKCPGDLPDLYHSFYGYTAFSLLEEP  228 (247)
Q Consensus       199 --------------~GG-f~~~p~~~~d~~~T~~al~~L~ll~~~  228 (247)
                                    +|. |........++..|.|++.+|...+..
T Consensus       454 ~a~~~l~~L~~~~~~~~~w~~~~~~~~~ve~TayaLlall~~~~~  498 (915)
T 2hr0_B          454 LKGPLLNKFLTTAKDKNRWEDPGKQLYNVEATSYALLALLQLKDF  498 (915)
T ss_dssp             CCHHHHHHHHHTSBTTTBCCCSSCHHHHHHHHHHHHHHHHHTTCT
T ss_pred             hHHHHHHHHHhhccCCCCCCCCCCCccchHHHHHHHHHHHhcCCh
Confidence                          122 222111123678899999999887653

>4fxk_B Complement C4-A alpha chain; immune system, proteolytic cascade; HET: NAG BMA; 3.60A {Homo sapiens} PDB: 4fxg_B*

Probab=98.52  E-value=3.9e-06  Score=81.65  Aligned_cols=111  Identities=15%  Similarity=0.147  Sum_probs=72.4

Q ss_pred             HHHHHHHHHHHHHhCCC--CCCCCHHHHHHH-------HHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCC---
Q 025813            7 LASTYCALAILKAVGYN--FANIDSKSILTS-------MRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWS---   74 (247)
Q Consensus         7 l~~Ty~a~~~L~~lg~~--~~~~~~~~~i~~-------l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~---   74 (247)
                      +..+.++...|...++.  +..-.++++.++       +.+.|++||||..++ ++.++++.|-+++..+.......   
T Consensus       339 ~~p~i~v~~yl~~t~q~~~l~~~~~~~a~~~l~~gyqrll~~q~~DGsfs~w~-~~~~s~wLTAyV~~~l~~A~~~i~id  417 (767)
T 4fxk_B          339 LAPTLAASRYLDKTEQWSTLPPETKDHAVDLIQKGYMRIQQFRKADGSYAAWL-SRDSSTWLTAFVLKVLSLAQEQVGGS  417 (767)
T ss_dssp             THHHHHHHHHHHHTCTTTTSCSSHHHHHHHHHHHHHHHHTTTBCTTSCBBSSS-SSCBCHHHHHHHHHHHHHTCSSSSCC
T ss_pred             hhhhhhHHHHHHhhhhhcccCHHHHHHHHHHHHHHHHHHHHhhcCCCCcccCC-CCCCCchhHHHHHHHHHHHHhhcCcc
Confidence            34444555555555531  221123455444       455799999999765 36678999988988888876542   


Q ss_pred             cccHHHHHHHHHhcCCCCCCccCCC------------CCCCChhhHHHHHHHHHHh
Q 025813           75 GMDRERAKAYILNCQSYDGGFGLTP------------GSESHGGGTYCAVASLRLM  118 (247)
Q Consensus        75 ~~~~~~~~~~l~~~Q~~dGGFg~~p------------~~~s~~~~T~~al~~L~~l  118 (247)
                      .....+++.||++.|.+||.|-..-            +.++++..|++++.+|...
T Consensus       418 ~~~i~~a~~wL~~~Q~~~G~f~e~g~~~~~~~~gg~~~~~~~~~ltAyvliaL~e~  473 (767)
T 4fxk_B          418 PEKLQETSNWLLSQQQADGSFQDPCPVLDRSMQGGLVGNDETVALTAFVTIALHHG  473 (767)
T ss_dssp             HHHHHHHHHHHHHTBCTTSCBCCSSCSCCCCCCSSTTTHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhhhcccchhcchhcchhhcCCcCCCccchhHHHHHHHHHHhc
Confidence            3345688899999999999986531            1123466677777777654

>2bb6_A TCII, TC II, transcobalamin II; alpha_6 - alpha_6 barrel, transport protein; HET: B12; 2.00A {Bos taurus} PDB: 2bbc_A* 2v3n_A* 2v3p_A* 2bb5_A*

Probab=98.49  E-value=7.7e-07  Score=80.03  Aligned_cols=124  Identities=15%  Similarity=-0.048  Sum_probs=86.1

Q ss_pred             HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCC-----cccHHHHH
Q 025813            8 ASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWS-----GMDRERAK   82 (247)
Q Consensus         8 ~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~-----~~~~~~~~   82 (247)
                      -...+++.+|-..|.++    +++.+..|...|+. ++|..   ++..++..+-.|+.+|..++..+     ...+++++
T Consensus       137 Yq~sL~vLALC~~g~~v----~~~~v~~Ll~~~~~-~~~~~---g~~~sVDT~AMA~lAL~C~~~~~~~~~~~~~i~~al  208 (414)
T 2bb6_A          137 YQYSLGILALCVHQKRV----HDSVVGKLLYAVEH-KPHLL---QDHVSVDTMAMAGMAFSCLELSNLNPKQRNRINLAL  208 (414)
T ss_dssp             HHHHHHHHHHHHTTCCC----CHHHHHHHHHHHHS-SSCSC---CTTTHHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCc----cHHHHHHHHHHhhc-cCcCC---CCcccccHHHHHHHHHHHHhhcCCCcchHHHHHHHH
Confidence            34445566666666533    35566666666653 45642   34568899988888888886421     12244555


Q ss_pred             ----HHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccc
Q 025813           83 ----AYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQ  155 (247)
Q Consensus        83 ----~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~  155 (247)
                          ++|++.|++||+||       ++.+|..||++|...+..+.+.        .-+..++++||++ |.+||+|.
T Consensus       209 ~~l~~~l~~~Q~~dG~FG-------N~~ST~lA~QAL~~~~~~~~~~--------~w~~~~a~~~Ll~-q~~dG~F~  269 (414)
T 2bb6_A          209 KRVQEKILKAQTPEGYFG-------NVYSTPLALQLLMGSLRPSVEL--------GTACLKAKAALQA-SLQHKTFQ  269 (414)
T ss_dssp             HHHHHHHHHTBCTTSCBS-------STTTHHHHHHHHTTCSSCCHHH--------HHHHHHHHHHHHH-HHTTTCCC
T ss_pred             HHHHHHHHHhhcCCCCcc-------chhhHHHHHHHHHhcCCCcccc--------cchHHHHHHHHHH-hccCCCCC
Confidence                88889999999997       4788999999999888753220        0146789999999 99999997

>4acq_A Alpha-2-macroglobulin; hydrolase inhibitor, proteinase inhibitor, irreversible PROT inhibitor, conformational change, blood plasma inhibitor; HET: MEQ NAG MAN; 4.30A {Homo sapiens}

Probab=98.46  E-value=1.1e-06  Score=90.87  Aligned_cols=109  Identities=15%  Similarity=0.090  Sum_probs=76.6

Q ss_pred             HHHHHHHHhcCCCCCCccCCCC----CCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCcc
Q 025813           79 ERAKAYILNCQSYDGGFGLTPG----SESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGF  154 (247)
Q Consensus        79 ~~~~~~l~~~Q~~dGGFg~~p~----~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf  154 (247)
                      +++++|++++|++||||+..+.    .+++.+.|.+++..|..+..... +       ....+.++++||.++|.+||+|
T Consensus       986 ~~g~~~ll~~q~~dGgf~~f~~~~~~~~~s~wlTAyv~~~l~~a~~~~~-v-------~~~~l~~a~~wL~~~Q~~dG~f 1057 (1451)
T 4acq_A          986 NTGYQRQLNYKHYDGSYSTFGERYGRNQGNTWLTAFVLKTFAQARAYIF-I-------DEAHITQALIWLSQRQKDNGCF 1057 (1451)
T ss_dssp             HHHHHHHGGGBCTTSCBCSSTTGGGCCCCCHHHHHHHHHHHHHHTTTSC-C-------CTHHHHHHHHHHHHTEETTTEE
T ss_pred             HHHHHHHHhhcCCCCCeeeccCCCCCCCCchhHHHHHHHHHHHhhhhcc-c-------CHHHHHHHHHHHHhhcccCCcc
Confidence            5778999999999999998864    45889999999999988764310 0       0224788999999999999999


Q ss_pred             cc--cc------CC-CCchhhHHHHHHHHHHhcCCCC-CCHHHHHHHHHhc
Q 025813          155 QG--RA------NK-PSDTCYAFWIGSVLRMLGGYNL-IDKEALRGFLLTC  195 (247)
Q Consensus       155 ~~--~~------~~-~~D~~~~y~a~~~L~lL~~~~~-~~~~~~~~~L~~~  195 (247)
                      ..  +.      ++ +.++.-+-+++.+|...+.... ..++++++||.++
T Consensus      1058 ~~~g~~~~~~m~gg~~~~~~lTAyvl~aL~~~g~~~~~~~i~~A~~~L~~~ 1108 (1451)
T 4acq_A         1058 RSSGSLLNNAIKGGVEDEVTLSAYITIALLEIPLTVTHPVVRNALFCLESA 1108 (1451)
T ss_dssp             CCCCCCSCGGGCCSCSCHHHHHHHHHHHHHHTTCCTTCHHHHHHHHHHHHH
T ss_pred             cccCcccchhhcCCCCCCccchHHHHHHHHHcCCCCCCHHHHHHHHHHHHh
Confidence            83  32      11 2455556667777766664211 1256777777654

>2b39_A C3; thioester, immune defense, immune system; HET: NAG BMA; 3.00A {Bos taurus}

Probab=98.41  E-value=5.7e-06  Score=86.66  Aligned_cols=178  Identities=12%  Similarity=0.105  Sum_probs=104.7

Q ss_pred             HHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC---CcccHHHHHHHHHh-cCCCCCCccCCC--------C-
Q 025813           34 TSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW---SGMDRERAKAYILN-CQSYDGGFGLTP--------G-  100 (247)
Q Consensus        34 ~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~---~~~~~~~~~~~l~~-~Q~~dGGFg~~p--------~-  100 (247)
                      +-+.+.|++||+|..++. +.++++.|-+++..|......   +....+++++||.+ .|++||.|....        + 
T Consensus      1053 ~r~l~~q~~dGsfs~w~~-~~~s~wLTAyv~~~l~~A~~~~~v~~~~l~~a~~~L~~~~q~~~g~f~~~~~~~~~~~~gg 1131 (1661)
T 2b39_A         1053 TQQLAFRQKSSAYAAFQY-RPPSTWLTAYVVKVFALAANLIAIDSKDLCETVKWLILEKQKPDGIFQEDGPVIHQEMIGG 1131 (1661)
T ss_dssp             HHHHTTBCTTSCBCSSTT-SCCCHHHHHHHHHHHHHHTTTSCCCHHHHHHHHHHHHHHTBCTTSCBCCCSCCCCTTSCCC
T ss_pred             HHHHHhhcCCCCccccCC-CCCchhhhHHHHHHHHhhhhcccCCHHHHHHHHHHhhHhhCCCCCccccccceechhhcCC
Confidence            334467999999997763 677899999998888877643   23345789999995 999999985421        1 


Q ss_pred             ----CCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhc-----------------------------
Q 025813          101 ----SESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQR-----------------------------  147 (247)
Q Consensus       101 ----~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~-----------------------------  147 (247)
                          .++++..|.+++.+|...+....+...+    ....+.++++||.+.                             
T Consensus      1132 ~~~~~~~~~~ltAyvl~aL~~~~~~~~~~~~~----~~~~i~~a~~yL~~~~~~~~~~y~~A~layAL~l~g~~a~~~l~ 1207 (1661)
T 2b39_A         1132 FRDTREKDVSLTAFVLIALHEAKDICEAQVNS----LGRSIAKAGDFLENHYRELRRPYTVAIAAYALALLGKLEGDRLT 1207 (1661)
T ss_dssp             TTCCTTSSHHHHHHHHHHHHHTTTTTTTTCSS----HHHHHHHHHHHHHHHTTTCCSHHHHHHHHHHHHHTTCCCHHHHH
T ss_pred             ccccccCccccHHHHHHHHHhccccccccCcc----hhHHHHHHHHHHHHhhhccCCHHHHHHHHHHHHHcCCcHHHHHH
Confidence                1236677788888887665421000000    000123344444332                             


Q ss_pred             -----CCCCCccccccCCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHH
Q 025813          148 -----QAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAF  222 (247)
Q Consensus       148 -----Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L  222 (247)
                           ......|....+...|+.-+-+++-++...+...  ...++++||.+.|+.+|||...       ..|..|+-||
T Consensus      1208 ~L~~~~~~~~~W~~~~~~~~~vE~tayaLlall~~~~~~--~~~~iv~wL~~qr~~~gg~~ST-------qdT~~Al~AL 1278 (1661)
T 2b39_A         1208 KFLNTAKEKNRWEEPNQKLYNVEATSYALLALLARKDYD--TTPPVVRWLNEQRYYGGGYGST-------QATFMVFQAL 1278 (1661)
T ss_dssp             HHHHHSBTTTBCCCSSCHHHHHHHHHHHHHHHHHHTCTT--TSHHHHHHHHHCCTBTTBBCSH-------HHHHHHHHHH
T ss_pred             HHHhhccCCCCCCCCCCCcchHHHHHHHHHHHHhcCChh--hHHHHHHHHHhcccCCCCcccc-------hHHHHHHHHH
Confidence                 1111112211011124444445555554455432  3477899999999999999864       4566677666


Q ss_pred             Hhc
Q 025813          223 SLL  225 (247)
Q Consensus       223 ~ll  225 (247)
                      +..
T Consensus      1279 ~~y 1281 (1661)
T 2b39_A         1279 AQY 1281 (1661)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>1r76_A Pectate lyase; A-helical structure; 2.65A {Azospirillum irakense} SCOP: a.102.5.1

Probab=98.40  E-value=1e-07  Score=85.39  Aligned_cols=143  Identities=14%  Similarity=-0.011  Sum_probs=79.6

Q ss_pred             CCcHHHHHHHHHHHHHhCCC-C--CCC----CHHHHHHHHHhcccCCCCccccCCCC--------CcchHHHHHHHHHHH
Q 025813            4 GSNLASTYCALAILKAVGYN-F--ANI----DSKSILTSMRNLQQHDGSFMPIHFGA--------EKDLRFVYCAAAICF   68 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~~-~--~~~----~~~~~i~~l~~~q~~dGgf~~~~~~~--------~~d~~~ty~al~~l~   68 (247)
                      +++.-.|..++.+|.-+... .  +..    -.++.++||.++|+++|||..+....        ..| ..|--.+..|.
T Consensus       145 T~DnddTa~vl~aL~rv~~~~t~~~~~~y~~Ai~Rgl~wlL~mQ~~nGGWpqFdpdn~~y~~~IpFnD-Dvt~rvle~L~  223 (408)
T 1r76_A          145 TIDNDATVTEIRFLAQVVSQLAPEEAAPYRDAALKGIEYLLASQFPNGGWPQVWPLEGGYHDAITYND-DALVHVAELLS  223 (408)
T ss_dssp             BCGGGTTHHHHHHHHHHHHHSCGGGCHHHHHHHHHHHHHHHHHSCTTSCCBSBSSCCCGGGGSEECGG-GHHHHHHHHHH
T ss_pred             CCCCchHHHHHHHHHHHHhhccccccHHHHHHHHHHHHHHHHccCCCCCCcCcCccccccccCCCcCc-HHHHHHHHHHH
Confidence            35556788888888876532 0  110    12589999999999999997653211        112 22323333343


Q ss_pred             HhcCC--------------CcccHHHHHHHHHhcCCC-CCCccCC-----CC---------CCCChhhHHHHHHHH-HHh
Q 025813           69 LLEDW--------------SGMDRERAKAYILNCQSY-DGGFGLT-----PG---------SESHGGGTYCAVASL-RLM  118 (247)
Q Consensus        69 ll~~~--------------~~~~~~~~~~~l~~~Q~~-dGGFg~~-----p~---------~~s~~~~T~~al~~L-~~l  118 (247)
                      .++..              .....+|+++||++.|.+ ||.+-..     .+         .|.-..++..++.+| .++
T Consensus       224 ~~~~~~~~~~~~~~~~~~~~~~av~Rgi~~Ll~~Qe~~dGsw~rWg~qY~ygT~~Pa~aRsYE~psLs~~esa~il~~LM  303 (408)
T 1r76_A          224 DIAAGRDGFGFVPPAIRTRALEATNAAIHCIVETQVVQDGKRLGWGQQHDALTLRPTSARNFEPAALSSTESARILLFLM  303 (408)
T ss_dssp             HHHHTCTTCTTSCHHHHHHHHHHHHHHHHHHHHHSCEETTEECCCCSEECTTTCSBCCCSTTCCSCEEHHHHHHHHHHHT
T ss_pred             HHHhccCcccccchhhhhhHHHHHHHHHHHHHHhhcccCCcccchhcccccccCcchhhhccCCccccHHHHHHHHHHHc
Confidence            33321              113457999999999999 9976521     00         111122233333332 233


Q ss_pred             CCcc--ccccccCCCCCCCCHHHHHHHHHhcCCCCCccc
Q 025813          119 GFIE--DNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQ  155 (247)
Q Consensus       119 g~~~--~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~  155 (247)
                      +...  ++.        ...++++++||.++|.+||+|.
T Consensus       304 ~~~~~~~~~--------~~aI~~Av~WL~s~Q~~dg~w~  334 (408)
T 1r76_A          304 EIEAPSDAV--------KQAIRGGVAWLNTSVIRDRAWV  334 (408)
T ss_dssp             TSSSCCHHH--------HHHHHHHHHHHHHSCCCC----
T ss_pred             cCCCCCHHH--------HHHHHHHHHHHHHhhcCCCcee
Confidence            3321  111        1148899999999999999997

>2bb6_A TCII, TC II, transcobalamin II; alpha_6 - alpha_6 barrel, transport protein; HET: B12; 2.00A {Bos taurus} PDB: 2bbc_A* 2v3n_A* 2v3p_A* 2bb5_A*

Probab=98.23  E-value=3e-06  Score=76.21  Aligned_cols=140  Identities=10%  Similarity=-0.062  Sum_probs=90.5

Q ss_pred             HHHHHHHHhcCCCcccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCcc--ccccccCCCCCCCCHHH
Q 025813           62 CAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIE--DNVLSKNTSSSIIDLPL  139 (247)
Q Consensus        62 ~al~~l~ll~~~~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~--~~~~~~~~~~~~~~~~~  139 (247)
                      +++.+|..-|..   ..++.+..++..|+ +++|..  +...++..|.-|+.+|..++...  +..        ...+++
T Consensus       141 L~vLALC~~g~~---v~~~~v~~Ll~~~~-~~~~~~--g~~~sVDT~AMA~lAL~C~~~~~~~~~~--------~~~i~~  206 (414)
T 2bb6_A          141 LGILALCVHQKR---VHDSVVGKLLYAVE-HKPHLL--QDHVSVDTMAMAGMAFSCLELSNLNPKQ--------RNRINL  206 (414)
T ss_dssp             HHHHHHHHTTCC---CCHHHHHHHHHHHH-SSSCSC--CTTTHHHHHHHHHHHHHHHHHHTSCGGG--------HHHHHH
T ss_pred             HHHHHHHHcCCC---ccHHHHHHHHHHhh-ccCcCC--CCcccccHHHHHHHHHHHHhhcCCCcch--------HHHHHH
Confidence            566666666642   34456666666665 345642  22346778887888887776531  000        012444


Q ss_pred             HH----HHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCCCC---CCHHHHHHHHHhcCCCCCCcCCCCCCCccH
Q 025813          140 LL----SWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNL---IDKEALRGFLLTCQSQYGGFGKCPGDLPDL  212 (247)
Q Consensus       140 ~~----~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~~~---~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~  212 (247)
                      ++    ++|.+.|++||+|+       +...|-.|+.+|...+....   ++..+++++|++ |..+|+|+       ++
T Consensus       207 al~~l~~~l~~~Q~~dG~FG-------N~~ST~lA~QAL~~~~~~~~~~~w~~~~a~~~Ll~-q~~dG~F~-------np  271 (414)
T 2bb6_A          207 ALKRVQEKILKAQTPEGYFG-------NVYSTPLALQLLMGSLRPSVELGTACLKAKAALQA-SLQHKTFQ-------NP  271 (414)
T ss_dssp             HHHHHHHHHHHTBCTTSCBS-------STTTHHHHHHHHTTCSSCCHHHHHHHHHHHHHHHH-HHTTTCCC-------SH
T ss_pred             HHHHHHHHHHHhhcCCCCcc-------chhhHHHHHHHHHhcCCCcccccchHHHHHHHHHH-hccCCCCC-------Ch
Confidence            44    88888899999996       34556678888877764211   355679999999 99999997       55


Q ss_pred             HHHHHHHHHHHhcCCCCC
Q 025813          213 YHSFYGYTAFSLLEEPGL  230 (247)
Q Consensus       213 ~~T~~al~~L~ll~~~~~  230 (247)
                      ..|+.++.+|.--.+.++
T Consensus       272 ~ataQ~lpaL~gkty~dv  289 (414)
T 2bb6_A          272 LMISQLLPVLNQKSYVDL  289 (414)
T ss_dssp             HHHHHHHHHTTTCCGGGG
T ss_pred             HHHHHHHHHhcCCCcccc
Confidence            788888888854443333

>3prx_B Cobra venom factor; immune system, complement, immune SYS complex; HET: NAG; 4.30A {Naja kaouthia} PDB: 3pvm_B*

