Citrus Sinensis ID: 021695

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------31
Protein Sequence
MESSASGRALPHHREPFDWLTRPPLNLITTTAKHSLSVSLSRRLLHHHPLHARRLLHSSVKKLSRLCHIPRLKDQWCENAFRFNGVNFFRFTNDAFASSLSFFNGGGTRKNSGHEGTSHLDTARTNLFIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAAFANIVKIESRHTLTGETCYFIDPSKQMN
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccHHHHHHccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHcHHHHHHHcccccccccccccHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccEEEEcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHccHHHHHHHHHHHHHHHcccccHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHccccHHHccccccHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHccccccHHHcHcHHHHHHEEEEccccccc
Coil and Loop (DISEMBL)
messasgralphhrepfdwltrpplnlittTAKHSLSVSLSRRLLHHHPLHARRLLHSSVKKLSrlchiprlkdqwcenafrfngvnffrftndafasslsffngggtrknsghegtshldtartnlfIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYslnsigptmekicgprrylgVYFSSAIASSAmsyrfcnspavgasgaIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAAFANIVKIEsrhtltgetcyfidpskqmn
Flexible Loop (DISEMBL)
messasgralphhrepfdwltrpPLNLITTTAKHSLSVSLSRRLLHHHPLHARRLLHSSVKKLSRLCHIPRLKDQWCENAFRFNGVNFFRFTNDAFASSLSFFNGGGTRKNSGHEGTSHLDTARTNLFIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAAFANIVKIEsrhtltgetcyfidpskqmn
Low Complexity Region (SEG)
MESSASGRALPHHREPFDWLTRPPLNLITTTAKhslsvslsrrllhhhplharrllhssVKKLSRLCHIPRLKDQWCENAFRFNGVNFFRFTNDAFASSLSFFNGGGTRKNSGHEGTSHLDTARTNLFIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAAFANIVKIESRHTLTGETCYFIDPSKQMN
Disordered region (IsUnstruct)
****************FDWLTRPPLNLITTTAKHSLSVSLSRRLLHHHPLHARRLLHSSVKKLSRLCHIPRLKDQWCENAFRFNGVNFFRFTNDAFASSLSFFNGG*************LDTARTNLFIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAAFANIVKIESRHTLTGETCYFI*******
Disordered Region (DISOPRED)
************HREPFDWLTRPPLNLITTTAKHSLSVSLSRRLLHHHPLHARRLLHSSVKKLSRLCHIPRLKDQWCENAFRFNGVNFFRFTNDAFAS*****************************FIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAAFANIVKIESRHTLTGETCYFIDPSKQM*
Disordered Region (DISEMBL)
***********HHREPFDWLTRPPLNLITTTAKHSLSVSLSRRLLHHHPLHARRLLHSSVKKLSRLCHIPRLKDQWCENAFRFNGVNFFRFTNDAFASSLSFFNGGGT**********HLDTARTNLFIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAAFANIVKIESRHTLTGETCYFIDPSKQMN
Disordered Region (DISPRO)
*********LPHHREPFDWLTRPPLNLITTTAKHSLSVSLSRRLLHHHPLHARRLLHSSVKKLSRLCHIPRLKDQWCENAFRFNGVNFFRFTNDAFASSLSFFNG*******************TNLFIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAAFANIVKIESRHTLTGETCYFIDPS****
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHHooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiHHHHHHHHHHHHHHHHHHHHHooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MESSASGRALPHHREPFDWLTRPPLNLITTTAKHSLSVSLSRRLLHHHPLHARRLLHSSVKKLSRLCHIPRLKDQWCENAFRFNGVNFFRFTNDAFASSLSFFNGGGTRKNSGHEGTSHLDTARTNLFIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAAFANIVKIESRHTLTGETCYFIDPSKQMN
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	309	2.2.26 [Sep-21-2011]
P54493	507	Rhomboid protease GluP OS	yes	no	0.339	0.207	0.409	1e-16
Q695T9	283	Rhomboid-like protease 2	N/A	no	0.343	0.374	0.361	2e-11
P96617	199	Putative rhomboid proteas	no	no	0.375	0.582	0.354	2e-10
Q695U0	293	Rhomboid-like protease 1	N/A	no	0.404	0.426	0.353	4e-09
P46116	281	Rhomboid protease AarA OS	yes	no	0.404	0.444	0.315	4e-09
Q6IUY1	263	Rhomboid-like protease 3	N/A	no	0.436	0.513	0.294	2e-07
Q83PV6	276	Rhomboid protease GlpG OS	yes	no	0.362	0.405	0.283	1e-05
P53259	346	Rhomboid protein 1, mitoc	yes	no	0.262	0.234	0.348	2e-05
P58872	404	Rhomboid-related protein	yes	no	0.255	0.195	0.35	2e-05
B7NMI8	276	Rhomboid protease GlpG OS	yes	no	0.362	0.405	0.274	4e-05