Probab=98.17  E-value=2.3e-07  Score=96.63  Aligned_cols=180  Identities=11%  Similarity=0.066  Sum_probs=0.0

Q ss_pred             HHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC----CcccHHHHHHHHHh-cCCCCCCccCCC---------
Q 025813           34 TSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW----SGMDRERAKAYILN-CQSYDGGFGLTP---------   99 (247)
Q Consensus        34 ~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~----~~~~~~~~~~~l~~-~Q~~dGGFg~~p---------   99 (247)
                      +-+.+.|++||||..+.. ..+++|.|-+++..+......    +....+++++||.+ +|++||.|....         
T Consensus      1037 qr~l~yq~~DGsfs~w~~-~~~stWLTAyV~k~f~~A~~~i~~Vd~~~l~~~~~wL~~~~Q~~dG~F~e~~~v~~~~m~G 1115 (1642)
T 3prx_B         1037 AQQMVYKKADHSYAAFTN-RASSSWLTAYVVKVFAMAAKMVAGISHEIICGGVRWLILNRQQPDGAFKENAPVLSGTMQG 1115 (1642)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHhcCCCCCeecCCC-CCCccccHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHhhccCCCCcccccccccchhccC
Confidence            334457899999987642 567788888888777766532    33446789999997 899999995531         


Q ss_pred             ---CCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCC-CCccc-----------c--------
Q 025813          100 ---GSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAA-DGGFQ-----------G--------  156 (247)
Q Consensus       100 ---~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~-dGgf~-----------~--------  156 (247)
                         +.++++..|.+++.+|.-.+....+...+    ....+.++++||.+.-.. ..-|.           +        
T Consensus      1116 g~~~~~~~~~lTA~vliaL~e~~~~~~~~~~~----~~~~i~~a~~~L~~~~~~~~~~Y~~Ai~aYAl~l~~~~~~~~l~ 1191 (1642)
T 3prx_B         1116 GIQGAEEEVYLTAFILVALLESKTICNDYVNS----LDSSIKKATNYLLKKYEKLQRPYTTALTAYALAAADQLNDDRVL 1191 (1642)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CccCCCCcccchHHHHHHHHhccccccccccc----chHHHHHHHHHHHHhhhcCCCHHHHHHHHHHHHhcCCchHHHHH
Confidence               12456777888877776654321000000    012355666666543111 00110           0        


Q ss_pred             -----------ccCC-CCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHHh
Q 025813          157 -----------RANK-PSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSL  224 (247)
Q Consensus       157 -----------~~~~-~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~l  224 (247)
                                 ++++ ..++.-|=+|  .|++|..........+++||.+.|+..|||+-..       .|..|+-||+-
T Consensus      1192 ~l~~~~~~~W~~~~~~~~~VE~TaYa--LLa~l~~~~~~~a~~iv~WL~~qr~~~Ggf~STQ-------dTvvaLqALa~ 1262 (1642)
T 3prx_B         1192 MAASTGRDHWEEYNAHTHNIEGTSYA--LLALLKMKKFDQTGPIVRWLTDQNFYGETYGQTQ-------ATVMAFQALAE 1262 (1642)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHhcCCCCCCCCCCchHHHHHHHHH--HHHHhccCchhhHHHHHHHHHHhccCCCcccCcH-------HHHHHHHHHHH
Confidence                       0110 0122222222  2223322122234678999999999999998763       45566666655


Q ss_pred             cCC
Q 025813          225 LEE  227 (247)
Q Consensus       225 l~~  227 (247)
                      ...
T Consensus      1263 Y~~ 1265 (1642)
T 3prx_B         1263 YEI 1265 (1642)
T ss_dssp             ---
T ss_pred             HHH
Confidence            444

>2pmv_A Gastric intrinsic factor; cobalamin transport protein alpha6-alpha6 motif two domain P transport protein; HET: NAG B12; 2.60A {Homo sapiens} PDB: 3kq4_A*

Probab=97.98  E-value=1.3e-05  Score=71.65  Aligned_cols=101  Identities=13%  Similarity=-0.022  Sum_probs=76.6

Q ss_pred             HHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcC---CC---------cccHHHHHHHHHhcCCCCCCcc
Q 025813           29 SKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLED---WS---------GMDRERAKAYILNCQSYDGGFG   96 (247)
Q Consensus        29 ~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~---~~---------~~~~~~~~~~l~~~Q~~dGGFg   96 (247)
                      +.+.+.-|...++.||+        ..++..+-.++.+|.-+..   ..         ...+++++++|++.|++||+||
T Consensus       132 ~~~~v~kLl~~~~~~g~--------~~sVDT~AMa~LAL~C~~~~~~~~~~~~~~~~i~~ai~~~~~~l~~~q~~dG~fG  203 (399)
T 2pmv_A          132 TLPIAVRFAKTLLANSS--------PFNVDTGAMATLALTCMYNKIPVGSEEGYRSLFGQVLKDIVEKISMKIKDNGIIG  203 (399)
T ss_dssp             HHHHHHHHHHHHHHCCS--------CCCHHHHHHHHHHHHHHHTBCCTTCCSSHHHHHHHHHHHHHHHHTTSBCTTSCBS
T ss_pred             CHHHHHHHHHHHHccCC--------cccchHHHHHHHHHHHHhhccccccchhhHHHHHHHHHHHHHHHHHhhcCCCccc
Confidence            56677777777777742        1256777777777766654   11         1234678889999999999997


Q ss_pred             CCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCC-CHHHHHHHHHhcCCCCCccc
Q 025813           97 LTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSII-DLPLLLSWCLQRQAADGGFQ  155 (247)
Q Consensus        97 ~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~-~~~~~~~~l~~~Q~~dGgf~  155 (247)
                             ++.+|.-|+++|...+..+.          .. +..++.+||++ |.+||+|.
T Consensus       204 -------n~yST~LA~QAL~~~~~~~~----------~~W~c~~al~~l~~-q~~~G~F~  245 (399)
T 2pmv_A          204 -------DIYSTGLAMQALSVTPEPSK----------KEWNCKKTTDMILN-EIKQGKFH  245 (399)
T ss_dssp             -------SHHHHHHHHHHHHHCSSCCS----------SCCCHHHHHHHHHH-HHTTTTTC
T ss_pred             -------ccccHHHHHHHHHhcCCCcc----------ccccHHHHHHHHHH-HhhCCCcC
Confidence                   58999999999999987531          12 78899999999 89999997

>1gxm_A Pectate lyase; mechanism, elimination; 1.32A {Cellvibrio cellulosa} SCOP: a.102.5.1 PDB: 1gxn_A 1gxo_A*

Probab=97.91  E-value=5.7e-06  Score=72.11  Aligned_cols=137  Identities=13%  Similarity=0.022  Sum_probs=80.2

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCCC----CCHHHHHHHHHhcccCCCCccccCCCC--------CcchHHHHHHHHHHHHhc
Q 025813            4 GSNLASTYCALAILKAVGYNFAN----IDSKSILTSMRNLQQHDGSFMPIHFGA--------EKDLRFVYCAAAICFLLE   71 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~~~~~----~~~~~~i~~l~~~q~~dGgf~~~~~~~--------~~d~~~ty~al~~l~ll~   71 (247)
                      +++.-.|..++.+|.-+....+.    --.++.++||.++|.++|||..+....        ..| ..|--.+..|..++
T Consensus        70 t~DnddTa~vl~~Larv~~~~~~~~y~~Ai~Rgl~wlL~mQ~~nGGWpqFdpd~~~Yl~~IpFnD-DvtarvLelL~~~~  148 (332)
T 1gxm_A           70 TIDNGATITEMVFLAEVYKSGGNTKYRDAVRKAANFLVNSQYSTGALPQFYPLKGGYSDHATFND-NGMAYALTVLDFAA  148 (332)
T ss_dssp             ECGGGTTHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCTTSCCBSEESCCSGGGGSEECGG-GHHHHHHHHHHHHH
T ss_pred             CccCccHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhccCCCCCccccCCCcccccccCCcch-HHHHHHHHHHHHHH
Confidence            35566788888888765431111    012689999999999999998753211        122 23334444554443


Q ss_pred             C----C------------CcccHHHHHHHHHhcCCCCCCccCCCC---------------CCCChhhHHHHHHHHHHhCC
Q 025813           72 D----W------------SGMDRERAKAYILNCQSYDGGFGLTPG---------------SESHGGGTYCAVASLRLMGF  120 (247)
Q Consensus        72 ~----~------------~~~~~~~~~~~l~~~Q~~dGGFg~~p~---------------~~s~~~~T~~al~~L~~lg~  120 (247)
                      .    .            .....+|+++||++.|.++||+-+.-+               .|+-+.++..++..+..+-.
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~av~Rgid~Llk~Qe~dggw~g~Wg~qydygT~~Pa~ARayE~psL~~~es~giv~~LM~  228 (332)
T 1gxm_A          149 NKRAPFDTDVFSDNDRTRFKTAVTKGTDYILKAQWKQNGVLTVWCAQHGALDYQPKKARAYELESLSGSESVGVLAFLMT  228 (332)
T ss_dssp             TTCTTSCSTTSCHHHHHHHHHHHHHHHHHHHHHSCEETTEECCCCSEECTTTCCBCCCSTTCCSSEETTTHHHHHHHHTT
T ss_pred             hccCCccccccccchhhhhHHHHHHHHHHHHHhhCccCCCcCeeccccccccccccccccccccchhHHHHHHHHHHhcc
Confidence            2    1            112357899999999999998654422               12223333334444333322


Q ss_pred             cc--ccccccCCCCCCCCHHHHHHHHHhcCC
Q 025813          121 IE--DNVLSKNTSSSIIDLPLLLSWCLQRQA  149 (247)
Q Consensus       121 ~~--~~~~~~~~~~~~~~~~~~~~~l~~~Q~  149 (247)
                      .+  ++++        ..++++++||.++|.
T Consensus       229 ~~~~~~v~--------~aI~~Av~WL~~~q~  251 (332)
T 1gxm_A          229 QPQTAEIE--------QAVRAGVAWFNSPRT  251 (332)
T ss_dssp             SCCCHHHH--------HHHHHHHHHHTCTTT
T ss_pred             CCCCHHHH--------HHHHHHHHHHHhccc
Confidence            22  1111        138899999999998

>3cu7_A Complement C5; Mg domain, inflammation, anaphylatoxin, cleavage of basic residues, complement alternate pathway, glycoprotein, immune response; HET: NAG; 3.10A {Homo sapiens} PDB: 3kls_A* 3km9_A* 4e0s_A* 3prx_A* 3pvm_A* 4a5w_A* 1xwe_A

Probab=97.88  E-value=8.1e-05  Score=78.13  Aligned_cols=90  Identities=12%  Similarity=0.098  Sum_probs=62.6

Q ss_pred             HHHHHHHHH-------hcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC---CcccHHHHHHHHHh-cCCCCCCccC
Q 025813           29 SKSILTSMR-------NLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW---SGMDRERAKAYILN-CQSYDGGFGL   97 (247)
Q Consensus        29 ~~~~i~~l~-------~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~---~~~~~~~~~~~l~~-~Q~~dGGFg~   97 (247)
                      +++++++|.       +.|++||+|..+. ++.++++.|-+++..+......   +....+++++||.+ .|++||.|..
T Consensus      1042 ~~~~~~~i~~g~~r~l~~q~~dGsfs~w~-~~~~s~wLTAyv~~~l~~A~~~~~v~~~~l~~a~~~L~~~~q~~~g~f~~ 1120 (1676)
T 3cu7_A         1042 KQKLKKKLKEGMLSIMSYRNADYSYSVWK-GGSASTWLTAFALRVLGQVNKYVEQNQNSICNSLLWLVENYQLDNGSFKE 1120 (1676)
T ss_dssp             HHHHHHHHHHHHHHGGGGBCTTSCBCSSS-SSCCCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHSBCTTSCBCC
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCCccccC-CCCCcEEEeHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhCCCCCcccC
Confidence            456666643       5789999999774 4677899999988888777643   23345789999999 9999999864


Q ss_pred             CCC--------C------CCChhhHHHHHHHHHHhC
Q 025813           98 TPG--------S------ESHGGGTYCAVASLRLMG  119 (247)
Q Consensus        98 ~p~--------~------~s~~~~T~~al~~L~~lg  119 (247)
                      ...        .      ++++..|.+++.+|...+
T Consensus      1121 ~~~~~~~~~~gg~~~~~~~~~~~ltAyvl~aL~~~~ 1156 (1676)
T 3cu7_A         1121 NSQYQPIKLQGTLPVEARENSLYLTAFTVIGIRKAF 1156 (1676)
T ss_dssp             CSSCCCCCCCSCHHHHHHHHHHHHHHHHHHHHHHTG
T ss_pred             CccccchhhcCCcccccccCccccHHHHHHHHHhcc
Confidence            311        0      124556667777776543

>2pmv_A Gastric intrinsic factor; cobalamin transport protein alpha6-alpha6 motif two domain P transport protein; HET: NAG B12; 2.60A {Homo sapiens} PDB: 3kq4_A*

Probab=97.78  E-value=4.3e-05  Score=68.32  Aligned_cols=129  Identities=9%  Similarity=-0.105  Sum_probs=87.5

Q ss_pred             ccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCC---ccc--cccccCCCCCCCCHHHHHHHHHhcCCC
Q 025813           76 MDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGF---IED--NVLSKNTSSSIIDLPLLLSWCLQRQAA  150 (247)
Q Consensus        76 ~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~---~~~--~~~~~~~~~~~~~~~~~~~~l~~~Q~~  150 (247)
                      ....+.+.-|+..|+.||+       .-++..+.-|+.+|..+..   ...  ....+ .   ...+++++++|.+.|++
T Consensus       130 ~v~~~~v~kLl~~~~~~g~-------~~sVDT~AMa~LAL~C~~~~~~~~~~~~~~~~-i---~~ai~~~~~~l~~~q~~  198 (399)
T 2pmv_A          130 EATLPIAVRFAKTLLANSS-------PFNVDTGAMATLALTCMYNKIPVGSEEGYRSL-F---GQVLKDIVEKISMKIKD  198 (399)
T ss_dssp             HHHHHHHHHHHHHHHHCCS-------CCCHHHHHHHHHHHHHHHTBCCTTCCSSHHHH-H---HHHHHHHHHHHTTSBCT
T ss_pred             CCCHHHHHHHHHHHHccCC-------cccchHHHHHHHHHHHHhhccccccchhhHHH-H---HHHHHHHHHHHHHhhcC
Confidence            3456667777777777742       1246666667777766655   110  00000 0   11356788899999999


Q ss_pred             CCccccccCCCCchhhHHHHHHHHHHhcC--CCCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHHhcCCC
Q 025813          151 DGGFQGRANKPSDTCYAFWIGSVLRMLGG--YNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP  228 (247)
Q Consensus       151 dGgf~~~~~~~~D~~~~y~a~~~L~lL~~--~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~ll~~~  228 (247)
                      ||+|+       |...|=-|+.+|...+.  ...++..++.+||++ |..+|+|+       ++..|+..+-+|.--++.
T Consensus       199 dG~fG-------n~yST~LA~QAL~~~~~~~~~~W~c~~al~~l~~-q~~~G~F~-------np~~taQilPaL~~ktyl  263 (399)
T 2pmv_A          199 NGIIG-------DIYSTGLAMQALSVTPEPSKKEWNCKKTTDMILN-EIKQGKFH-------NPMSIAQILPSLKGKTYL  263 (399)
T ss_dssp             TSCBS-------SHHHHHHHHHHHHHCSSCCSSCCCHHHHHHHHHH-HHTTTTTC-------SHHHHHHHHHHHTTCCGG
T ss_pred             CCccc-------ccccHHHHHHHHHhcCCCccccccHHHHHHHHHH-HhhCCCcC-------CHHHHHHHHHHhcCCCcc
Confidence            99996       56666678888888775  234578899999999 99999996       567888888888554444


Q ss_pred             CC
Q 025813          229 GL  230 (247)
Q Consensus       229 ~~  230 (247)
                      ++
T Consensus       264 dv  265 (399)
T 2pmv_A          264 DV  265 (399)
T ss_dssp             GG
T ss_pred             Cc
Confidence            44

>4fxk_B Complement C4-A alpha chain; immune system, proteolytic cascade; HET: NAG BMA; 3.60A {Homo sapiens} PDB: 4fxg_B*

Probab=97.69  E-value=0.0012  Score=64.13  Aligned_cols=69  Identities=25%  Similarity=0.230  Sum_probs=54.3

Q ss_pred             HHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccc
Q 025813           79 ERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQ  155 (247)
Q Consensus        79 ~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~  155 (247)
                      +++++-+++.|++||||+..++..++.+.|.+++..|..+...-.-        ....+.+++.||.+.|.+||.|.
T Consensus       371 ~~gyqrll~~q~~DGsfs~w~~~~~s~wLTAyV~~~l~~A~~~i~i--------d~~~i~~a~~wL~~~Q~~~G~f~  439 (767)
T 4fxk_B          371 QKGYMRIQQFRKADGSYAAWLSRDSSTWLTAFVLKVLSLAQEQVGG--------SPEKLQETSNWLLSQQQADGSFQ  439 (767)
T ss_dssp             HHHHHHHTTTBCTTSCBBSSSSSCBCHHHHHHHHHHHHHTCSSSSC--------CHHHHHHHHHHHHHTBCTTSCBC
T ss_pred             HHHHHHHHHhhcCCCCcccCCCCCCCchhHHHHHHHHHHHHhhcCc--------chHHHHHHHHHHHHhhhhcccch
Confidence            3455566789999999999998889999999999999887553200        01135678999999999999996

>2b39_A C3; thioester, immune defense, immune system; HET: NAG BMA; 3.00A {Bos taurus}

Probab=97.62  E-value=0.00064  Score=71.31  Aligned_cols=130  Identities=16%  Similarity=0.145  Sum_probs=83.8

Q ss_pred             HHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHh-cCCCCCcccccc-
Q 025813           81 AKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQ-RQAADGGFQGRA-  158 (247)
Q Consensus        81 ~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~-~Q~~dGgf~~~~-  158 (247)
                      +++-+++.|++||||+.+++.+++.+.|.+++..|..+...-. + .      ...+.++++||.+ +|.+||.|.... 
T Consensus      1051 g~~r~l~~q~~dGsfs~w~~~~~s~wLTAyv~~~l~~A~~~~~-v-~------~~~l~~a~~~L~~~~q~~~g~f~~~~~ 1122 (1661)
T 2b39_A         1051 GYTQQLAFRQKSSAYAAFQYRPPSTWLTAYVVKVFALAANLIA-I-D------SKDLCETVKWLILEKQKPDGIFQEDGP 1122 (1661)
T ss_dssp             HHHHHHTTBCTTSCBCSSTTSCCCHHHHHHHHHHHHHHTTTSC-C-C------HHHHHHHHHHHHHHTBCTTSCBCCCSC
T ss_pred             HHHHHHHhhcCCCCccccCCCCCchhhhHHHHHHHHhhhhccc-C-C------HHHHHHHHHHhhHhhCCCCCccccccc
Confidence            4445668999999999999888899999999999988754310 0 0      1136789999995 999999996321 


Q ss_pred             -------C-----CCCchhhHHHHHHHHHHhcCC---CC--C--CHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHH
Q 025813          159 -------N-----KPSDTCYAFWIGSVLRMLGGY---NL--I--DKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGY  219 (247)
Q Consensus       159 -------~-----~~~D~~~~y~a~~~L~lL~~~---~~--~--~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al  219 (247)
                             +     .+.+...+.+++.+|.-.+..   ..  .  .++++.+||.+....          ..+.+......
T Consensus      1123 ~~~~~~~gg~~~~~~~~~~ltAyvl~aL~~~~~~~~~~~~~~~~~i~~a~~yL~~~~~~----------~~~~y~~A~la 1192 (1661)
T 2b39_A         1123 VIHQEMIGGFRDTREKDVSLTAFVLIALHEAKDICEAQVNSLGRSIAKAGDFLENHYRE----------LRRPYTVAIAA 1192 (1661)
T ss_dssp             CCCTTSCCCTTCCTTSSHHHHHHHHHHHHHTTTTTTTTCSSHHHHHHHHHHHHHHHTTT----------CCSHHHHHHHH
T ss_pred             eechhhcCCccccccCccccHHHHHHHHHhccccccccCcchhHHHHHHHHHHHHhhhc----------cCCHHHHHHHH
Confidence                   1     112555555566666544321   11  1  245788999775421          24455555555


Q ss_pred             HHHHhcCCC
Q 025813          220 TAFSLLEEP  228 (247)
Q Consensus       220 ~~L~ll~~~  228 (247)
                      .+|++.|..
T Consensus      1193 yAL~l~g~~ 1201 (1661)
T 2b39_A         1193 YALALLGKL 1201 (1661)
T ss_dssp             HHHHHTTCC
T ss_pred             HHHHHcCCc
Confidence            666666654

>3cu7_A Complement C5; Mg domain, inflammation, anaphylatoxin, cleavage of basic residues, complement alternate pathway, glycoprotein, immune response; HET: NAG; 3.10A {Homo sapiens} PDB: 3kls_A* 3km9_A* 4e0s_A* 3prx_A* 3pvm_A* 4a5w_A* 1xwe_A

Probab=97.09  E-value=0.0023  Score=67.25  Aligned_cols=126  Identities=15%  Similarity=0.091  Sum_probs=77.6

Q ss_pred             HHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHh-cCCCCCcccccc---CC
Q 025813           85 ILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQ-RQAADGGFQGRA---NK  160 (247)
Q Consensus        85 l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~-~Q~~dGgf~~~~---~~  160 (247)
                      +++.|++||||+.+++.+++.+.|.+++..|..+...- .+ .      ...+.++++||.+ +|.+||.|....   +.
T Consensus      1056 ~l~~q~~dGsfs~w~~~~~s~wLTAyv~~~l~~A~~~~-~v-~------~~~l~~a~~~L~~~~q~~~g~f~~~~~~~~~ 1127 (1676)
T 3cu7_A         1056 IMSYRNADYSYSVWKGGSASTWLTAFALRVLGQVNKYV-EQ-N------QNSICNSLLWLVENYQLDNGSFKENSQYQPI 1127 (1676)
T ss_dssp             GGGGBCTTSCBCSSSSSCCCHHHHHHHHHHHHHHHTTS-CC-C------HHHHHHHHHHHHHHSBCTTSCBCCCSSCCCC
T ss_pred             HhhccCCCCCccccCCCCCcEEEeHHHHHHHHHHHhcc-cC-C------HHHHHHHHHHHHHhhCCCCCcccCCccccch
Confidence            46789999999999888889999999999998774321 00 0      1136789999999 999999996321   11


Q ss_pred             -----C------CchhhHHHHHHHHHHhcCC-CC----CCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHHh
Q 025813          161 -----P------SDTCYAFWIGSVLRMLGGY-NL----IDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSL  224 (247)
Q Consensus       161 -----~------~D~~~~y~a~~~L~lL~~~-~~----~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~l  224 (247)
                           .      .|...+.+++.+|.-.+.. +.    ..++++.+||.+....          ..+.+.......+|++
T Consensus      1128 ~~~gg~~~~~~~~~~~ltAyvl~aL~~~~~~~~~~~~~~~i~~a~~yL~~~~~~----------~~~~y~~A~lA~Al~l 1197 (1676)
T 3cu7_A         1128 KLQGTLPVEARENSLYLTAFTVIGIRKAFDICPLVKIDTALIKADNFLLENTLP----------AQSTFTLAISAYALSL 1197 (1676)
T ss_dssp             CCCSCHHHHHHHHHHHHHHHHHHHHHHTGGGSCCHHHHHHHHHHHHHHHHHHSS----------CSCHHHHHHHHHHHTT
T ss_pred             hhcCCcccccccCccccHHHHHHHHHhcccccCCcccHHHHHHHHHHHHHhhhc----------cCCHHHHHHHHHHHHh
Confidence                 0      1343444455555333221 00    1245788999765321          1344544444455556


Q ss_pred             cCCC
Q 025813          225 LEEP  228 (247)
Q Consensus       225 l~~~  228 (247)
                      .+..
T Consensus      1198 ~g~~ 1201 (1676)
T 3cu7_A         1198 GDKT 1201 (1676)
T ss_dssp             SCTT
T ss_pred             cCCc
Confidence            5554

>3s9v_A Abietadiene synthase, chloroplastic; alpha bundle/barrel, lyase, isomerase; 2.30A {Abies grandis}

Probab=97.03  E-value=0.0065  Score=59.01  Aligned_cols=70  Identities=14%  Similarity=0.191  Sum_probs=43.2

Q ss_pred             CchhhHHHHHHHHHHhcCCCCC--CHHHHHHHHHhcCCCCCCcCCCC-CCCccHHHHHHHHHHHHhcCCCCCCC
Q 025813          162 SDTCYAFWIGSVLRMLGGYNLI--DKEALRGFLLTCQSQYGGFGKCP-GDLPDLYHSFYGYTAFSLLEEPGLNP  232 (247)
Q Consensus       162 ~D~~~~y~a~~~L~lL~~~~~~--~~~~~~~~L~~~Q~~~GGf~~~p-~~~~d~~~T~~al~~L~ll~~~~~~~  232 (247)
                      .|...--|.+..|-=||-...+  .++.+.++|-++-... |.+..+ ...+|+..|..++-.|-..|+.-..+
T Consensus       268 ~d~~e~l~lID~LqrLGi~~hF~~EI~~~L~~i~~~~~~~-gi~~~~~~~~~Dl~~tAl~FRlLR~~Gy~VS~d  340 (785)
T 3s9v_A          268 LDLFERLWAVDTVERLGIDRHFKEEIKEALDYVYSHWDER-GIGWARENPVPDIDDTAMGLRILRLHGYNVSSD  340 (785)
T ss_dssp             CHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTCCTT-CCCSSTTCSSCCHHHHHHHHHHHHHTTCCCCGG
T ss_pred             CcHHHHHHHHHHHHHcCCccccHHHHHHHHHHHHHHhhhc-cccccccCCCCCHHHHHHHHHHHHhcCCCCCHH
Confidence            4555555666666666643222  1346677776554433 343333 23479999999999999999864433

>3sdr_A Alpha-bisabolene synthase; lyase, terpene synthase; HET: 210; 1.86A {Abies grandis} PDB: 3sdq_A 3sae_A* 3sdt_A* 3sdu_A* 3sdv_A*

Probab=96.95  E-value=0.0083  Score=58.54  Aligned_cols=70  Identities=16%  Similarity=0.151  Sum_probs=44.3

Q ss_pred             CchhhHHHHHHHHHHhcCCCCC--CHHHHHHHHHhcCCCCCCcCC-CCCCCccHHHHHHHHHHHHhcCCCCCCC
Q 025813          162 SDTCYAFWIGSVLRMLGGYNLI--DKEALRGFLLTCQSQYGGFGK-CPGDLPDLYHSFYGYTAFSLLEEPGLNP  232 (247)
Q Consensus       162 ~D~~~~y~a~~~L~lL~~~~~~--~~~~~~~~L~~~Q~~~GGf~~-~p~~~~d~~~T~~al~~L~ll~~~~~~~  232 (247)
                      .|...--|.+..|-=||-...+  .++.+.++|-++-...| .+. +++...|+..|..+.-.|-..|+.-..+
T Consensus       296 ~d~~e~l~lID~LqrLGi~~hF~~EI~~~L~~i~~~~~~~g-i~~~~~~~~~Dl~~tAl~FRlLR~~Gy~VS~d  368 (817)
T 3sdr_A          296 VDLLERLLIVDNIVRLGIYRHFEKEIKEALDYVYRHWNERG-IGWGRLNPIADLETTALGFRLLRLHRYNVSPA  368 (817)
T ss_dssp             CHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHHHCCTTC-CCSSTTCSSCCHHHHHHHHHHHHHTTCCCCGG
T ss_pred             CcHHHHHHHHHHHHHcCCccccHHHHHHHHHHHHHHhhhcc-cccccCCCCCCHHHHHHHHHHHHHcCCCccHh
Confidence            4555556666666666643222  23466777766554333 432 3444689999999999999999864433

>3p5p_A Taxadiene synthase; class I and II terpene cyclase fold, diterpene cyclase, DDXX NSE/DTE motif, 3-azacopalyl diphosphate; HET: A3C; 1.82A {Taxus brevifolia} PDB: 3p5r_A*

Probab=96.92  E-value=0.01  Score=57.47  Aligned_cols=90  Identities=12%  Similarity=0.058  Sum_probs=53.7

Q ss_pred             HHHHHHHhcCCC-CCccccccC-CCCchhhHHHHHHHHHHhcCCCCC--CHHHHHHHHHhcCCCCCCcCC-CCCCCccHH
Q 025813          139 LLLSWCLQRQAA-DGGFQGRAN-KPSDTCYAFWIGSVLRMLGGYNLI--DKEALRGFLLTCQSQYGGFGK-CPGDLPDLY  213 (247)
Q Consensus       139 ~~~~~l~~~Q~~-dGgf~~~~~-~~~D~~~~y~a~~~L~lL~~~~~~--~~~~~~~~L~~~Q~~~GGf~~-~p~~~~d~~  213 (247)
                      +|.+||.+..+. +||   .|. -+.|...--|.+..|--||-...+  .++.+.++|-++....| .+. +++...|+.
T Consensus       222 ~~~~YL~~~~~~~~g~---VP~~yP~d~~e~l~lID~LqrLGi~~hF~~EI~~~L~~i~~~~~~~g-i~~~~~~~~~Dl~  297 (764)
T 3p5p_A          222 KCFTFLNNLLDKFGGC---VPCMYSIDLLERLSLVDNIEHLGIGRHFKQEIKGALDYVYRHWSERG-IGWGRDSLVPDLN  297 (764)
T ss_dssp             HHHHHHHHHHHHHTSC---CCSSCCCHHHHHHHHHHHHHHHTCGGGGHHHHHHHHHHHHHTCCTTC-CCSSTTCSSCCHH
T ss_pred             hHHHHHHHHHHhcCCC---CCCcCCCcHHHHHHHHHHHHHcCCccccHHHHHHHHHHHHHHhhhcc-cccccCCCCCCHH
Confidence            455565554322 222   233 234566666777777777743322  23467777766554433 432 244458999


Q ss_pred             HHHHHHHHHHhcCCCCCCC
Q 025813          214 HSFYGYTAFSLLEEPGLNP  232 (247)
Q Consensus       214 ~T~~al~~L~ll~~~~~~~  232 (247)
                      .|..++-.|-..|+.-..+
T Consensus       298 ~tAl~FRlLR~~Gy~VS~d  316 (764)
T 3p5p_A          298 TTALGLRTLRMHGYNVSSD  316 (764)
T ss_dssp             HHHHHHHHHHHTTCCCCGG
T ss_pred             HHHHHHHHHHhcCCCccHh
Confidence            9999999999999864433

>3pya_A ENT-copalyl diphosphate synthase, chloroplastic; class I and II terpene cyclase fold, class II diterpene CYCL DXXDD motif; HET: AG8 1PE; 2.25A {Arabidopsis thaliana} PDB: 3pyb_A*

Probab=96.86  E-value=0.016  Score=55.75  Aligned_cols=71  Identities=11%  Similarity=0.120  Sum_probs=43.6

Q ss_pred             CchhhHHHHHHHHHHhcCCCCC--CHHHHHHHHHhcCCCCCCcCCCC-CCCccHHHHHHHHHHHHhcCCCCCCCC
Q 025813          162 SDTCYAFWIGSVLRMLGGYNLI--DKEALRGFLLTCQSQYGGFGKCP-GDLPDLYHSFYGYTAFSLLEEPGLNPL  233 (247)
Q Consensus       162 ~D~~~~y~a~~~L~lL~~~~~~--~~~~~~~~L~~~Q~~~GGf~~~p-~~~~d~~~T~~al~~L~ll~~~~~~~~  233 (247)
                      .|...--|.+-.|-=||-...+  .++.+.++|-++...+| .+..+ ....|+..|..++-.|-..|+.-..++
T Consensus       243 ~d~~e~L~lID~LqRLGIs~hFe~EI~~~L~~i~~~~~~~g-~~~~~~~~~~DL~~tAL~FRLLRqhGy~VS~Dv  316 (727)
T 3pya_A          243 VDLFEHIWIVDRLQRLGISRYFEEEIKECLDYVHRYWTDNG-ICWARCSHVQDIDDTAMAFRLLRQHGYQVSADV  316 (727)
T ss_dssp             CHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHHTCCTTC-CCSSSSCSCCCHHHHHHHHHHHHHTTCCCCGGG
T ss_pred             CcHHHHHHHHHHHHHcCCccccHHHHHHHHHHHHHHhhhcC-cccccCCCCCCHHHHHHHHHHHHhCCCCCCHHH
Confidence            4555555666666666643222  23467777766644333 33222 235799999999999999998754444

>3prx_B Cobra venom factor; immune system, complement, immune SYS complex; HET: NAG; 4.30A {Naja kaouthia} PDB: 3pvm_B*

Probab=96.37  E-value=0.00055  Score=71.51  Aligned_cols=70  Identities=17%  Similarity=0.145  Sum_probs=0.0

Q ss_pred             HHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHh-cCCCCCcccc
Q 025813           80 RAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQ-RQAADGGFQG  156 (247)
Q Consensus        80 ~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~-~Q~~dGgf~~  156 (247)
                      .+++-+++.|++||||+.+.+.+++.+.|.+++-.|......-..+ +      ...+.++++||.+ +|.+||.|..
T Consensus      1034 ~Gyqr~l~yq~~DGsfs~w~~~~~stWLTAyV~k~f~~A~~~i~~V-d------~~~l~~~~~wL~~~~Q~~dG~F~e 1104 (1642)
T 3prx_B         1034 TGYAQQMVYKKADHSYAAFTNRASSSWLTAYVVKVFAMAAKMVAGI-S------HEIICGGVRWLILNRQQPDGAFKE 1104 (1642)
T ss_dssp             ------------------------------------------------------------------------------
T ss_pred             HHHHHHHHhcCCCCCeecCCCCCCccccHHHHHHHHHHHHhhccCC-C------HHHHHHHHHHHHhhccCCCCcccc
Confidence            4445566899999999999777788899999998888764421000 0      2246789999997 8999999963

>3sdr_A Alpha-bisabolene synthase; lyase, terpene synthase; HET: 210; 1.86A {Abies grandis} PDB: 3sdq_A 3sae_A* 3sdt_A* 3sdu_A* 3sdv_A*

Probab=95.42  E-value=0.032  Score=54.41  Aligned_cols=101  Identities=11%  Similarity=0.056  Sum_probs=58.4

Q ss_pred             HHHHHHHHhccc---CCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCCCCCccCCCCCC--CC
Q 025813           30 KSILTSMRNLQQ---HDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSE--SH  104 (247)
Q Consensus        30 ~~~i~~l~~~q~---~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~--s~  104 (247)
                      ++.++-++.+.+   .||.++..+    +-+.-|.| |+...-++....+.-...++||+..|.+||+||......  .-
T Consensus        57 ~~Lie~VK~~l~~~~~~g~~g~~S----~S~YDTAW-VAmvp~~~~~~~p~Fp~~~~wil~nQ~~DGsWg~~~~~~~~d~  131 (817)
T 3sdr_A           57 EVLVSEIKAMLNPAITGDGESMIT----PSAYDTAW-VARVPAIDGSARPQFPQTVDWILKNQLKDGSWGIQSHFLLSDR  131 (817)
T ss_dssp             HHHHHHHHHHHHHHHTSSCCCCCC----CCHHHHHH-HHTCBCTTSCSSBSSHHHHHHHHHCCCTTSCCSCTTCCCHHHH
T ss_pred             HHHHHHHHHHhccccCCCCCcccc----cCHHHhhH-HheeecCCCCCCCCchHHHHHHHHccCCCCCCCCCCCcchHHH
Confidence            456777777655   565222111    12445556 222211222233445788999999999999999643211  13


Q ss_pred             hhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhc
Q 025813          105 GGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQR  147 (247)
Q Consensus       105 ~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~  147 (247)
                      +.+|..||.+|..-+..+            ..+++++.||.+.
T Consensus       132 ll~TlAcvlAL~~w~~~~------------~~i~~Gl~fl~~n  162 (817)
T 3sdr_A          132 LLATLSCVLVLLKWNVGD------------LQVEQGIEFIKSN  162 (817)
T ss_dssp             HHHHHHHHHHHHHTTCCH------------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCCH------------HHHHHHHHHHHHH
Confidence            677888888877644332            1356677777654

>3s9v_A Abietadiene synthase, chloroplastic; alpha bundle/barrel, lyase, isomerase; 2.30A {Abies grandis}

Probab=94.39  E-value=0.042  Score=53.36  Aligned_cols=98  Identities=14%  Similarity=0.083  Sum_probs=56.7

Q ss_pred             HHHHHHHHhccc--CCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCCCCCccCCCCCCC-C-h
Q 025813           30 KSILTSMRNLQQ--HDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSES-H-G  105 (247)
Q Consensus        30 ~~~i~~l~~~q~--~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s-~-~  105 (247)
                      +..++-|+++.+  .+|...+       -+.-|.| |+...-++....+.-...++||+..|.+||+||....... + +
T Consensus        34 ~~~~~~i~~~~~~~~~g~~S~-------S~YDTAW-Vamvp~~~~~~~p~Fp~~~~wil~nQ~~DGsWg~~~~~~~~d~l  105 (785)
T 3s9v_A           34 ETLISEIKNMFRCMGYGETNP-------SAYDTAW-VARIPAVDGSDNPHFPETVEWILQNQLKDGSWGEGFYFLAYDRI  105 (785)
T ss_dssp             HHHHHHHHHHHHHCSSCCCCC-------CHHHHHH-HTTSBCTTSCSSBSSHHHHHHHHHCCCTTSCCSCSSSCCHHHHH
T ss_pred             HHHHHHHHHHhhcCCCCcccC-------cHHHhhH-HhccccCCCCCCCCchHHHHHHHHccCCCCCCCCCCCCchHHHH
Confidence            345666666543  3333322       2345556 2211112222334457889999999999999997532111 3 7


Q ss_pred             hhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhc
Q 025813          106 GGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQR  147 (247)
Q Consensus       106 ~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~  147 (247)
                      .+|..||.+|..-+..+            ..+++++.||.+.
T Consensus       106 ~~TlAcvlAL~~w~~~~------------~~i~~Gl~fl~~n  135 (785)
T 3s9v_A          106 LATLACIITLTLWRTGE------------TQVQKGIEFFRTQ  135 (785)
T ss_dssp             HHHHHHHHHHHHTTCCH------------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccCH------------HHHHHHHHHHHHH
Confidence            78888888887654332            1356677777653

>3p5p_A Taxadiene synthase; class I and II terpene cyclase fold, diterpene cyclase, DDXX NSE/DTE motif, 3-azacopalyl diphosphate; HET: A3C; 1.82A {Taxus brevifolia} PDB: 3p5r_A*

Probab=94.14  E-value=0.064  Score=51.96  Aligned_cols=98  Identities=13%  Similarity=0.120  Sum_probs=57.2

Q ss_pred             HHHHHHHHhcccC--CCCccccCCCCCcchHHHHHHHHHHHHh--cCCCcccHHHHHHHHHhcCCCCCCccCCCCCC--C
Q 025813           30 KSILTSMRNLQQH--DGSFMPIHFGAEKDLRFVYCAAAICFLL--EDWSGMDRERAKAYILNCQSYDGGFGLTPGSE--S  103 (247)
Q Consensus        30 ~~~i~~l~~~q~~--dGgf~~~~~~~~~d~~~ty~al~~l~ll--~~~~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~--s  103 (247)
                      +..++-|+++.+.  +|...+       -+.-|.| |+...-+  +....+.-...++||+..|.+||+||......  .
T Consensus        11 ~~~~~~i~~~~~~~~~g~~S~-------S~YDTAW-Vamvp~~~~~~~~~p~Fp~~~~wil~nQ~~DGsWg~~~~~~~~d   82 (764)
T 3p5p_A           11 DELVVKIKDMFNALGDGDISP-------SAYDTAW-VARLATISSDGSEKPRFPQALNWVFNNQLQDGSWGIESHFSLCD   82 (764)
T ss_dssp             HHHHHHHHHHHHTCSSCCCCC-------CHHHHHH-HHHCEEECTTSCEEESCHHHHHHHHHCCCTTSCCSCTTSCCHHH
T ss_pred             HHHHHHHHHHHhcCCCCcccC-------cHHHHHH-HHhCccccCCCCCCCCChHHHHHHHHccCCCCCCCCCCCcchHH
Confidence            5567777766442  333322       2345656 2222122  22223345788999999999999999643211  1


Q ss_pred             ChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhc
Q 025813          104 HGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQR  147 (247)
Q Consensus       104 ~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~  147 (247)
                      -+.+|..||.+|..-+..+            ..+++++.||.+.
T Consensus        83 ~ll~TlAcvlAL~~w~~~~------------~~i~~Gl~fl~~n  114 (764)
T 3p5p_A           83 RLLNTTNSVIALSVWKTGH------------SQVQQGAEFIAEN  114 (764)
T ss_dssp             HHHHHHHHHHHHHHTTCCH------------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccCCH------------HHHHHHHHHHHHH
Confidence            3667888887777644332            1356777777653

>3pya_A ENT-copalyl diphosphate synthase, chloroplastic; class I and II terpene cyclase fold, class II diterpene CYCL DXXDD motif; HET: AG8 1PE; 2.25A {Arabidopsis thaliana} PDB: 3pyb_A*

Probab=90.81  E-value=0.29  Score=47.01  Aligned_cols=96  Identities=16%  Similarity=0.089  Sum_probs=55.1

Q ss_pred             HHHHHHHHHhccc--CCCCccccCCCCCcchHHHHHHHHHHHHhcCC-CcccHHHHHHHHHhcCCCCCCccCCCCCC--C
Q 025813           29 SKSILTSMRNLQQ--HDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW-SGMDRERAKAYILNCQSYDGGFGLTPGSE--S  103 (247)
Q Consensus        29 ~~~~i~~l~~~q~--~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~-~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~--s  103 (247)
                      .+..++-++++-.  .||...+       -+.-|.| |   ++.-.+ ..+.-...++||+.-|.+||+||......  .
T Consensus        11 ~~~~~~~ir~~l~~~~~g~~S~-------S~YDTAW-V---Amvp~~~~~p~Fp~~~~wil~nQ~~DGsWG~~~~~~~~D   79 (727)
T 3pya_A           11 FKEAVKSVKTILRNLTDGEITI-------SAYDTAW-V---ALIDAGDKTPAFPSAVKWIAENQLSDGSWGDAYLFSYHD   79 (727)
T ss_dssp             HHHHHHHHHHHHHTCCSCCCCC-------CHHHHHH-H---HTCBCSSSSBSCHHHHHHHHHTCCTTSCCSCSSSCCHHH
T ss_pred             HHHHHHHHHHHHHhccCCcccC-------cHHHhHH-H---hhccCCCCCCCCHHHHHHHHhcCCCCCCCCCCCCcchhh
Confidence            3556666666533  3454432       1344555 2   223221 22335788999999999999999632111  1


Q ss_pred             ChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhc
Q 025813          104 HGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQR  147 (247)
Q Consensus       104 ~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~  147 (247)
                      -+.+|..||.+|..-+..+            -.+++++.||.+.
T Consensus        80 ~ll~TLAcvlAL~~w~~~~------------~~i~rGl~fl~~n  111 (727)
T 3pya_A           80 RLINTLACVVALRSWNLFP------------HQCNKGITFFREN  111 (727)
T ss_dssp             HHHHHHHHHHHHHHTTCCH------------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccCCH------------HHHHHHHHHHHHH
Confidence            3677888888777643322            1256677777653

---

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	247
d1n4qb_	346	a.102.4.3 (B:) Protein farnesyltransferase, beta-s	2e-81
d1n4qb_	346	a.102.4.3 (B:) Protein farnesyltransferase, beta-s	5e-13
d3dssb1	325	a.102.4.3 (B:7-331) Rab geranylgeranyltransferase,	2e-70
d3dssb1	325	a.102.4.3 (B:7-331) Rab geranylgeranyltransferase,	8e-26
d3dssb1	325	a.102.4.3 (B:7-331) Rab geranylgeranyltransferase,	3e-20
d3dssb1	325	a.102.4.3 (B:7-331) Rab geranylgeranyltransferase,	3e-14
d2h6fb1	401	a.102.4.3 (B:521-921) Protein farnesyltransferase,	1e-66
d2h6fb1	401	a.102.4.3 (B:521-921) Protein farnesyltransferase,	3e-23
d1w6ka2	279	a.102.4.2 (A:100-378) Lanosterol synthase {Human (	6e-05
d2sqca2	271	a.102.4.2 (A:37-307) Squalene-hopene cyclase {Alic	2e-04
d1w6ka1	448	a.102.4.2 (A:6-99,A:379-732) Lanosterol synthase {	7e-04
d2sqca1	352	a.102.4.2 (A:8-36,A:308-630) Squalene-hopene cycla	0.002

>d1n4qb_ a.102.4.3 (B:) Protein farnesyltransferase, beta-subunit {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 346

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Protein prenyltransferases
domain: Protein farnesyltransferase, beta-subunit
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  245 bits (627), Expect = 2e-81
 Identities = 93/238 (39%), Positives = 139/238 (58%), Gaps = 10/238 (4%)

Query: 5   SNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAA 64
            ++A TY  L+ L  +G + + +D ++ L  +R LQ  DGSF  +  G+E D+RFVYCA+
Sbjct: 103 GHIAMTYTGLSCLIILGDDLSRVDKEACLAGLRALQLEDGSFCAVPEGSENDMRFVYCAS 162

Query: 65  AICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDN 124
            IC++L +WSGMD ++A +YI    SYD G     G ESHGG T+C +ASL LMG +E+ 
Sbjct: 163 CICYMLNNWSGMDMKKAISYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKLEEV 222

Query: 125 VLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLID 184
              K       +L  +  WC+ RQ    G+ GR NKP DTCY+FW+G+ L++L  +   +
Sbjct: 223 FSEK-------ELNRIKRWCIMRQ--QNGYHGRPNKPVDTCYSFWVGATLKLLKIFQYTN 273

Query: 185 KEALRGFLLTC-QSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTE 241
            E  R ++L+      GGF K P   PD  H+++G    SL+EE G+  +   L ++ 
Sbjct: 274 FEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGICKVHPALNVST 331

>d1n4qb_ a.102.4.3 (B:) Protein farnesyltransferase, beta-subunit {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 346

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Protein prenyltransferases
domain: Protein farnesyltransferase, beta-subunit
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 65.4 bits (159), Expect = 5e-13
 Identities = 28/206 (13%), Positives = 59/206 (28%), Gaps = 37/206 (17%)

Query: 59  FVYCAAAICFLLEDWSGMDRERAKAYILNCQSYD-------------------------- 92
             + A +   +L+    ++++    +I + Q                             
Sbjct: 33  IAFFALSGLDMLDSLDVVNKDDIIEWIYSLQVLPTEDRSNLDRCGFRGSSYLGIPFNPSK 92

Query: 93  GGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADG 152
                 P    H   TY  ++ L ++G     V  +            L+     Q  DG
Sbjct: 93  NPGTAHPYDSGHIAMTYTGLSCLIILGDDLSRVDKEA----------CLAGLRALQLEDG 142

Query: 153 GFQG-RANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPD 211
            F        +D  + +    +  ML  ++ +D +    ++    S   G  +  G    
Sbjct: 143 SFCAVPEGSENDMRFVYCASCICYMLNNWSGMDMKKAISYIRRSMSYDNGLAQGAGLESH 202

Query: 212 LYHSFYGYTAFSLLEEPGLNPLCAEL 237
              +F G  +  L+ +        EL
Sbjct: 203 GGSTFCGIASLCLMGKLEEVFSEKEL 228

>d3dssb1 a.102.4.3 (B:7-331) Rab geranylgeranyltransferase, beta subunit {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 325

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Protein prenyltransferases
domain: Rab geranylgeranyltransferase, beta subunit
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  217 bits (553), Expect = 2e-70
 Identities = 81/238 (34%), Positives = 123/238 (51%), Gaps = 14/238 (5%)

Query: 5   SNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAA 64
            +L  T  A+ IL  +  +   I+   ++  +++LQ+ DGSF       E D RF +CA 
Sbjct: 87  PHLLYTLSAVQIL-TLYDSIHVINVDKVVAYVQSLQKEDGSFAG-DIWGEIDTRFSFCAV 144

Query: 65  AICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDN 124
           A   LL     ++ E+A  ++L+C ++DGGFG  PGSESH G  YC    L +   +   
Sbjct: 145 ATLALLGKLDAINVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCTGFLAITSQLHQ- 203

Query: 125 VLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLID 184
                     ++  LL  W  +RQ   GG  GR  K  D CY++W+ + L+++G  + ID
Sbjct: 204 ----------VNSDLLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVLASLKIIGRLHWID 253

Query: 185 KEALRGFLLTCQ-SQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMTE 241
           +E LR F+L CQ  + GGF   PGD+ D +H+ +G    SLL E  + P+     M E
Sbjct: 254 REKLRSFILACQDEETGGFADRPGDMVDPFHTLFGIAGLSLLGEEQIKPVSPVFCMPE 311

>d3dssb1 a.102.4.3 (B:7-331) Rab geranylgeranyltransferase, beta subunit {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 325

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Protein prenyltransferases
domain: Rab geranylgeranyltransferase, beta subunit
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  100 bits (251), Expect = 8e-26
 Identities = 45/217 (20%), Positives = 87/217 (40%), Gaps = 13/217 (5%)

Query: 11  YCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLL 70
           Y  L ++  +G     ++ + IL  +++ Q   G       G +  L +   A  I  L 
Sbjct: 45  YWGLTVMDLMG-QLHRMNKEEILVFIKSCQHECGGVSA-SIGHDPHLLYTLSAVQILTLY 102

Query: 71  EDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNT 130
           +    ++ ++  AY+ + Q  DG F      E     ++CAVA+L L+G ++        
Sbjct: 103 DSIHVINVDKVVAYVQSLQKEDGSFAGDIWGEIDTRFSFCAVATLALLGKLDA------- 155

Query: 131 SSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRG 190
               I++   + + L     DGGF  R    S     +     L +    + ++ + L  
Sbjct: 156 ----INVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCTGFLAITSQLHQVNSDLLGW 211

Query: 191 FLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEE 227
           +L   Q   GG    P  LPD+ +S++   +  ++  
Sbjct: 212 WLCERQLPSGGLNGRPEKLPDVCYSWWVLASLKIIGR 248

>d3dssb1 a.102.4.3 (B:7-331) Rab geranylgeranyltransferase, beta subunit {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 325

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Protein prenyltransferases
domain: Rab geranylgeranyltransferase, beta subunit
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 85.4 bits (211), Expect = 3e-20
 Identities = 43/194 (22%), Positives = 75/194 (38%), Gaps = 13/194 (6%)

Query: 39  LQQHDGSFMPIHFGAEKDLR--FVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFG 96
           +  +        +   + LR   VY    +  L+     M++E    +I +CQ   GG  
Sbjct: 21  IASYGSKKDDYEYCMSEYLRMSGVYWGLTVMDLMGQLHRMNKEEILVFIKSCQHECGGVS 80

Query: 97  LTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQG 156
            + G + H   T  AV  L L             S  +I++  ++++    Q  DG F G
Sbjct: 81  ASIGHDPHLLYTLSAVQILTL-----------YDSIHVINVDKVVAYVQSLQKEDGSFAG 129

Query: 157 RANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSF 216
                 DT ++F   + L +LG  + I+ E    F+L+C +  GGFG  PG        +
Sbjct: 130 DIWGEIDTRFSFCAVATLALLGKLDAINVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIY 189

Query: 217 YGYTAFSLLEEPGL 230
                 ++  +   
Sbjct: 190 CCTGFLAITSQLHQ 203

>d3dssb1 a.102.4.3 (B:7-331) Rab geranylgeranyltransferase, beta subunit {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 325

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Protein prenyltransferases
domain: Rab geranylgeranyltransferase, beta subunit
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 68.5 bits (167), Expect = 3e-14
 Identities = 24/152 (15%), Positives = 47/152 (30%), Gaps = 11/152 (7%)

Query: 77  DRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIID 136
             E+   YI +  S    +           G Y  +  + LMG +             ++
Sbjct: 13  LLEKHADYIASYGSKKDDYEYCMSEYLRMSGVYWGLTVMDLMGQLHR-----------MN 61

Query: 137 LPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQ 196
              +L +    Q   GG            Y      +L +    ++I+ + +  ++ + Q
Sbjct: 62  KEEILVFIKSCQHECGGVSASIGHDPHLLYTLSAVQILTLYDSIHVINVDKVVAYVQSLQ 121

Query: 197 SQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEP 228
            + G F        D   SF      +LL + 
Sbjct: 122 KEDGSFAGDIWGEIDTRFSFCAVATLALLGKL 153

>d2h6fb1 a.102.4.3 (B:521-921) Protein farnesyltransferase, beta-subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 401

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Protein prenyltransferases
domain: Protein farnesyltransferase, beta-subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  209 bits (533), Expect = 1e-66
 Identities = 77/249 (30%), Positives = 120/249 (48%), Gaps = 29/249 (11%)

Query: 5   SNLASTYCALAILKAVGYNFA--NIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYC 62
            +LA TY A+  L  +G   A   I+ + +L  + +L+Q DG    +H G E D+R  YC
Sbjct: 128 PHLAPTYAAVNALCIIGTEEAYDIINREKLLQYLYSLKQPDG-SFLMHVGGEVDVRSAYC 186

Query: 63  AAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIE 122
           AA++  L    +    E    +I  CQ+++GG G  PG E+HGG T+C +A+L ++    
Sbjct: 187 AASVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILK--- 243

Query: 123 DNVLSKNTSSSIIDLPLLLSWCLQRQ-AADGGFQGRANKPSDTCYAFWIGSVLRMLG--- 178
                       ++L  LL W   RQ   +GGFQGR NK  D CY+FW   +L +L    
Sbjct: 244 --------RERSLNLKSLLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRAL 295

Query: 179 ----------GYNLIDKEALRGFLL-TCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEE 227
                      + +  ++AL+ ++L  CQ   GG    PG   D YH+ Y  +  S+ + 
Sbjct: 296 HAQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQH 355

Query: 228 PGLNPLCAE 236
            G   +  +
Sbjct: 356 FGSGAMLHD 364

>d2h6fb1 a.102.4.3 (B:521-921) Protein farnesyltransferase, beta-subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 401

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Protein prenyltransferases
domain: Protein farnesyltransferase, beta-subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 94.7 bits (235), Expect = 3e-23
 Identities = 41/170 (24%), Positives = 64/170 (37%), Gaps = 8/170 (4%)

Query: 61  YCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGF 120
           +   ++  L E    +       ++  CQS +GGFG  PG   H   TY AV +L ++G 
Sbjct: 86  WILHSLELLDEPIPQIVATDVCQFLELCQSPEGGFGGGPGQYPHLAPTYAAVNALCIIG- 144

Query: 121 IEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGY 180
                     +  II+   LL +    +  DG F        D   A+   SV  +    
Sbjct: 145 -------TEEAYDIINREKLLQYLYSLKQPDGSFLMHVGGEVDVRSAYCAASVASLTNII 197

Query: 181 NLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL 230
                E    ++  CQ+  GG G  PG      ++F G  A  +L+    
Sbjct: 198 TPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILKRERS 247

>d1w6ka2 a.102.4.2 (A:100-378) Lanosterol synthase {Human (Homo sapiens) [TaxId: 9606]} Length = 279

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Terpene synthases
domain: Lanosterol synthase
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.0 bits (96), Expect = 6e-05
 Identities = 17/47 (36%), Positives = 24/47 (51%)

Query: 78  RERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDN 124
           RE    Y+ + Q  DGG+GL    +S   GT     SLR++G   D+
Sbjct: 25  REEIVRYLRSVQLPDGGWGLHIEDKSTVFGTALNYVSLRILGVGPDD 71

>d2sqca2 a.102.4.2 (A:37-307) Squalene-hopene cyclase {Alicyclobacillus acidocaldarius [TaxId: 405212]} Length = 271

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Terpene synthases
domain: Squalene-hopene cyclase
species: Alicyclobacillus acidocaldarius [TaxId: 405212]

 Score = 39.2 bits (91), Expect = 2e-04
 Identities = 13/42 (30%), Positives = 21/42 (50%)

Query: 78  RERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMG 119
            E+ + Y+L+ Q  DG + L PG       T  A  +L+ +G
Sbjct: 25  MEKIRRYLLHEQREDGTWALYPGGPPDLDTTIEAYVALKYIG 66

>d1w6ka1 a.102.4.2 (A:6-99,A:379-732) Lanosterol synthase {Human (Homo sapiens) [TaxId: 9606]} Length = 448

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Terpene synthases
domain: Lanosterol synthase
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (88), Expect = 7e-04
 Identities = 27/133 (20%), Positives = 42/133 (31%), Gaps = 17/133 (12%)

Query: 80  RAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPL 139
           +   +    Q  DG +  + G      GT+  + +   MG    +  +         +  
Sbjct: 278 QGLEFCRRQQRADGSWEGSWG-VCFTYGTWFGLEAFACMGQTYRDGTACAE------VSR 330

Query: 140 LLSWCLQRQAADGGFQGRANKPSDTCYAFWIGS-------VLRMLGGYNLIDKEAL-RG- 190
              + L RQ ADGG+        +  Y     S        +  L      D EA  RG 
Sbjct: 331 ACDFLLSRQMADGGWGEDFESCEERRYVQSAQSQIHNTCWAMMGLMAVRHPDIEAQERGV 390

Query: 191 -FLLTCQSQYGGF 202
             LL  Q   G +
Sbjct: 391 RCLLEKQLPNGDW 403

>d2sqca1 a.102.4.2 (A:8-36,A:308-630) Squalene-hopene cyclase {Alicyclobacillus acidocaldarius [TaxId: 405212]} Length = 352

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Terpene synthases
domain: Squalene-hopene cyclase
species: Alicyclobacillus acidocaldarius [TaxId: 405212]

 Score = 36.3 bits (83), Expect = 0.002
 Identities = 38/204 (18%), Positives = 60/204 (29%), Gaps = 27/204 (13%)

Query: 15  AILKAVGY--NFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLED 72
           A+ K   +     + +       + N            FG   D       A +      
Sbjct: 121 AMTKGFRWIVGMQSSNGGWGAYDVDNTSDLPNHIPFSDFGEVTDPPSEDVTAHVLECFGS 180

Query: 73  WSGMDRERAK----AYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSK 128
           +   D  +       Y+   Q  DG +    G  ++  GT   V++L+ +G        +
Sbjct: 181 FGYDDAWKVIRRAVEYLKREQKPDGSWFGRWG-VNYLYGTGAVVSALKAVGIDTREPYIQ 239

Query: 129 NTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGS-------VLRMLGGYN 181
                       L W  Q Q  DGG+        D  YA    S        L  L    
Sbjct: 240 K----------ALDWVEQHQNPDGGWGEDCRSYEDPAYAGKGASTPSQTAWALMALIAGG 289

Query: 182 LIDKEALR---GFLLTCQSQYGGF 202
             + EA R    +L+  Q   GG+
Sbjct: 290 RAESEAARRGVQYLVETQRPDGGW 313

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	247
d1n4qb_	346	Protein farnesyltransferase, beta-subunit {Rat (Ra	100.0
d3dssb1	325	Rab geranylgeranyltransferase, beta subunit {Rat (	100.0
d2h6fb1	401	Protein farnesyltransferase, beta-subunit {Human (	100.0
d3dssb1	325	Rab geranylgeranyltransferase, beta subunit {Rat (	100.0
d2h6fb1	401	Protein farnesyltransferase, beta-subunit {Human (	100.0
d1n4qb_	346	Protein farnesyltransferase, beta-subunit {Rat (Ra	100.0
d2sqca1	352	Squalene-hopene cyclase {Alicyclobacillus acidocal	99.88
d1w6ka1	448	Lanosterol synthase {Human (Homo sapiens) [TaxId:	99.87
d2sqca1	352	Squalene-hopene cyclase {Alicyclobacillus acidocal	99.86
d1w6ka1	448	Lanosterol synthase {Human (Homo sapiens) [TaxId:	99.81
d2sqca2	271	Squalene-hopene cyclase {Alicyclobacillus acidocal	99.5
d2sqca2	271	Squalene-hopene cyclase {Alicyclobacillus acidocal	98.82
d1r76a_	408	Polygalacturonic acid lyase (pectate lyase) {Azosp	98.72
d1hzfa_	326	C4adg fragment of complement factor C4a {Human (Ho	98.65
d1c3da_	294	C3D, a C3 fragment and ligand for complement recep	98.49
d1w6ka2	279	Lanosterol synthase {Human (Homo sapiens) [TaxId:	98.4
d1gxma_	324	Polygalacturonic acid lyase (pectate lyase) {Cellv	98.39
d1w6ka2	279	Lanosterol synthase {Human (Homo sapiens) [TaxId:	98.13
d1r76a_	408	Polygalacturonic acid lyase (pectate lyase) {Azosp	98.04
d1hzfa_	326	C4adg fragment of complement factor C4a {Human (Ho	97.94
d1gxma_	324	Polygalacturonic acid lyase (pectate lyase) {Cellv	97.75
d1c3da_	294	C3D, a C3 fragment and ligand for complement recep	96.94

>d1n4qb_ a.102.4.3 (B:) Protein farnesyltransferase, beta-subunit {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Protein prenyltransferases
domain: Protein farnesyltransferase, beta-subunit
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=2.2e-56  Score=393.64  Aligned_cols=232  Identities=41%  Similarity=0.819  Sum_probs=215.3

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHHH
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERA   81 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~~   81 (247)
                      ++.+|++.||+|+++|.+++.+++.+||+++++||.++|++||+|...+.++++|+|.+|+|++++.+|+..+.++++++
T Consensus       100 ~~~~hl~~Ty~Al~~L~~lg~~~~~idr~~i~~~l~~lq~~DGsF~~~~~gge~D~R~tY~A~~i~~lL~~~~~~~~~~~  179 (346)
T d1n4qb_         100 YDSGHIAMTYTGLSCLIILGDDLSRVDKEACLAGLRALQLEDGSFCAVPEGSENDMRFVYCASCICYMLNNWSGMDMKKA  179 (346)
T ss_dssp             TCCCCHHHHHHHHHHHHHTTCCSTTSCHHHHHHHHHHHBCTTSCBCSSTTCCCCBHHHHHHHHHHHHHTTCGGGSCHHHH
T ss_pred             cchhHHHHHHHHHHHHHHhchHhhHhHHHHHHHHHHHhcCCCCCccccCCCCcchHHHHHHHHHHHHHhCCCccccHHHH
Confidence            47899999999999999999878889999999999999999999976666689999999999999999998888899999


Q ss_pred             HHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCC
Q 025813           82 KAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKP  161 (247)
Q Consensus        82 ~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~  161 (247)
                      ++||++||+.||||+..|+.|+|..+|||||++|.++++.+.-.       +..+++++++||.++|  +|||+||++|.
T Consensus       180 ~~~I~scq~~DGGfg~~p~~EsHgg~TfCavasL~ll~~~~~~~-------~~~~~~~l~~WL~~Rq--~gGf~GR~nK~  250 (346)
T d1n4qb_         180 ISYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKLEEVF-------SEKELNRIKRWCIMRQ--QNGYHGRPNKP  250 (346)
T ss_dssp             HHHHHHTBCTTSSBBSSTTSCBCHHHHHHHHHHHHHHTCHHHHS-------CHHHHHHHHHHHHTTB--SSSBCSSTTSC
T ss_pred             HHHHHHhcCcCCCccCCCCCCccHHHHHHHHHHHHHhccccccc-------chhhHHHHHHHHHhcc--cCCcCCCCCCc
Confidence            99999999999999999999999999999999999999874210       1236789999999998  79999999999


Q ss_pred             CchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCC-CCCCcCCCCCCCccHHHHHHHHHHHHhcCCCCCCCCCcccccc
Q 025813          162 SDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQS-QYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMT  240 (247)
Q Consensus       162 ~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~-~~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~~~~~~~~~~~  240 (247)
                      +|+||+||+.++|.+|+....+|.+++.+||+.||+ ..|||++.|++.||++|||+++++|+++++.++.++||.+|+|
T Consensus       251 ~D~CYs~W~~~~l~iL~~~~~~d~~~l~~yil~~~q~~~GGf~~~p~~~pD~~HT~~~l~gLsl~~~~~l~~~~p~~~i~  330 (346)
T d1n4qb_         251 VDTCYSFWVGATLKLLKIFQYTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGICKVHPALNVS  330 (346)
T ss_dssp             CCTTHHHHHHHHHHHTTCGGGSCHHHHHHHHHTTBCTTTCSBCSSTTSCCBHHHHHHHHHHHHHTTCTTCCCEETTTTEE
T ss_pred             cchHHHHHHHHHHHHcccccccCHHHHHHHHHHHcCCCCCCcCCCCCCCCcHHHHHHHHHHHHHcCCCCCcCcCCccCCC
Confidence            999999999999999998888999999999988865 6899999999999999999999999999999999999999999


Q ss_pred             cc
Q 025813          241 EF  242 (247)
Q Consensus       241 ~~  242 (247)
                      +-
T Consensus       331 ~~  332 (346)
T d1n4qb_         331 TR  332 (346)
T ss_dssp             HH
T ss_pred             HH
Confidence            73

>d3dssb1 a.102.4.3 (B:7-331) Rab geranylgeranyltransferase, beta subunit {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Protein prenyltransferases
domain: Rab geranylgeranyltransferase, beta subunit
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=4.8e-54  Score=378.46  Aligned_cols=227  Identities=36%  Similarity=0.698  Sum_probs=214.1

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHHH
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERA   81 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~~   81 (247)
                      .+.+|+..||+|+.+|.+++ .++.++++++++||+++|+|||+|...+ ++++|++.||+|+.++.+++..+.++.+++
T Consensus        84 ~~~~~l~~T~~al~~L~l~~-~~~~~dr~~i~~~L~s~Q~~DGsf~~~~-~~e~D~r~ty~Al~~l~ll~~~~~~~~~~~  161 (325)
T d3dssb1          84 GHDPHLLYTLSAVQILTLYD-SIHVINVDKVVAYVQSLQKEDGSFAGDI-WGEIDTRFSFCAVATLALLGKLDAINVEKA  161 (325)
T ss_dssp             TSCBCHHHHHHHHHHHHHTT-CGGGSCHHHHHHHHHHTBCTTSCBBSST-TCCBCHHHHHHHHHHHHHHTCGGGSCHHHH
T ss_pred             CCcccHHHHHHHHHHHHhhc-cccccCHHHHHHHHHHhhCcCCCCccCC-CCCccHHHHHHHHHHHHHcCCCchhhHHHH
Confidence            35799999999999999998 4667899999999999999999998655 489999999999999999998778899999


Q ss_pred             HHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCC
Q 025813           82 KAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKP  161 (247)
Q Consensus        82 ~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~  161 (247)
                      ++||++||++||||+..|+.|+|+..||||+++|.+++..+           .++++++++||.++|.++|||+||++|.
T Consensus       162 ~~~i~scQn~DGGfg~~p~~Esh~g~T~cavasL~ll~~l~-----------~~~~~~l~~wL~~rQ~~~GGf~GR~~K~  230 (325)
T d3dssb1         162 IEFVLSCMNFDGGFGCRPGSESHAGQIYCCTGFLAITSQLH-----------QVNSDLLGWWLCERQLPSGGLNGRPEKL  230 (325)
T ss_dssp             HHHHHTTBCTTSCBCSSTTCCCCHHHHHHHHHHHHHTTCGG-----------GSCHHHHHHHHHTTBCTTSCBCSSTTCC
T ss_pred             HHHHHHhcCCcCCccccCCCCCCcchhHHHHHHHHHhcccc-----------cccHHHHHHHHHHhCCCCCCcCCCCCCC
Confidence            99999999999999999999999999999999999999875           5689999999999999999999999999


Q ss_pred             CchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcC-CCCCCcCCCCCCCccHHHHHHHHHHHHhcCCCCCCCCCcccccc
Q 025813          162 SDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQ-SQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLNPLCAELGMT  240 (247)
Q Consensus       162 ~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q-~~~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~~~~~~~~~~~  240 (247)
                      +|+||+||++++|.+|+....+|.+++.+||+.|| ...|||++.|++.||++||||++++|+++++..+.++||.+|+|
T Consensus       231 ~D~cys~W~~~~l~~L~~~~~~d~~~l~~yil~~~q~~~GGf~~~p~~~pD~~HT~y~l~gLsl~~~~~l~~~~p~~~i~  310 (325)
T d3dssb1         231 PDVCYSWWVLASLKIIGRLHWIDREKLRSFILACQDEETGGFADRPGDMVDPFHTLFGIAGLSLLGEEQIKPVSPVFCMP  310 (325)
T ss_dssp             CCHHHHHHHHHHHHHTTCGGGSCHHHHHHHHHHTBCTTTCCBCSSTTSCCBHHHHHHHHHHHHHTTCTTSCCBCTTTSSB
T ss_pred             CchHHHHHHHHHHHHcCccccccHHHHHHHHHHHcCCCCCCcCCCCCCCCChHHHHHHHHHHHHCCCCCCCCCCCcccCC
Confidence            99999999999999999988899999999999996 45799999999999999999999999999999999999999999


Q ss_pred             c
Q 025813          241 E  241 (247)
Q Consensus       241 ~  241 (247)
                      +
T Consensus       311 ~  311 (325)
T d3dssb1         311 E  311 (325)
T ss_dssp             H
T ss_pred             H
Confidence            6

>d2h6fb1 a.102.4.3 (B:521-921) Protein farnesyltransferase, beta-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Protein prenyltransferases
domain: Protein farnesyltransferase, beta-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.7e-53  Score=380.34  Aligned_cols=228  Identities=34%  Similarity=0.624  Sum_probs=210.3

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCC--CCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHH
Q 025813            2 HNGSNLASTYCALAILKAVGYN--FANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRE   79 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~--~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~   79 (247)
                      .+.||+..||+|+++|.++|.+  ++.+||+++++||.++|+|||+|...+ ++++|+|.+|||+.++.+|+....++.+
T Consensus       125 g~~~hla~Ty~Al~~L~ilg~~~~~~~idR~~i~~fL~slQ~pDGsF~~~~-~ge~D~R~~Y~Av~i~~lL~~~~~~~~~  203 (401)
T d2h6fb1         125 GQYPHLAPTYAAVNALCIIGTEEAYDIINREKLLQYLYSLKQPDGSFLMHV-GGEVDVRSAYCAASVASLTNIITPDLFE  203 (401)
T ss_dssp             TCCBCHHHHHHHHHHHHHHCCHHHHTTSCHHHHHHHHHTTBCTTSCBBSST-TCCBSHHHHHHHHHHHHHTTCCCTTTTT
T ss_pred             CCCcchHHHHHHHHHHHHcCCccccchhhHHHHHHHHHHhcCCCCCccccc-cCCcccchhHHHHHHHHHhCCCCHHHHH
Confidence            4679999999999999999964  567899999999999999999998644 5899999999999999999988888899


Q ss_pred             HHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCC-CCcccccc
Q 025813           80 RAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAA-DGGFQGRA  158 (247)
Q Consensus        80 ~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~-dGgf~~~~  158 (247)
                      ++++||++||+.||||+..|+.|+|..+|||||++|.++|..+           .+|++++++||.++|.+ +|||+||+
T Consensus       204 ~~~~~I~scQ~~dGGfg~~pg~EaHgg~TfCalAaL~lL~~~~-----------~~d~~~l~~WL~~RQ~~~eGGF~GR~  272 (401)
T d2h6fb1         204 GTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILKRER-----------SLNLKSLLQWVTSRQMRFEGGFQGRC  272 (401)
T ss_dssp             THHHHHHHHBCTTSSBCSSTTSCCCHHHHHHHHHHHHHHTCGG-----------GSCHHHHHHHHHHTBCTTTCSBBSST
T ss_pred             HHHHHHHHccCCCCCccCCCCCCcchhHHHHHHHHHHHhCCCc-----------ccCHHHHHHHHHHcCCCCCCccCCCC
Confidence            9999999999999999999999999999999999999999876           57899999999999966 89999999


Q ss_pred             CCCCchhhHHHHHHHHHHhcCC-------------CCCCHHHHHHHHHh-cCCCCCCcCCCCCCCccHHHHHHHHHHHHh
Q 025813          159 NKPSDTCYAFWIGSVLRMLGGY-------------NLIDKEALRGFLLT-CQSQYGGFGKCPGDLPDLYHSFYGYTAFSL  224 (247)
Q Consensus       159 ~~~~D~~~~y~a~~~L~lL~~~-------------~~~~~~~~~~~L~~-~Q~~~GGf~~~p~~~~d~~~T~~al~~L~l  224 (247)
                      +|.+|+||+||+.++|.+|+..             .++|.+++.+||+. ||+.+|||++.|++.||++||||++++|++
T Consensus       273 nKlvD~CYSfW~ga~l~lL~~~~~~~~~~~~~~~~~l~d~~~l~~yiL~~~Q~~~GGf~d~Pg~~pD~yHT~y~L~gLSl  352 (401)
T d2h6fb1         273 NKLVDGCYSFWQAGLLPLLHRALHAQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSI  352 (401)
T ss_dssp             TSCBCTTHHHHTTTHHHHHHHHHHHTTCTTCCSSCCSSCHHHHHHHHHHHSBCTTSCBCSSTTSCCCHHHHHHHHHHHHH
T ss_pred             CCCcchHHHHHHHHHHHHHHHHhhccccccccccccccCHHHHHHHHHHHcCCCCCCcCCCCCCCCCccHHHHHHHHHHh
Confidence            9999999999999999999741             25789999999876 588999999999999999999999999999


Q ss_pred             cCCC----------------CCCCCCccccccc
Q 025813          225 LEEP----------------GLNPLCAELGMTE  241 (247)
Q Consensus       225 l~~~----------------~~~~~~~~~~~~~  241 (247)
                      +++.                .+.+++|.++||+
T Consensus       353 ~~~~~~~~~~~~~~~~~~~~~l~~~~P~~~i~~  385 (401)
T d2h6fb1         353 AQHFGSGAMLHDVVLGVPENALQPTHPVYNIGP  385 (401)
T ss_dssp             HHEEEETTEEEECCCSSGGGCCCCCCTTTSSCH
T ss_pred             cCCcCccCcccccccCCcccccccCCCcccCCH
Confidence            9853                4789999999996

>d3dssb1 a.102.4.3 (B:7-331) Rab geranylgeranyltransferase, beta subunit {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Protein prenyltransferases
domain: Rab geranylgeranyltransferase, beta subunit
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=4.1e-44  Score=314.87  Aligned_cols=217  Identities=21%  Similarity=0.344  Sum_probs=202.7

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCCCcccHHHH
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDWSGMDRERA   81 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~~~~~~~~~   81 (247)
                      +|..+|+..||++.+|++||+ ++..+++++++||+++|++||||...+ +..+++..||+++.+|.+++..+.++++++
T Consensus        36 ~d~~r~~~~yw~l~sL~lLg~-l~~~~~~~~i~~L~s~Q~~dGGf~g~~-~~~~~l~~T~~al~~L~l~~~~~~~dr~~i  113 (325)
T d3dssb1          36 SEYLRMSGVYWGLTVMDLMGQ-LHRMNKEEILVFIKSCQHECGGVSASI-GHDPHLLYTLSAVQILTLYDSIHVINVDKV  113 (325)
T ss_dssp             GGGGHHHHHHHHHHHHHHTTC-GGGSCHHHHHHHHHHTBCTTSCBBSST-TSCBCHHHHHHHHHHHHHTTCGGGSCHHHH
T ss_pred             hhhhHHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHhcCCCCCcCCCC-CCcccHHHHHHHHHHHHhhccccccCHHHH
Confidence            567789999999999999994 566789999999999999999998754 478899999999999999988778899999


Q ss_pred             HHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCC
Q 025813           82 KAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKP  161 (247)
Q Consensus        82 ~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~  161 (247)
                      ++||+++|++||||...++.+++++.||+|+.++.+++..+           .++++++++||+++|+.||||+..|+.|
T Consensus       114 ~~~L~s~Q~~DGsf~~~~~~e~D~r~ty~Al~~l~ll~~~~-----------~~~~~~~~~~i~scQn~DGGfg~~p~~E  182 (325)
T d3dssb1         114 VAYVQSLQKEDGSFAGDIWGEIDTRFSFCAVATLALLGKLD-----------AINVEKAIEFVLSCMNFDGGFGCRPGSE  182 (325)
T ss_dssp             HHHHHHTBCTTSCBBSSTTCCBCHHHHHHHHHHHHHHTCGG-----------GSCHHHHHHHHHTTBCTTSCBCSSTTCC
T ss_pred             HHHHHHhhCcCCCCccCCCCCccHHHHHHHHHHHHHcCCCc-----------hhhHHHHHHHHHHhcCCcCCccccCCCC
Confidence            99999999999999999999999999999999999999765           4689999999999999999999999999


Q ss_pred             CchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHHhcCCCCCC
Q 025813          162 SDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGLN  231 (247)
Q Consensus       162 ~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~~  231 (247)
                      +|..+|||++++|.+++..+.++.+++++||.++|..+|||++||+|.+|+|+|||++++|.++++....
T Consensus       183 sh~g~T~cavasL~ll~~l~~~~~~~l~~wL~~rQ~~~GGf~GR~~K~~D~cys~W~~~~l~~L~~~~~~  252 (325)
T d3dssb1         183 SHAGQIYCCTGFLAITSQLHQVNSDLLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVLASLKIIGRLHWI  252 (325)
T ss_dssp             CCHHHHHHHHHHHHHTTCGGGSCHHHHHHHHHTTBCTTSCBCSSTTCCCCHHHHHHHHHHHHHTTCGGGS
T ss_pred             CCcchhHHHHHHHHHhcccccccHHHHHHHHHHhCCCCCCcCCCCCCCCchHHHHHHHHHHHHcCccccc
Confidence            9999999999999999988788999999999999999999999999999999999999999999986553

>d2h6fb1 a.102.4.3 (B:521-921) Protein farnesyltransferase, beta-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Protein prenyltransferases
domain: Protein farnesyltransferase, beta-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.3e-43  Score=317.30  Aligned_cols=217  Identities=21%  Similarity=0.245  Sum_probs=200.1

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcC---CCcccH
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLED---WSGMDR   78 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~---~~~~~~   78 (247)
                      .|.++++..||++.+|.+||.+++...++++++||+++|++||||...+ +..+++..||+|+.+|.++|.   .+.+++
T Consensus        76 lD~~r~~l~yw~l~~L~LL~~~~~~~~~~~ii~~l~~~q~~~GGF~g~p-g~~~hla~Ty~Al~~L~ilg~~~~~~~idR  154 (401)
T d2h6fb1          76 LDASRPWLCYWILHSLELLDEPIPQIVATDVCQFLELCQSPEGGFGGGP-GQYPHLAPTYAAVNALCIIGTEEAYDIINR  154 (401)
T ss_dssp             GTTCHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHBCTTSSBBSST-TCCBCHHHHHHHHHHHHHHCCHHHHTTSCH
T ss_pred             cccccHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHHHcCCCCCcCCCC-CCCcchHHHHHHHHHHHHcCCccccchhhH
Confidence            3778999999999999999976666668899999999999999999765 478999999999999999985   356789


Q ss_pred             HHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCcccccc
Q 025813           79 ERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRA  158 (247)
Q Consensus        79 ~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~  158 (247)
                      +++++||+++|++||||...++.++|++.||||++++.+++..+           ..+++++++||++||+.||||++.|
T Consensus       155 ~~i~~fL~slQ~pDGsF~~~~~ge~D~R~~Y~Av~i~~lL~~~~-----------~~~~~~~~~~I~scQ~~dGGfg~~p  223 (401)
T d2h6fb1         155 EKLLQYLYSLKQPDGSFLMHVGGEVDVRSAYCAASVASLTNIIT-----------PDLFEGTAEWIARCQNWEGGIGGVP  223 (401)
T ss_dssp             HHHHHHHHTTBCTTSCBBSSTTCCBSHHHHHHHHHHHHHTTCCC-----------TTTTTTHHHHHHHHBCTTSSBCSST
T ss_pred             HHHHHHHHHhcCCCCCccccccCCcccchhHHHHHHHHHhCCCC-----------HHHHHHHHHHHHHccCCCCCccCCC
Confidence            99999999999999999999999999999999999999999865           3567889999999999999999999


Q ss_pred             CCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCC-CCCcCCCCCCCccHHHHHHHHHHHHhcCCCCC
Q 025813          159 NKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQ-YGGFGKCPGDLPDLYHSFYGYTAFSLLEEPGL  230 (247)
Q Consensus       159 ~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~-~GGf~~~p~~~~d~~~T~~al~~L~ll~~~~~  230 (247)
                      +.|+|..||||++++|.+|+..+.++++++++||.++|.. +|||.+||+|.+|.||+||..++|.++++...
T Consensus       224 g~EaHgg~TfCalAaL~lL~~~~~~d~~~l~~WL~~RQ~~~eGGF~GR~nKlvD~CYSfW~ga~l~lL~~~~~  296 (401)
T d2h6fb1         224 GMEAHGGYTFCGLAALVILKRERSLNLKSLLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALH  296 (401)
T ss_dssp             TSCCCHHHHHHHHHHHHHHTCGGGSCHHHHHHHHHHTBCTTTCSBBSSTTSCBCTTHHHHTTTHHHHHHHHHH
T ss_pred             CCCcchhHHHHHHHHHHHhCCCcccCHHHHHHHHHHcCCCCCCccCCCCCCCcchHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999998889999999999999965 89999999999999999999999999987543

>d1n4qb_ a.102.4.3 (B:) Protein farnesyltransferase, beta-subunit {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Protein prenyltransferases
domain: Protein farnesyltransferase, beta-subunit
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=4.8e-39  Score=282.62  Aligned_cols=216  Identities=20%  Similarity=0.236  Sum_probs=188.7

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCC---------CccccC----------------CCCCcc
Q 025813            2 HNGSNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDG---------SFMPIH----------------FGAEKD   56 (247)
Q Consensus         2 ~~~~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dG---------gf~~~~----------------~~~~~d   56 (247)
                      .|.++++..||++.+|.+||. ++..+++++++||+++|.+++         +|....                .+..++
T Consensus        26 ~D~~R~~~~Yw~l~sL~lL~~-l~~~~~~~~i~~l~~~q~~~~~~~~~~~~~gf~gs~~~~~~~~~~~~~~~~~~~~~~h  104 (346)
T d1n4qb_          26 LETSRLTIAFFALSGLDMLDS-LDVVNKDDIIEWIYSLQVLPTEDRSNLDRCGFRGSSYLGIPFNPSKNPGTAHPYDSGH  104 (346)
T ss_dssp             GGGGHHHHHHHHHHHHHHTTC-GGGSCHHHHHHHHHTTEECCCTTCTTGGGCEECSSSTTCCCCCSSCSCCCCCTTCCCC
T ss_pred             HHhhhHHHHHHHHHHHHHcCC-CccccHHHHHHHHHHHhccccccccCccccCccCcccccCCCCcccCCCCCCccchhH
Confidence            467899999999999999994 566689999999999996543         342211                123579


Q ss_pred             hHHHHHHHHHHHHhcC-CCcccHHHHHHHHHhcCCCCCCccCCC-CCCCChhhHHHHHHHHHHhCCccccccccCCCCCC
Q 025813           57 LRFVYCAAAICFLLED-WSGMDRERAKAYILNCQSYDGGFGLTP-GSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSI  134 (247)
Q Consensus        57 ~~~ty~al~~l~ll~~-~~~~~~~~~~~~l~~~Q~~dGGFg~~p-~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~  134 (247)
                      +..||+|+.+|.+++. .+.++++++.+||.++|++||||...+ +.|+|++.||||++++.+++..+           .
T Consensus       105 l~~Ty~Al~~L~~lg~~~~~idr~~i~~~l~~lq~~DGsF~~~~~gge~D~R~tY~A~~i~~lL~~~~-----------~  173 (346)
T d1n4qb_         105 IAMTYTGLSCLIILGDDLSRVDKEACLAGLRALQLEDGSFCAVPEGSENDMRFVYCASCICYMLNNWS-----------G  173 (346)
T ss_dssp             HHHHHHHHHHHHHTTCCSTTSCHHHHHHHHHHHBCTTSCBCSSTTCCCCBHHHHHHHHHHHHHTTCGG-----------G
T ss_pred             HHHHHHHHHHHHHhchHhhHhHHHHHHHHHHHhcCCCCCccccCCCCcchHHHHHHHHHHHHHhCCCc-----------c
Confidence            9999999999999985 467899999999999999999998655 57999999999999999999865           5


Q ss_pred             CCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCCCCC----CHHHHHHHHHhcCCCCCCcCCCCCCCc
Q 025813          135 IDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNLI----DKEALRGFLLTCQSQYGGFGKCPGDLP  210 (247)
Q Consensus       135 ~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~~~~----~~~~~~~~L~~~Q~~~GGf~~~p~~~~  210 (247)
                      ++++++++||++||+.||||+..|+.|+|..||||++++|++|++.+.+    +.+++++||...|  +|||.+||+|.+
T Consensus       174 ~~~~~~~~~I~scq~~DGGfg~~p~~EsHgg~TfCavasL~ll~~~~~~~~~~~~~~l~~WL~~Rq--~gGf~GR~nK~~  251 (346)
T d1n4qb_         174 MDMKKAISYIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKLEEVFSEKELNRIKRWCIMRQ--QNGYHGRPNKPV  251 (346)
T ss_dssp             SCHHHHHHHHHHTBCTTSSBBSSTTSCBCHHHHHHHHHHHHHHTCHHHHSCHHHHHHHHHHHHTTB--SSSBCSSTTSCC
T ss_pred             ccHHHHHHHHHHhcCcCCCccCCCCCCccHHHHHHHHHHHHHhcccccccchhhHHHHHHHHHhcc--cCCcCCCCCCcc
Confidence            6899999999999999999999999999999999999999999975333    6789999999888  899999999999


Q ss_pred             cHHHHHHHHHHHHhcCCCCCC
Q 025813          211 DLYHSFYGYTAFSLLEEPGLN  231 (247)
Q Consensus       211 d~~~T~~al~~L~ll~~~~~~  231 (247)
                      |.||+||..++|.+++.....
T Consensus       252 D~CYs~W~~~~l~iL~~~~~~  272 (346)
T d1n4qb_         252 DTCYSFWVGATLKLLKIFQYT  272 (346)
T ss_dssp             CTTHHHHHHHHHHHTTCGGGS
T ss_pred             chHHHHHHHHHHHHccccccc
Confidence            999999999999999976543

>d2sqca1 a.102.4.2 (A:8-36,A:308-630) Squalene-hopene cyclase {Alicyclobacillus acidocaldarius [TaxId: 405212]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Terpene synthases
domain: Squalene-hopene cyclase
species: Alicyclobacillus acidocaldarius [TaxId: 405212]

Probab=99.88  E-value=1.4e-21  Score=172.36  Aligned_cols=214  Identities=15%  Similarity=0.038  Sum_probs=152.8

Q ss_pred             CcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhccc-------------CCCCccccC-CCCCcchHHHHHHHHHHHHh
Q 025813            5 SNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQ-------------HDGSFMPIH-FGAEKDLRFVYCAAAICFLL   70 (247)
Q Consensus         5 ~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~-------------~dGgf~~~~-~~~~~d~~~ty~al~~l~ll   70 (247)
                      +.|+.|-+++++|..-|...+.....|+++||.++|.             +.|||.... ..+.++...|..++.+|..+
T Consensus        31 s~vwdTala~~Al~eaG~~~~~~~l~ka~~~L~~~Q~~~~gd~~~~~~~~~~Ggw~~s~~~~~~p~~d~Ta~~l~aL~~~  110 (352)
T d2sqca1          31 SPVWDTGLAVLALRAAGLPADHDRLVKAGEWLLDRQITVPGDWAVKRPNLKPGGFAFQFDNVYYPDVCDTAVVVWALNTL  110 (352)
T ss_dssp             CHHHHHHHHHHHHHHTTCCTTCHHHHHHHHHHHHTCCCSCCGGGGTCTTSCCCCBCSSSSCTTCCBHHHHHHHHHHHTTC
T ss_pred             CcHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHHHhcCCCCCChhhhcCCCCCCccccccCCCCCCccccHHHHHHhhhhh
Confidence            4578899999998877753222335789999999883             236664321 12346777777777666666


Q ss_pred             cCCCc----ccHHHHHHHHHhcCCCCCCccCCCC-------------------CCCChhhHHHHHHHHHHhCCccccccc
Q 025813           71 EDWSG----MDRERAKAYILNCQSYDGGFGLTPG-------------------SESHGGGTYCAVASLRLMGFIEDNVLS  127 (247)
Q Consensus        71 ~~~~~----~~~~~~~~~l~~~Q~~dGGFg~~p~-------------------~~s~~~~T~~al~~L~~lg~~~~~~~~  127 (247)
                      ...+.    ..++++++||+++||+||||+....                   ..+....|..++.+|...+....    
T Consensus       111 ~~~~~~~~~~ai~~av~~Lls~Qn~dGGw~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~T~~~l~al~~~g~~~~----  186 (352)
T d2sqca1         111 RLPDERRRRDAMTKGFRWIVGMQSSNGGWGAYDVDNTSDLPNHIPFSDFGEVTDPPSEDVTAHVLECFGSFGYDDA----  186 (352)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHTCCTTSCBCSSCSSCCCSGGGGSTTCSSSCSSCCCBHHHHHHHHHHHHTTTCCTT----
T ss_pred             cCCchhhHHHHHHHHHHHHHHhhcCCCCcccccccCccchhhccchhhhhhccCCCchHHHHHHHHHHHhcCCchh----
Confidence            54321    2356899999999999999985311                   23456668888888777765431    


Q ss_pred             cCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCCC-CCCHHHHHHHHHhcCCCCCCcCCCC
Q 025813          128 KNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYN-LIDKEALRGFLLTCQSQYGGFGKCP  206 (247)
Q Consensus       128 ~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~~-~~~~~~~~~~L~~~Q~~~GGf~~~p  206 (247)
                            ...++++++||.+.|++||+|.++++. ..+..|+.++.+|..+|... ...++++++||+++|++||||+..+
T Consensus       187 ------~~~I~kav~~L~~~Q~~dG~w~~~~~~-~~~y~t~~~l~aL~~~g~~~~~~~v~ka~~~L~~~Q~~dGgWg~~~  259 (352)
T d2sqca1         187 ------WKVIRRAVEYLKREQKPDGSWFGRWGV-NYLYGTGAVVSALKAVGIDTREPYIQKALDWVEQHQNPDGGWGEDC  259 (352)
T ss_dssp             ------SHHHHHHHHHHHHHCCTTSCCCCSSBS-SHHHHHHHHHHHHHHTTCCTTSHHHHHHHHHHHHTCCTTSCCCCCG
T ss_pred             ------hHHHHHHHHHHHhccCCCCCccccCCC-CcchHHHHHHHHHHhcccccchHHHHHHHHHHHhccCCCCCcccCc
Confidence                  245889999999999999999887763 34555666777777777532 1236799999999999999997543


Q ss_pred             ----------CCCccHHHHHHHHHHHHhcCCCC
Q 025813          207 ----------GDLPDLYHSFYGYTAFSLLEEPG  229 (247)
Q Consensus       207 ----------~~~~d~~~T~~al~~L~ll~~~~  229 (247)
                                ...+++..|.|++.+|...+...
T Consensus       260 ~~~~~~~~~~~~~s~~~~Ta~al~aL~~a~~~~  292 (352)
T d2sqca1         260 RSYEDPAYAGKGASTPSQTAWALMALIAGGRAE  292 (352)
T ss_dssp             GGGTCGGGTTCSSCCHHHHHHHHHHHHHTTCSS
T ss_pred             ccccCcccCCCCCCcHHHHHHHHHHHHhcCCCC
Confidence                      34578999999999998877654

>d1w6ka1 a.102.4.2 (A:6-99,A:379-732) Lanosterol synthase {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Terpene synthases
domain: Lanosterol synthase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.87  E-value=2.3e-21  Score=175.56  Aligned_cols=222  Identities=19%  Similarity=0.156  Sum_probs=159.5

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCC-C--CCHHHHHHHHHhcccCC--------------CCccccCC-CCCcchHHHHHHHH
Q 025813            4 GSNLASTYCALAILKAVGYNFA-N--IDSKSILTSMRNLQQHD--------------GSFMPIHF-GAEKDLRFVYCAAA   65 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~~~~-~--~~~~~~i~~l~~~q~~d--------------Ggf~~~~~-~~~~d~~~ty~al~   65 (247)
                      .+.|+.|-.++++|.--|.... .  .-.+++.+||...|..+              |||..... .+.+|...|..++.
T Consensus        99 ~S~vWDTal~~~AL~~ag~~~~~~~~~~l~kA~~wL~~~Q~~~~~gd~~~~~~~~~~GGW~f~~~n~~~Pd~DdTA~~l~  178 (448)
T d1w6ka1          99 GSQIWDTAFAIQALLEAGGHHRPEFSSCLQKAHEFLRLSQVPDNPPDYQKYYRQMRKGGFSFSTLDCGWIVSDCTAEALK  178 (448)
T ss_dssp             CCHHHHHHHHHHHHHHTTGGGCGGGHHHHHHHHHHHHHHSCCCCCTTGGGGTCCCCTTCCBSSCTTTCCBCHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHhCCCCCccchHHHHHHHHHHHhhccCcCCCcchhhcCCCCCCceeCCcCCCCCCCCccHHHHHH
Confidence            4779999999999987774211 1  12468899999998543              45543111 24478888888888


Q ss_pred             HHHHhcCC-----Cc---ccHHHHHHHHHhcCCCCCCccCCC---------------------CCCCChhhHHHHHHHHH
Q 025813           66 ICFLLEDW-----SG---MDRERAKAYILNCQSYDGGFGLTP---------------------GSESHGGGTYCAVASLR  116 (247)
Q Consensus        66 ~l~ll~~~-----~~---~~~~~~~~~l~~~Q~~dGGFg~~p---------------------~~~s~~~~T~~al~~L~  116 (247)
                      ++.++...     +.   ..+.++++||+++||+||||+...                     ...+++..|..++.+|.
T Consensus       179 al~~~~~~~~~~~~~~~~~~i~~av~wLl~mQn~dGGw~afd~~~~~~~l~~~~~~~~~~~~~~D~s~~d~T~~~l~aL~  258 (448)
T d1w6ka1         179 AVLLLQEKCPHVTEHIPRERLCDAVAVLLNMRNPDGGFATYETKRGGHLLELLNPSEVFGDIMIDYTYVECTSAVMQALK  258 (448)
T ss_dssp             HHHHHHHHCTTCCSCCCHHHHHHHHHHHHTTCCTTSCBCSSSCCCSCGGGGGGCCCSSCSSCSSCCCBHHHHHHHHHHHH
T ss_pred             HHHHHhccCccccccccHHHHHHHHHHHHHhcCCCCCeeeccCCCChhhhhcccchhhhhccccCCCcchHHHHHHHHHH
Confidence            87766421     11   235689999999999999998541                     23567788999999999


Q ss_pred             HhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHHHHHHHHHhcCCCC-----CCHHHHHHH
Q 025813          117 LMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFWIGSVLRMLGGYNL-----IDKEALRGF  191 (247)
Q Consensus       117 ~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~a~~~L~lL~~~~~-----~~~~~~~~~  191 (247)
                      .++...++...++.   ...++++++||.+.|++||||.++++. +.+..|++++.+|..+|....     ..++++++|
T Consensus       259 ~~~~~~p~~r~~~~---~~~i~ral~yL~~~Q~~DGsW~g~wg~-~~~ygT~~al~aL~~~G~~~~~~~~~~~v~ka~~w  334 (448)
T d1w6ka1         259 YFHKRFPEHRAAEI---RETLTQGLEFCRRQQRADGSWEGSWGV-CFTYGTWFGLEAFACMGQTYRDGTACAEVSRACDF  334 (448)
T ss_dssp             HHHHHCTTSSHHHH---HHHHHHHHHHHHHHSCTTSCCCCSSBS-SHHHHHHHHHHHHHHTTCCCBTTBCCHHHHHHHHH
T ss_pred             HHhhhCCccccccc---hHHHHHHHHHHHccCCCCCcccccCCC-cccHHHHHHHHHHHHhCcCcccccccHHHHHHHHH
Confidence            88765332211100   124788999999999999999998873 245556667777777775321     136899999


Q ss_pred             HHhcCCCCCCcCCC----------CCCCccHHHHHHHHHHHHhcCCCC
Q 025813          192 LLTCQSQYGGFGKC----------PGDLPDLYHSFYGYTAFSLLEEPG  229 (247)
Q Consensus       192 L~~~Q~~~GGf~~~----------p~~~~d~~~T~~al~~L~ll~~~~  229 (247)
                      |+++|++||||+..          ++..|++..|.||+.+|...++..
T Consensus       335 Lls~Q~~DGGWge~~~s~~~~~~~~~~~s~~~~TAwAl~aL~~ag~~~  382 (448)
T d1w6ka1         335 LLSRQMADGGWGEDFESCEERRYVQSAQSQIHNTCWAMMGLMAVRHPD  382 (448)
T ss_dssp             HHTTCCTTSCCCBCTHHHHHTSCCBCSSCCHHHHHHHHHHHHHTTCSC
T ss_pred             HHhccCCCCCccCCCccccCcccCCCCCCcHHHHHHHHHHHHhcCCCC
Confidence            99999999999764          456789999999999998877543

>d2sqca1 a.102.4.2 (A:8-36,A:308-630) Squalene-hopene cyclase {Alicyclobacillus acidocaldarius [TaxId: 405212]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Terpene synthases
domain: Squalene-hopene cyclase
species: Alicyclobacillus acidocaldarius [TaxId: 405212]

Probab=99.86  E-value=7.4e-21  Score=167.71  Aligned_cols=210  Identities=15%  Similarity=0.080  Sum_probs=146.7

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCCCC---CHHHHHHHHHhcccCCCCccccCCC------------------CCcchHHHHH
Q 025813            4 GSNLASTYCALAILKAVGYNFANI---DSKSILTSMRNLQQHDGSFMPIHFG------------------AEKDLRFVYC   62 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~~~~~~---~~~~~i~~l~~~q~~dGgf~~~~~~------------------~~~d~~~ty~   62 (247)
                      .|++-+|-.++.+|..++...+..   ..++.++||.++||+||||..+...                  ..+....|..
T Consensus        94 ~p~~d~Ta~~l~aL~~~~~~~~~~~~~ai~~av~~Lls~Qn~dGGw~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~T~~  173 (352)
T d2sqca1          94 YPDVCDTAVVVWALNTLRLPDERRRRDAMTKGFRWIVGMQSSNGGWGAYDVDNTSDLPNHIPFSDFGEVTDPPSEDVTAH  173 (352)
T ss_dssp             CCBHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHTCCTTSCBCSSCSSCCCSGGGGSTTCSSSCSSCCCBHHHHHH
T ss_pred             CCccccHHHHHHhhhhhcCCchhhHHHHHHHHHHHHHHhhcCCCCcccccccCccchhhccchhhhhhccCCCchHHHHH
Confidence            367778888887776665321111   1357899999999999999743210                  1234455566


Q ss_pred             HHHHHHHhcCC-CcccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHH
Q 025813           63 AAAICFLLEDW-SGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLL  141 (247)
Q Consensus        63 al~~l~ll~~~-~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~  141 (247)
                      ++..+...+.. ....++++++||+++|++||+|.+.. ..++...|+.++.+|..+|....          ...+++++
T Consensus       174 ~l~al~~~g~~~~~~~I~kav~~L~~~Q~~dG~w~~~~-~~~~~y~t~~~l~aL~~~g~~~~----------~~~v~ka~  242 (352)
T d2sqca1         174 VLECFGSFGYDDAWKVIRRAVEYLKREQKPDGSWFGRW-GVNYLYGTGAVVSALKAVGIDTR----------EPYIQKAL  242 (352)
T ss_dssp             HHHHHHTTTCCTTSHHHHHHHHHHHHHCCTTSCCCCSS-BSSHHHHHHHHHHHHHHTTCCTT----------SHHHHHHH
T ss_pred             HHHHHHhcCCchhhHHHHHHHHHHHhccCCCCCccccC-CCCcchHHHHHHHHHHhcccccc----------hHHHHHHH
Confidence            66666555532 23457999999999999999997754 34567778889999999987531          34578999


Q ss_pred             HHHHhcCCCCCccccc----------cCCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCCCCCcCCC-CCC--
Q 025813          142 SWCLQRQAADGGFQGR----------ANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQYGGFGKC-PGD--  208 (247)
Q Consensus       142 ~~l~~~Q~~dGgf~~~----------~~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~~GGf~~~-p~~--  208 (247)
                      +||++.|++||||+..          ....+++..|-|++.+|...+......++++++||+++|++||||... +..  
T Consensus       243 ~~L~~~Q~~dGgWg~~~~~~~~~~~~~~~~s~~~~Ta~al~aL~~a~~~~~~~i~ra~~~L~~~Q~~dG~w~~~~~~g~~  322 (352)
T d2sqca1         243 DWVEQHQNPDGGWGEDCRSYEDPAYAGKGASTPSQTAWALMALIAGGRAESEAARRGVQYLVETQRPDGGWDEPYYTGTG  322 (352)
T ss_dssp             HHHHHTCCTTSCCCCCGGGGTCGGGTTCSSCCHHHHHHHHHHHHHTTCSSSHHHHHHHHHHHHHCCTTSCCCCCSCCEEE
T ss_pred             HHHHhccCCCCCcccCcccccCcccCCCCCCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCCCCCCCcceeccc
Confidence            9999999999999622          223567888889988887666433334688999999999999999753 221  


Q ss_pred             -------CccHHHHHHHHHHHHh
Q 025813          209 -------LPDLYHSFYGYTAFSL  224 (247)
Q Consensus       209 -------~~d~~~T~~al~~L~l  224 (247)
                             ....+..+|.+-||..
T Consensus       323 f~~~~~~~y~~y~~~f~~~aL~~  345 (352)
T d2sqca1         323 FPGDFYLGYTMYRHVFPTLALGR  345 (352)
T ss_dssp             ETTTEEEEETTHHHHHHHHHHHH
T ss_pred             ccccceecccccchHHHHHHHHH
Confidence                   1234445566666654

>d1w6ka1 a.102.4.2 (A:6-99,A:379-732) Lanosterol synthase {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Terpene synthases
domain: Lanosterol synthase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=5.9e-19  Score=159.64  Aligned_cols=216  Identities=15%  Similarity=0.101  Sum_probs=154.1

Q ss_pred             CCcHHHHHHHHHHHHHhCCC----CCCCCH---HHHHHHHHhcccCCCCccccCC--------------------CCCcc
Q 025813            4 GSNLASTYCALAILKAVGYN----FANIDS---KSILTSMRNLQQHDGSFMPIHF--------------------GAEKD   56 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~~----~~~~~~---~~~i~~l~~~q~~dGgf~~~~~--------------------~~~~d   56 (247)
                      .|++-+|-.++.+|..+...    .+.+++   .++++||.++||+||||..+..                    .+.+.
T Consensus       167 ~Pd~DdTA~~l~al~~~~~~~~~~~~~~~~~~i~~av~wLl~mQn~dGGw~afd~~~~~~~l~~~~~~~~~~~~~~D~s~  246 (448)
T d1w6ka1         167 WIVSDCTAEALKAVLLLQEKCPHVTEHIPRERLCDAVAVLLNMRNPDGGFATYETKRGGHLLELLNPSEVFGDIMIDYTY  246 (448)
T ss_dssp             CBCHHHHHHHHHHHHHHHHHCTTCCSCCCHHHHHHHHHHHHTTCCTTSCBCSSSCCCSCGGGGGGCCCSSCSSCSSCCCB
T ss_pred             CCCCccHHHHHHHHHHHhccCccccccccHHHHHHHHHHHHHhcCCCCCeeeccCCCChhhhhcccchhhhhccccCCCc
Confidence            47888999999998876531    122333   4689999999999999975421                    02345


Q ss_pred             hHHHHHHHHHHHHhcCC--C------cccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCcccccccc
Q 025813           57 LRFVYCAAAICFLLEDW--S------GMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSK  128 (247)
Q Consensus        57 ~~~ty~al~~l~ll~~~--~------~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~  128 (247)
                      +..|..++.+|..++..  +      ...++++++||++.|++||+|.+..+ ..+...|++++.+|..+|....+..  
T Consensus       247 ~d~T~~~l~aL~~~~~~~p~~r~~~~~~~i~ral~yL~~~Q~~DGsW~g~wg-~~~~ygT~~al~aL~~~G~~~~~~~--  323 (448)
T d1w6ka1         247 VECTSAVMQALKYFHKRFPEHRAAEIRETLTQGLEFCRRQQRADGSWEGSWG-VCFTYGTWFGLEAFACMGQTYRDGT--  323 (448)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTSSHHHHHHHHHHHHHHHHHHSCTTSCCCCSSB-SSHHHHHHHHHHHHHHTTCCCBTTB--
T ss_pred             chHHHHHHHHHHHHhhhCCccccccchHHHHHHHHHHHccCCCCCcccccCC-CcccHHHHHHHHHHHHhCcCccccc--
Confidence            56677777777766521  1      12367999999999999999987653 4477889999999999987532110  


Q ss_pred             CCCCCCCCHHHHHHHHHhcCCCCCcccc----------ccCCCCchhhHHHHHHHHHHhcCCCCCCHHHHHHHHHhcCCC
Q 025813          129 NTSSSIIDLPLLLSWCLQRQAADGGFQG----------RANKPSDTCYAFWIGSVLRMLGGYNLIDKEALRGFLLTCQSQ  198 (247)
Q Consensus       129 ~~~~~~~~~~~~~~~l~~~Q~~dGgf~~----------~~~~~~D~~~~y~a~~~L~lL~~~~~~~~~~~~~~L~~~Q~~  198 (247)
                          ....++++++||+++|++||||..          .++..+++..|=||+.+|-..+......++++++||+++|++
T Consensus       324 ----~~~~v~ka~~wLls~Q~~DGGWge~~~s~~~~~~~~~~~s~~~~TAwAl~aL~~ag~~~~~~v~rgv~~L~~~Q~~  399 (448)
T d1w6ka1         324 ----ACAEVSRACDFLLSRQMADGGWGEDFESCEERRYVQSAQSQIHNTCWAMMGLMAVRHPDIEAQERGVRCLLEKQLP  399 (448)
T ss_dssp             ----CCHHHHHHHHHHHTTCCTTSCCCBCTHHHHHTSCCBCSSCCHHHHHHHHHHHHHTTCSCHHHHHHHHHHHHHHCCT
T ss_pred             ----ccHHHHHHHHHHHhccCCCCCccCCCccccCcccCCCCCCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCC
Confidence                023478999999999999999964          234567888888998888666654333578999999999999


Q ss_pred             CCCcCCCCCC---------CccHHHHHHHHHHHHhcC
Q 025813          199 YGGFGKCPGD---------LPDLYHSFYGYTAFSLLE  226 (247)
Q Consensus       199 ~GGf~~~p~~---------~~d~~~T~~al~~L~ll~  226 (247)
                      +|+|....-.         .-+.+.-++-+.||....
T Consensus       400 ~G~W~~~~~~g~f~~~~~l~Y~~Y~~~fpl~AL~ry~  436 (448)
T d1w6ka1         400 NGDWPQENIAGVFNKSCAISYTSYRNIFPIWALGRFS  436 (448)
T ss_dssp             TSCCCCCSCCEEETTTEEECCTTHHHHHHHHHHHHHH
T ss_pred             CCCCCCCceeeeecccceeecCCcchHHHHHHHHHHH
Confidence            9999765321         124455556666665443

>d2sqca2 a.102.4.2 (A:37-307) Squalene-hopene cyclase {Alicyclobacillus acidocaldarius [TaxId: 405212]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Terpene synthases
domain: Squalene-hopene cyclase
species: Alicyclobacillus acidocaldarius [TaxId: 405212]

Probab=99.50  E-value=2.7e-13  Score=114.62  Aligned_cols=204  Identities=13%  Similarity=0.041  Sum_probs=130.9

Q ss_pred             CcHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC-CcccHHHHHH
Q 025813            5 SNLASTYCALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW-SGMDRERAKA   83 (247)
Q Consensus         5 ~~l~~Ty~a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~-~~~~~~~~~~   83 (247)
                      +|+..|.-.|..+.++|. .+....+++++||.++|++||||...+ ++.+++..|..+..+|.++|.. +....+|+.+
T Consensus         2 ~~~~~~a~~i~~~~~~g~-~~~~~~~~~~~~l~~~Q~~dGgW~~~~-~~~~~~~~T~~~~~AL~~~g~~~~~~~~~ra~~   79 (271)
T d2sqca2           2 SNVTMEAEYVLLCHILDR-VDRDRMEKIRRYLLHEQREDGTWALYP-GGPPDLDTTIEAYVALKYIGMSRDEEPMQKALR   79 (271)
T ss_dssp             CCTHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHHHSCTTSCCCSST-TCCCCHHHHHHHHHHHHHHTCCTTSHHHHHHHH
T ss_pred             CcccccHHHHHHHHHhCC-CCHHHHHHHHHHHHHccCCCCCccCCC-CCCCcHHHHHHHHHHHHHhCCCCchHHHHHHHH
Confidence            467778888999999994 444456899999999999999998655 4788999999999999999843 4455789999


Q ss_pred             HHHhcCCCCCC----------ccCC---------------CC----CCCChhhHHHHHHHHHHh--CCccccccccCCCC
Q 025813           84 YILNCQSYDGG----------FGLT---------------PG----SESHGGGTYCAVASLRLM--GFIEDNVLSKNTSS  132 (247)
Q Consensus        84 ~l~~~Q~~dGG----------Fg~~---------------p~----~~s~~~~T~~al~~L~~l--g~~~~~~~~~~~~~  132 (247)
                      ||++.+-..+.          +|..               |.    +......+.-++.....+  +....         
T Consensus        80 ~i~~~GG~~~~~~~~k~~LA~~G~~~w~~v~~iP~E~~llP~~~p~~p~~~~~~~R~v~~p~~~l~~~~~~---------  150 (271)
T d2sqca2          80 FIQSQGGIESSRVFTRMWLALVGEYPWEKVPMVPPEIMFLGKRMPLNIYEFGSWARATVVALSIVMSRQPV---------  150 (271)
T ss_dssp             HHHHTTCGGGSCHHHHHHHHHTTSSCGGGSCCCCGGGGGSCTTSTTCGGGSCHHHHHHHHHHHHHHHHCCC---------
T ss_pred             HHHHcCCcccCchHHHHHHHhcCCCCccccCCCCHHHHcCCCccccCchhhheehhhhhhhHHHhhccCcc---------
Confidence            99998433221          1111               10    111111111122221111  11110         


Q ss_pred             CCCCHHHHHHHHHhcCCCCCccccccCCCCchhhHHH-HHHHHHHhcCCC--C---CCHHHHHHHHHhcCCCCCCcCCCC
Q 025813          133 SIIDLPLLLSWCLQRQAADGGFQGRANKPSDTCYAFW-IGSVLRMLGGYN--L---IDKEALRGFLLTCQSQYGGFGKCP  206 (247)
Q Consensus       133 ~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D~~~~y~-a~~~L~lL~~~~--~---~~~~~~~~~L~~~Q~~~GGf~~~p  206 (247)
                      ...+....+++|...|.+++.|.+++...    ++|- +-+.+..+....  .   ...+++++||++.|+.|||++...
T Consensus       151 ~~~~~~~~l~eL~~~~~~~~~~~~~~~~~----~~~~~~~~~l~~~e~l~~~~lr~~a~~~a~~wl~~~q~~dGgwG~i~  226 (271)
T d2sqca2         151 FPLPERARVPELYETDVPPRRRGAKGGGG----WIFDALDRALHGYQKLSVHPFRRAAEIRALDWLLERQAGDGSWGGIQ  226 (271)
T ss_dssp             CCCCGGGCCGGGGCCSSCCCCCCCTTCCC----HHHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHCCTTSSSTTSH
T ss_pred             CCCchhhHHHHHhcCCCcccccccccccc----HHHHHHHHHHHHHHhcCCCchhhHHHHHHHHHHHHHccCCCCccccC
Confidence            01223345677788888899888766532    3342 223444433221  1   235789999999999999998641


Q ss_pred             CCCccHHHHHHHHHHHHhcCCCC
Q 025813          207 GDLPDLYHSFYGYTAFSLLEEPG  229 (247)
Q Consensus       207 ~~~~d~~~T~~al~~L~ll~~~~  229 (247)
                            ..|.+++.+|..+|+.+
T Consensus       227 ------p~~~~~l~aL~~~G~~~  243 (271)
T d2sqca2         227 ------PPWFYALIALKILDMTQ  243 (271)
T ss_dssp             ------HHHHHHHHHHHHTTCTT
T ss_pred             ------HHHHHHHHHHHhcCCCC
Confidence                  25789999999999753

>d2sqca2 a.102.4.2 (A:37-307) Squalene-hopene cyclase {Alicyclobacillus acidocaldarius [TaxId: 405212]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Terpene synthases
domain: Squalene-hopene cyclase
species: Alicyclobacillus acidocaldarius [TaxId: 405212]

Probab=98.82  E-value=1.6e-08  Score=84.73  Aligned_cols=84  Identities=20%  Similarity=0.309  Sum_probs=72.3

Q ss_pred             chHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCC
Q 025813           56 DLRFVYCAAAICFLLEDWSGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSII  135 (247)
Q Consensus        56 d~~~ty~al~~l~ll~~~~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~  135 (247)
                      |+..|...+..++++|..+....+++++||++.|++||||+..++..+++..|..++.+|.++|...+          ..
T Consensus         3 ~~~~~a~~i~~~~~~g~~~~~~~~~~~~~l~~~Q~~dGgW~~~~~~~~~~~~T~~~~~AL~~~g~~~~----------~~   72 (271)
T d2sqca2           3 NVTMEAEYVLLCHILDRVDRDRMEKIRRYLLHEQREDGTWALYPGGPPDLDTTIEAYVALKYIGMSRD----------EE   72 (271)
T ss_dssp             CTHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHSCTTSCCCSSTTCCCCHHHHHHHHHHHHHHTCCTT----------SH
T ss_pred             cccccHHHHHHHHHhCCCCHHHHHHHHHHHHHccCCCCCccCCCCCCCcHHHHHHHHHHHHHhCCCCc----------hH
Confidence            55667788999999997777778999999999999999999999999999999999999999996532          33


Q ss_pred             CHHHHHHHHHhcCC
Q 025813          136 DLPLLLSWCLQRQA  149 (247)
Q Consensus       136 ~~~~~~~~l~~~Q~  149 (247)
                      ...++.+||.+++-
T Consensus        73 ~~~ra~~~i~~~GG   86 (271)
T d2sqca2          73 PMQKALRFIQSQGG   86 (271)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHcCC
Confidence            57899999999854

>d1r76a_ a.102.5.1 (A:) Polygalacturonic acid lyase (pectate lyase) {Azospirillum irakense [TaxId: 34011]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Family 10 polysaccharide lyase
family: Family 10 polysaccharide lyase
domain: Polygalacturonic acid lyase (pectate lyase)
species: Azospirillum irakense [TaxId: 34011]

Probab=98.72  E-value=3.8e-08  Score=86.25  Aligned_cols=176  Identities=10%  Similarity=-0.021  Sum_probs=98.8

Q ss_pred             CHHHHHHHHHhcccCCCCccccC------------C-------------------------CCCcchHHHHHHHHHHHHh
Q 025813           28 DSKSILTSMRNLQQHDGSFMPIH------------F-------------------------GAEKDLRFVYCAAAICFLL   70 (247)
Q Consensus        28 ~~~~~i~~l~~~q~~dGgf~~~~------------~-------------------------~~~~d~~~ty~al~~l~ll   70 (247)
                      ...++.+.|...|+++|||...-            .                         ....|-..|...+..|..+
T Consensus        82 eA~~iAd~lL~~Q~p~GGWpKn~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~TiDN~aTt~el~~La~~  161 (408)
T d1r76a_          82 AARHVADVIVSFQTPAGGWGKNQPRDGALRLPGQHYTGENVAKVKSGSNDLDAARDRDWHYVGTIDNDATVTEIRFLAQV  161 (408)
T ss_dssp             HHHHHHHHHHHHCCTTSCCCSSCCSSSCCCCTTCCSSCCCCCCCC---------CCCCCSSSSBCGGGTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCCCccccccccccchhhhhhhccccccccchhhhhhhhhhcccCCCcCcchHHHHHHHHHHH
Confidence            34678999999999999995310            0                         0122334566666655444


Q ss_pred             cC--CC------cccHHHHHHHHHhcCCCCCCccCCC-C---CCCCh----hhHHHHHHHHHHh--CCccccccc----c
Q 025813           71 ED--WS------GMDRERAKAYILNCQSYDGGFGLTP-G---SESHG----GGTYCAVASLRLM--GFIEDNVLS----K  128 (247)
Q Consensus        71 ~~--~~------~~~~~~~~~~l~~~Q~~dGGFg~~p-~---~~s~~----~~T~~al~~L~~l--g~~~~~~~~----~  128 (247)
                      -.  .+      .....++++||++.|++||||...- .   ...|+    ..+..++..|..+  +..+...+.    +
T Consensus       162 ~~~~~~~~~~~y~~a~~~~~~~ll~~Q~~~Ggwpqf~p~~~~Y~~~ItfND~~m~~~l~~l~~~~~~~~~~~~~~~~~r~  241 (408)
T d1r76a_         162 VSQLAPEEAAPYRDAALKGIEYLLASQFPNGGWPQVWPLEGGYHDAITYNDDALVHVAELLSDIAAGRDGFGFVPPAIRT  241 (408)
T ss_dssp             HHHSCGGGCHHHHHHHHHHHHHHHHHSCTTSCCBSBSSCCCGGGGSEECGGGHHHHHHHHHHHHHHTCTTCTTSCHHHHH
T ss_pred             HHHcCcccchhHHHHHHHHHHHHHHhhCCCCCccccCCCCcccccccccCchHHHHHHHHHHHHHHhccccccCCHHHHH
Confidence            21  11      1134689999999999999998742 1   11111    1222344444333  111111100    0


Q ss_pred             CCCCCCCCHHHHHHHHHhcCCCCCccccccCCCCc----------------hhhHHHHHHHHHHhcCCCCC-----CHHH
Q 025813          129 NTSSSIIDLPLLLSWCLQRQAADGGFQGRANKPSD----------------TCYAFWIGSVLRMLGGYNLI-----DKEA  187 (247)
Q Consensus       129 ~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~~~~~~D----------------~~~~y~a~~~L~lL~~~~~~-----~~~~  187 (247)
                      +.   ...++++++||+..|.++|||.+.++..-|                .+..-.+..++.|+....+.     .+++
T Consensus       242 r~---~~a~~rgi~~ll~~Q~~~gg~~~~Wg~Qhd~~tl~P~~aR~yE~~sls~~eS~~i~~~LM~~~~ps~~~~~aI~~  318 (408)
T d1r76a_         242 RA---LEATNAAIHCIVETQVVQDGKRLGWGQQHDALTLRPTSARNFEPAALSSTESARILLFLMEIEAPSDAVKQAIRG  318 (408)
T ss_dssp             HH---HHHHHHHHHHHHHHSCEETTEECCCCSEECTTTCSBCCCSTTCCSCEEHHHHHHHHHHHTTSSSCCHHHHHHHHH
T ss_pred             HH---HHHHHHHHHHHHHHhcccCCCcChHhhccCccccCcccccccCChhhhhhhHHHHHHHHHhCCCCChhHHHHHHH
Confidence            00   123678999999999999999877754222                23333444455555532221     3678


Q ss_pred             HHHHHHhcCCCCCCcCCCC
Q 025813          188 LRGFLLTCQSQYGGFGKCP  206 (247)
Q Consensus       188 ~~~~L~~~Q~~~GGf~~~p  206 (247)
                      ++.||.++|..+|++...+
T Consensus       319 av~Wl~~~~~~~~~~~~~~  337 (408)
T d1r76a_         319 GVAWLNTSVIRDRAWVKSD  337 (408)
T ss_dssp             HHHHHHHSCCCC-------
T ss_pred             HHHHHHhcccCCceeeecC
Confidence            9999999999999886653

>d1hzfa_ a.102.4.4 (A:) C4adg fragment of complement factor C4a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Complement components
domain: C4adg fragment of complement factor C4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.65  E-value=2.2e-07  Score=78.81  Aligned_cols=89  Identities=13%  Similarity=0.104  Sum_probs=62.9

Q ss_pred             HHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC---CcccHHHHHHHHHhcCCCCCCccCCCC------
Q 025813           30 KSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW---SGMDRERAKAYILNCQSYDGGFGLTPG------  100 (247)
Q Consensus        30 ~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~---~~~~~~~~~~~l~~~Q~~dGGFg~~p~------  100 (247)
                      ++.++-|.++|++||||..++. +.++.+.|-+++..|......   .+..+.+...|+++.|..+|+|.....      
T Consensus        55 ~~g~~rl~~~Q~~dGgf~~w~~-~~~~~wlTayv~~~L~~A~~~g~~~~~~~~~~~~~~l~~q~~~g~~~~~~~~~~~~~  133 (326)
T d1hzfa_          55 QKGYMRIQQFRKADGSYAAWLS-RDSSTWLTAFVLKVLSLAQEQVGGSPEKLQETSNWLLSQQQADGSFQDPCPVLDRSM  133 (326)
T ss_dssp             HHHHHHHHTTBCTTSCBCSSTT-SCCCHHHHHHHHHHHHHHGGGTCCCHHHHHHHHHHHGGGBCTTSCBCCSSCCSCGGG
T ss_pred             HHHHHHHHHhcCCCCCcccCCC-CCCchHHHHHHHHHHHHHHHhcccchhhHHhHHHHHHHHhhhcccccccccccCHHH
Confidence            3456668889999999998764 677888888888888776532   344567888999999999999876421      


Q ss_pred             ------CCCChhhHHHHHHHHHHhC
Q 025813          101 ------SESHGGGTYCAVASLRLMG  119 (247)
Q Consensus       101 ------~~s~~~~T~~al~~L~~lg  119 (247)
                            ....+..|.+++-+|...+
T Consensus       134 ~~~~~~~~~~~~~tAyvl~aL~~~~  158 (326)
T d1hzfa_         134 QGGLVGNDETVALTAFVTIALHHGL  158 (326)
T ss_dssp             GGGGSSTTHHHHHHHHHHHHHHHHH
T ss_pred             hccccccccchhHHHHHHHHHHHcc
Confidence                  1223445556666665543

>d1c3da_ a.102.4.4 (A:) C3D, a C3 fragment and ligand for complement receptor 2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Complement components
domain: C3D, a C3 fragment and ligand for complement receptor 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.49  E-value=1.3e-06  Score=72.62  Aligned_cols=207  Identities=14%  Similarity=0.048  Sum_probs=111.8

Q ss_pred             CCcHHHHHHHHHHHHHhCC--CCCC--C-C-------HHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhc
Q 025813            4 GSNLASTYCALAILKAVGY--NFAN--I-D-------SKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLE   71 (247)
Q Consensus         4 ~~~l~~Ty~a~~~L~~lg~--~~~~--~-~-------~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~   71 (247)
                      +++++.++-.+.++..|..  .+..  + +       .++.++-|.++|++||||+.++ ++.++.+.|-+++..|....
T Consensus        19 EQt~s~~~p~~~~~~yl~~~~~~~~~~~~~~~~~~~~i~~gi~rl~~~Q~~dGgf~~w~-~~~~~~~lTayv~~~L~~A~   97 (294)
T d1c3da_          19 EQNMIGMTPTVIAVHYLDETEQWEKFGLEKRQGALELIKKGYTQQLAFRQPSSAFAAFV-KRAPSTWLTAYVVKVFSLAV   97 (294)
T ss_dssp             THHHHHHHHHHHHHHHHHHTTCSTTTCGGGHHHHHHHHHHHHHHHHTTBCTTSCBCSST-TSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhcccChhHHHHHHHHHHHHHHHHHHhcCCCCCcccCC-CCCCCcchHHHHHHHHHHHH
Confidence            3456666666666655532  1211  1 1       2355677888899999999875 46778888888888877765


Q ss_pred             CCCcc---c-HHHHHHHHHhcCCCCCCccCCCC-------------CCCChhhHHHHHHHHHHhCCccccccccCCCCCC
Q 025813           72 DWSGM---D-RERAKAYILNCQSYDGGFGLTPG-------------SESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSI  134 (247)
Q Consensus        72 ~~~~~---~-~~~~~~~l~~~Q~~dGGFg~~p~-------------~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~  134 (247)
                      .....   . .+++..++.+.|..+|-|-....             .......+.+++.+|...+...++..++.    .
T Consensus        98 ~~g~~~~~~~~~~~~~~l~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~ay~~~~L~~~~~~~~~~~~~~----~  173 (294)
T d1c3da_          98 NLIAIDSQVLCGAVKWLILEKQKPDGVFQEDAPVIHQEMIGGLRNNNEKDMALTAFVLISLQEAKDICEEQVNSL----P  173 (294)
T ss_dssp             TTSCCCHHHHHHHHHHHHHHHBCTTSCBCCSSCCSCGGGGGGGGSCTTHHHHHHHHHHHHHHHTHHHHTTTCTTH----H
T ss_pred             HhcccChHHHHHHHHHHHHhhhhcCCCccccchHhHHHHhcccccccchHHHHHHHHHHHHHhccccchHHHHHH----H
Confidence            33222   2 23455566677888876654211             11234455566666666544321111000    0


Q ss_pred             CCHHHHHHHHHhcC--------------------C-------------CCCccccccCC-CCchhhHHHHHHHHHHhcCC
Q 025813          135 IDLPLLLSWCLQRQ--------------------A-------------ADGGFQGRANK-PSDTCYAFWIGSVLRMLGGY  180 (247)
Q Consensus       135 ~~~~~~~~~l~~~Q--------------------~-------------~dGgf~~~~~~-~~D~~~~y~a~~~L~lL~~~  180 (247)
                      ..+.++.+|+....                    .             .++.|-..++. ..++.-+  +.+.+.++...
T Consensus       174 ~~~~ka~~~l~~~~~~~~~~~~la~~~~~l~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~iett--a~alla~~~~~  251 (294)
T d1c3da_         174 GSITKAGDFLEANYMNLQRSYTVAIAGYALAQMGRLKGPLLNKFLTTAKDKNRWEDPGKQLYNVEAT--SYALLALLQLK  251 (294)
T ss_dssp             HHHHHHHHHHHHHGGGCCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHSBTTTBCCCSSCHHHHHHHH--HHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHhHHHHHHHHHHHHHhcccCCCCCCCCCccchHHHH--HHHHHHHHhcC
Confidence            01222333332110                    0             13333322221 1222222  22333444433


Q ss_pred             CCCCHHHHHHHHHhcCCCCCCcCCCCCCCccHHHHHHHHHHHHh
Q 025813          181 NLIDKEALRGFLLTCQSQYGGFGKCPGDLPDLYHSFYGYTAFSL  224 (247)
Q Consensus       181 ~~~~~~~~~~~L~~~Q~~~GGf~~~p~~~~d~~~T~~al~~L~l  224 (247)
                      .....+++++||.+.++..|||.-.       -.|.+|+-||+-
T Consensus       252 ~~~~~~~~~~wL~~qr~~~g~w~ST-------q~T~~al~AL~~  288 (294)
T d1c3da_         252 DFDFVPPVVRWLNEQRYYGGGYGST-------QATFMVFQALAQ  288 (294)
T ss_dssp             CTTTHHHHHHHHHHTTCCCCSTTCH-------HHHHHHHHHHHH
T ss_pred             ChhhHHHHHHHHHHcccCCCCCccH-------HHHHHHHHHHHH
Confidence            3445688999999998889999654       468888888764

>d1w6ka2 a.102.4.2 (A:100-378) Lanosterol synthase {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Terpene synthases
domain: Lanosterol synthase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.40  E-value=2.8e-07  Score=76.86  Aligned_cols=76  Identities=26%  Similarity=0.226  Sum_probs=63.9

Q ss_pred             HHHHHHHhcCC-CcccHHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHH
Q 025813           63 AAAICFLLEDW-SGMDRERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLL  141 (247)
Q Consensus        63 al~~l~ll~~~-~~~~~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~  141 (247)
                      -+.+++++|.. +...++++++||.++|++||||+..++..+++..|.-|..+|.++|...+          .....++.
T Consensus         9 ~Vial~i~g~~~~~e~~~e~~ryL~~~Q~~DGgWg~~~~g~s~i~~T~~ay~ALrl~G~~~~----------~p~m~rAr   78 (279)
T d1w6ka2           9 LLITCHVARIPLPAGYREEIVRYLRSVQLPDGGWGLHIEDKSTVFGTALNYVSLRILGVGPD----------DPDLVRAR   78 (279)
T ss_dssp             HHHHHHHHTCCCCTTHHHHHHHHHHHHSCTTSCBCSBTTSCCBHHHHHHHHHHHHHTTCCTT----------SHHHHHHH
T ss_pred             HHHHHhhcCCCCCHHHHHHHHHHHHHhhcCCCCccCCCCCCccHHHHHHHHHHHHHhCCCCC----------cHHHHHHH
Confidence            35667888853 55668999999999999999999999999999999999999999997542          34578999


Q ss_pred             HHHHhcC
Q 025813          142 SWCLQRQ  148 (247)
Q Consensus       142 ~~l~~~Q  148 (247)
                      +||.++-
T Consensus        79 ~wI~~~G   85 (279)
T d1w6ka2          79 NILHKKG   85 (279)
T ss_dssp             HHHHHTT
T ss_pred             HHHHhCC
Confidence            9999973

>d1gxma_ a.102.5.1 (A:) Polygalacturonic acid lyase (pectate lyase) {Cellvibrio cellulosa [TaxId: 155077]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Family 10 polysaccharide lyase
family: Family 10 polysaccharide lyase
domain: Polygalacturonic acid lyase (pectate lyase)
species: Cellvibrio cellulosa [TaxId: 155077]

Probab=98.39  E-value=5.2e-08  Score=82.77  Aligned_cols=170  Identities=13%  Similarity=0.046  Sum_probs=96.2

Q ss_pred             HHHHHHHhcccCCCCcccc--------CCC----CCcchHHHHHHHHHHHHhcC--CC---cccHHHHHHHHHhcCCCCC
Q 025813           31 SILTSMRNLQQHDGSFMPI--------HFG----AEKDLRFVYCAAAICFLLED--WS---GMDRERAKAYILNCQSYDG   93 (247)
Q Consensus        31 ~~i~~l~~~q~~dGgf~~~--------~~~----~~~d~~~ty~al~~l~ll~~--~~---~~~~~~~~~~l~~~Q~~dG   93 (247)
                      +.-++|.+.|+++|||...        +.+    +..|-..|...+..|..+..  .+   .....++++||+++|++||
T Consensus        27 ~~Ad~ll~~Q~~~GGW~Kn~d~~~~~~~~~~~~~sTiDn~AT~~~i~~La~~~~~~~d~~~~~A~~Rgi~~LL~~Q~~nG  106 (324)
T d1gxma_          27 SRADVVLSYQQNNGGWPKNLDYNSVGNGGGGNESGTIDNGATITEMVFLAEVYKSGGNTKYRDAVRKAANFLVNSQYSTG  106 (324)
T ss_dssp             GGHHHHHHTCCTTSCCCSCCCTTTCCCCCCCCSCEECGGGTTHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCTTS
T ss_pred             hhhHHHHhcCCCCCCCCccccccCCCCCccCCCCCcccChHHHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHhhccCCC
Confidence            4678888889999999621        100    11354556665555544421  11   1345799999999999999


Q ss_pred             CccCC-CCC---CCChh----hHHHHHHHHHHh--CCccc--ccc----ccCCCCCCCCHHHHHHHHHhcCCCCCccccc
Q 025813           94 GFGLT-PGS---ESHGG----GTYCAVASLRLM--GFIED--NVL----SKNTSSSIIDLPLLLSWCLQRQAADGGFQGR  157 (247)
Q Consensus        94 GFg~~-p~~---~s~~~----~T~~al~~L~~l--g~~~~--~~~----~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~~  157 (247)
                      ||+.. |..   ..|+-    .+..++..|.-.  +..+.  +..    +++.   ...++++++||+..|.++|||.++
T Consensus       107 GWpqf~P~~~~y~~~ItFND~am~~vl~lL~~~a~~~~~~~~~~~~~~~r~r~---~~A~~Rgi~~lL~~Q~~~gg~~t~  183 (324)
T d1gxma_         107 ALPQFYPLKGGYSDHATFNDNGMAYALTVLDFAANKRAPFDTDVFSDNDRTRF---KTAVTKGTDYILKAQWKQNGVLTV  183 (324)
T ss_dssp             CCBSEESCCSGGGGSEECGGGHHHHHHHHHHHHHTTCTTSCSTTSCHHHHHHH---HHHHHHHHHHHHHHSCEETTEECC
T ss_pred             CccccccCCCCcccccCCCcHHHHHHHHHhchhhccccchhHHHhhhhhhHhH---HHHHHHHHHHHHHhhcccCCCCCh
Confidence            99885 321   12221    111223333211  11110  000    0000   123678999999999999999877


Q ss_pred             cCCCCc----------------hhhHHHHHHHHHHhcCCCCC-----CHHHHHHHHHhcCCCCCCcCC
Q 025813          158 ANKPSD----------------TCYAFWIGSVLRMLGGYNLI-----DKEALRGFLLTCQSQYGGFGK  204 (247)
Q Consensus       158 ~~~~~D----------------~~~~y~a~~~L~lL~~~~~~-----~~~~~~~~L~~~Q~~~GGf~~  204 (247)
                      ++..-|                .+..--+..++.|+... +.     .++.++.|+.+++...+|+..
T Consensus       184 Wg~Qhd~~tl~Pa~AR~yE~~sls~~ES~~iv~~LM~~~-~s~~i~~ai~~avaWl~~~k~~~~~~~~  250 (324)
T d1gxma_         184 WCAQHGALDYQPKKARAYELESLSGSESVGVLAFLMTQP-QTAEIEQAVRAGVAWFNSPRTYLEGYTY  250 (324)
T ss_dssp             CCSEECTTTCCBCCCSTTCCSSEETTTHHHHHHHHTTSC-CCHHHHHHHHHHHHHHTCTTTSEEEEEE
T ss_pred             hhhccCcccccccccccccChhhhhhhHHHHHHHHhhcC-CcHHHHHHHHHHHHHHHhchhcccceee
Confidence            753211                12222344455556532 21     357788999999877777643

>d1w6ka2 a.102.4.2 (A:100-378) Lanosterol synthase {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Terpene synthases
domain: Lanosterol synthase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.13  E-value=3.4e-06  Score=70.11  Aligned_cols=75  Identities=13%  Similarity=0.001  Sum_probs=61.4

Q ss_pred             HHHHHHHhCCCCCCCCHHHHHHHHHhcccCCCCccccCCCCCcchHHHHHHHHHHHHhcCC-CcccHHHHHHHHHhc
Q 025813           13 ALAILKAVGYNFANIDSKSILTSMRNLQQHDGSFMPIHFGAEKDLRFVYCAAAICFLLEDW-SGMDRERAKAYILNC   88 (247)
Q Consensus        13 a~~~L~~lg~~~~~~~~~~~i~~l~~~q~~dGgf~~~~~~~~~d~~~ty~al~~l~ll~~~-~~~~~~~~~~~l~~~   88 (247)
                      -|.+|-+.|..++...++++++||.++|++||||.... ++.+++..|.-+..+|.++|.. +....+|+.+||+++
T Consensus         9 ~Vial~i~g~~~~~e~~~e~~ryL~~~Q~~DGgWg~~~-~g~s~i~~T~~ay~ALrl~G~~~~~p~m~rAr~wI~~~   84 (279)
T d1w6ka2           9 LLITCHVARIPLPAGYREEIVRYLRSVQLPDGGWGLHI-EDKSTVFGTALNYVSLRILGVGPDDPDLVRARNILHKK   84 (279)
T ss_dssp             HHHHHHHHTCCCCTTHHHHHHHHHHHHSCTTSCBCSBT-TSCCBHHHHHHHHHHHHHTTCCTTSHHHHHHHHHHHHT
T ss_pred             HHHHHhhcCCCCCHHHHHHHHHHHHHhhcCCCCccCCC-CCCccHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHhC
Confidence            35677788865554457999999999999999998655 4889999999999999999853 445678999999987

>d1r76a_ a.102.5.1 (A:) Polygalacturonic acid lyase (pectate lyase) {Azospirillum irakense [TaxId: 34011]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Family 10 polysaccharide lyase
family: Family 10 polysaccharide lyase
domain: Polygalacturonic acid lyase (pectate lyase)
species: Azospirillum irakense [TaxId: 34011]

Probab=98.04  E-value=5.1e-06  Score=72.48  Aligned_cols=138  Identities=17%  Similarity=0.076  Sum_probs=75.4

Q ss_pred             HHHHHHHHHHHhCCCCCCC-------CHHHHHHHHHhcccCCCCccccCCCCC--------cchHHHHHHHHHHHHhc--
Q 025813            9 STYCALAILKAVGYNFANI-------DSKSILTSMRNLQQHDGSFMPIHFGAE--------KDLRFVYCAAAICFLLE--   71 (247)
Q Consensus         9 ~Ty~a~~~L~~lg~~~~~~-------~~~~~i~~l~~~q~~dGgf~~~~~~~~--------~d~~~ty~al~~l~ll~--   71 (247)
                      .|..++..|..+-......       -..+.++||.++|++||||...-....        .| ..+--.+..|....  
T Consensus       150 aTt~el~~La~~~~~~~~~~~~~y~~a~~~~~~~ll~~Q~~~Ggwpqf~p~~~~Y~~~ItfND-~~m~~~l~~l~~~~~~  228 (408)
T d1r76a_         150 ATVTEIRFLAQVVSQLAPEEAAPYRDAALKGIEYLLASQFPNGGWPQVWPLEGGYHDAITYND-DALVHVAELLSDIAAG  228 (408)
T ss_dssp             TTHHHHHHHHHHHHHSCGGGCHHHHHHHHHHHHHHHHHSCTTSCCBSBSSCCCGGGGSEECGG-GHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHHcCcccchhHHHHHHHHHHHHHHhhCCCCCccccCCCCcccccccccCc-hHHHHHHHHHHHHHHh
Confidence            4788888887664211110       125789999999999999975321111        11 11122222232221  


Q ss_pred             --CCC----------cccHHHHHHHHHhcCCCCCCccCCCC----------------CCCChhhHHHHHHHHHHhCCc--
Q 025813           72 --DWS----------GMDRERAKAYILNCQSYDGGFGLTPG----------------SESHGGGTYCAVASLRLMGFI--  121 (247)
Q Consensus        72 --~~~----------~~~~~~~~~~l~~~Q~~dGGFg~~p~----------------~~s~~~~T~~al~~L~~lg~~--  121 (247)
                        ...          ....+|+++||+++|.++||+-..-+                ..+.+..+-.+-..+.++...  
T Consensus       229 ~~~~~~~~~~~r~r~~~a~~rgi~~ll~~Q~~~gg~~~~Wg~Qhd~~tl~P~~aR~yE~~sls~~eS~~i~~~LM~~~~p  308 (408)
T d1r76a_         229 RDGFGFVPPAIRTRALEATNAAIHCIVETQVVQDGKRLGWGQQHDALTLRPTSARNFEPAALSSTESARILLFLMEIEAP  308 (408)
T ss_dssp             CTTCTTSCHHHHHHHHHHHHHHHHHHHHHSCEETTEECCCCSEECTTTCSBCCCSTTCCSCEEHHHHHHHHHHHTTSSSC
T ss_pred             ccccccCCHHHHHHHHHHHHHHHHHHHHHhcccCCCcChHhhccCccccCcccccccCChhhhhhhHHHHHHHHHhCCCC
Confidence              111          12347899999999999998533211                123344433343334443322  


Q ss_pred             cccccccCCCCCCCCHHHHHHHHHhcCCCCCccc
Q 025813          122 EDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQ  155 (247)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~  155 (247)
                      .++.        ...++++++||.+.|-++|.|.
T Consensus       309 s~~~--------~~aI~~av~Wl~~~~~~~~~~~  334 (408)
T d1r76a_         309 SDAV--------KQAIRGGVAWLNTSVIRDRAWV  334 (408)
T ss_dssp             CHHH--------HHHHHHHHHHHHHSCCCC----
T ss_pred             ChhH--------HHHHHHHHHHHHhcccCCceee
Confidence            2221        1247899999999999999885

>d1hzfa_ a.102.4.4 (A:) C4adg fragment of complement factor C4a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Complement components
domain: C4adg fragment of complement factor C4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.94  E-value=2.9e-05  Score=65.32  Aligned_cols=71  Identities=23%  Similarity=0.198  Sum_probs=56.2

Q ss_pred             HHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCcccc
Q 025813           78 RERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQG  156 (247)
Q Consensus        78 ~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~~  156 (247)
                      ++++++-|+++|++||||+..++.+++...|.+++..|..+.+.-...        ...+.+...|+++.|..+|+|..
T Consensus        54 i~~g~~rl~~~Q~~dGgf~~w~~~~~~~wlTayv~~~L~~A~~~g~~~--------~~~~~~~~~~~l~~q~~~g~~~~  124 (326)
T d1hzfa_          54 IQKGYMRIQQFRKADGSYAAWLSRDSSTWLTAFVLKVLSLAQEQVGGS--------PEKLQETSNWLLSQQQADGSFQD  124 (326)
T ss_dssp             HHHHHHHHHTTBCTTSCBCSSTTSCCCHHHHHHHHHHHHHHGGGTCCC--------HHHHHHHHHHHGGGBCTTSCBCC
T ss_pred             HHHHHHHHHHhcCCCCCcccCCCCCCchHHHHHHHHHHHHHHHhcccc--------hhhHHhHHHHHHHHhhhcccccc
Confidence            356777789999999999999999999999999999988864321100        12466789999999999999964

>d1gxma_ a.102.5.1 (A:) Polygalacturonic acid lyase (pectate lyase) {Cellvibrio cellulosa [TaxId: 155077]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Family 10 polysaccharide lyase
family: Family 10 polysaccharide lyase
domain: Polygalacturonic acid lyase (pectate lyase)
species: Cellvibrio cellulosa [TaxId: 155077]

Probab=97.75  E-value=2e-05  Score=66.50  Aligned_cols=115  Identities=16%  Similarity=0.146  Sum_probs=68.4

Q ss_pred             HHHHHHHhcCCCCCCccCC--------CC-C----CCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHh
Q 025813           80 RAKAYILNCQSYDGGFGLT--------PG-S----ESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQ  146 (247)
Q Consensus        80 ~~~~~l~~~Q~~dGGFg~~--------p~-~----~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~  146 (247)
                      +..++|++.|+++|||.-+        +. .    .-|-..|..+|..|+.+-....+-. .     .....++++||+.
T Consensus        27 ~~Ad~ll~~Q~~~GGW~Kn~d~~~~~~~~~~~~~sTiDn~AT~~~i~~La~~~~~~~d~~-~-----~~A~~Rgi~~LL~  100 (324)
T d1gxma_          27 SRADVVLSYQQNNGGWPKNLDYNSVGNGGGGNESGTIDNGATITEMVFLAEVYKSGGNTK-Y-----RDAVRKAANFLVN  100 (324)
T ss_dssp             GGHHHHHHTCCTTSCCCSCCCTTTCCCCCCCCSCEECGGGTTHHHHHHHHHHHHHHCCHH-H-----HHHHHHHHHHHHH
T ss_pred             hhhHHHHhcCCCCCCCCccccccCCCCCccCCCCCcccChHHHHHHHHHHHHHHhcCChh-H-----HHHHHHHHHHHHh
Confidence            4568899999999999732        11 0    1244557667766665532210000 0     1246789999999


Q ss_pred             cCCCCCccccc-cCC--------CCchhhHHHHHHHHHHhc---C--C----CCC----------CHHHHHHHHHhcCCC
Q 025813          147 RQAADGGFQGR-ANK--------PSDTCYAFWIGSVLRMLG---G--Y----NLI----------DKEALRGFLLTCQSQ  198 (247)
Q Consensus       147 ~Q~~dGgf~~~-~~~--------~~D~~~~y~a~~~L~lL~---~--~----~~~----------~~~~~~~~L~~~Q~~  198 (247)
                      .|.+||||.-. |..        .+|-.    .+.++.+|.   .  .    ..+          ..+++++||+++|-.
T Consensus       101 ~Q~~nGGWpqf~P~~~~y~~~ItFND~a----m~~vl~lL~~~a~~~~~~~~~~~~~~~r~r~~~A~~Rgi~~lL~~Q~~  176 (324)
T d1gxma_         101 SQYSTGALPQFYPLKGGYSDHATFNDNG----MAYALTVLDFAANKRAPFDTDVFSDNDRTRFKTAVTKGTDYILKAQWK  176 (324)
T ss_dssp             HCCTTSCCBSEESCCSGGGGSEECGGGH----HHHHHHHHHHHHTTCTTSCSTTSCHHHHHHHHHHHHHHHHHHHHHSCE
T ss_pred             hccCCCCccccccCCCCcccccCCCcHH----HHHHHHHhchhhccccchhHHHhhhhhhHhHHHHHHHHHHHHHHhhcc
Confidence            99999999743 221        23321    122333332   1  0    112          247899999999999


Q ss_pred             CCCcCC
Q 025813          199 YGGFGK  204 (247)
Q Consensus       199 ~GGf~~  204 (247)
                      +||+-.
T Consensus       177 ~gg~~t  182 (324)
T d1gxma_         177 QNGVLT  182 (324)
T ss_dssp             ETTEEC
T ss_pred             cCCCCC
Confidence            998643

>d1c3da_ a.102.4.4 (A:) C3D, a C3 fragment and ligand for complement receptor 2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha/alpha toroid
superfamily: Terpenoid cyclases/Protein prenyltransferases
family: Complement components
domain: C3D, a C3 fragment and ligand for complement receptor 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.94  E-value=0.00056  Score=56.00  Aligned_cols=71  Identities=15%  Similarity=0.004  Sum_probs=51.0

Q ss_pred             HHHHHHHHHhcCCCCCCccCCCCCCCChhhHHHHHHHHHHhCCccccccccCCCCCCCCHHHHHHHHHhcCCCCCccc
Q 025813           78 RERAKAYILNCQSYDGGFGLTPGSESHGGGTYCAVASLRLMGFIEDNVLSKNTSSSIIDLPLLLSWCLQRQAADGGFQ  155 (247)
Q Consensus        78 ~~~~~~~l~~~Q~~dGGFg~~p~~~s~~~~T~~al~~L~~lg~~~~~~~~~~~~~~~~~~~~~~~~l~~~Q~~dGgf~  155 (247)
                      ++++++-|+++|++||||+..++.+++...|.+++..|....+.-..+.       ..-..++..|+.+.|..+|.|.
T Consensus        56 i~~gi~rl~~~Q~~dGgf~~w~~~~~~~~lTayv~~~L~~A~~~g~~~~-------~~~~~~~~~~l~~~~~~~~~~~  126 (294)
T d1c3da_          56 IKKGYTQQLAFRQPSSAFAAFVKRAPSTWLTAYVVKVFSLAVNLIAIDS-------QVLCGAVKWLILEKQKPDGVFQ  126 (294)
T ss_dssp             HHHHHHHHHTTBCTTSCBCSSTTSCCCHHHHHHHHHHHHHTTTTSCCCH-------HHHHHHHHHHHHHHBCTTSCBC
T ss_pred             HHHHHHHHHHhcCCCCCcccCCCCCCCcchHHHHHHHHHHHHHhcccCh-------HHHHHHHHHHHHhhhhcCCCcc
Confidence            3566777889999999999999988999999999999888754321000       0113345556667788888875