>sp|P54493|GLUP_BACSU Rhomboid protease GluP OS=Bacillus subtilis (strain 168) GN=gluP PE=1 SV=2

 Score = 87.0 bits (214), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 43/105 (40%), Positives = 65/105 (61%)

Query: 153 DKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLG 212
           + L+ +GAK NSLI +G++WRL T   LH  IAHL  N  +L S+G  +E++ G  R+L 
Sbjct: 204 ETLVAFGAKENSLIAQGEWWRLLTPIVLHIGIAHLAFNTLALWSVGTAVERMYGSGRFLL 263

Query: 213 VYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNI 257
           +Y ++ I  S  S+ F   P+ GASGAIFG +G+     + +R +
Sbjct: 264 IYLAAGITGSIASFVFSPYPSAGASGAIFGCLGALLYVALSNRKM 308

Rhomboid-type serine protease that catalyzes intramembrane proteolysis. Important for normal cell division and sporulation. May act as a glucose exporter.
Bacillus subtilis (strain 168) (taxid: 224308)
EC: 3EC: .EC: 4EC: .EC: 2EC: 1EC: .EC: 1EC: 0EC: 5

>sp|Q695T9|RHBL2_TOXGO Rhomboid-like protease 2 OS=Toxoplasma gondii GN=ROM2 PE=2 SV=1

 Score = 70.5 bits (171), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 43/119 (36%), Positives = 61/119 (51%), Gaps = 13/119 (10%)

Query: 140 VNVLVYIAQFA-----------TQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLM 188
           V + VYIA  A           T   L+++GA I  LI  G+ WRL    FLH N+ H++
Sbjct: 68  VQIAVYIASLAAGLAPNEILAPTPQTLVMFGANIPELIRVGEIWRLICPLFLHLNLFHIL 127

Query: 189 VNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMS--YRFCNSPAVGASGAIFGLVG 245
           +N +    IG TME+  G +  L VYF   + ++ +S    FC     GAS A+F L+G
Sbjct: 128 MNLWVQIRIGLTMEEKYGWKMLLAVYFGVGVLANMISAAVLFCGQMKAGASTAVFALIG 186

Serine protease involved in intramembrane proteolysis and the subsequent release of polypeptides from their membrane anchors.

Toxoplasma gondii (taxid: 5811)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 1

EC: 0

EC: 5

>sp|P96617|YDCA_BACSU Putative rhomboid protease YdcA OS=Bacillus subtilis (strain 168) GN=ydcA PE=3 SV=1

 Score = 66.6 bits (161), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 44/124 (35%), Positives = 67/124 (54%), Gaps = 8/124 (6%)

Query: 166 IDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMS 225
           +  G++WRL T   LHA   HL+ N  S+    P +E++ G  R+L VY  S I  +  +
Sbjct: 53  VANGEWWRLITPILLHAGFTHLLFNSMSIFLFAPALERMLGKARFLLVYAGSGIIGNIGT 112

Query: 226 YRFCNSPA----VGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAA 281
           Y     P     VGASGAIFGL G + +F++  RN L  G+E  + +  ++ F ++ S  
Sbjct: 113 Y--VTEPLDYVHVGASGAIFGLFGVY-LFMVLFRNEL-IGQEHSKMIITLLAFAVLMSFI 168

Query: 282 FANI 285
            +NI
Sbjct: 169 NSNI 172

Bacillus subtilis (strain 168) (taxid: 224308)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: -

>sp|Q695U0|RHBL1_TOXGO Rhomboid-like protease 1 OS=Toxoplasma gondii GN=ROM1 PE=2 SV=1

 Score = 62.4 bits (150), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 47/133 (35%), Positives = 69/133 (51%), Gaps = 8/133 (6%)

Query: 132 QWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNC 191
            W   ++ V +   +      + L+ +GA    LI +GQ WRL    FLHAN  H+  N 
Sbjct: 70  DWIFYIVTVCLDTELPLIPAANILVHFGANYPPLIKQGQVWRLLLPVFLHANFFHVFFNV 129

Query: 192 YSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYR--FCNSPAVGASGAIFGLVG---- 245
           +    +G T+E+  G  ++ G+YF+SAI  + +S    FCNS  VGAS A FGL+G    
Sbjct: 130 FFQLRMGFTIERRYGLLKFTGLYFASAIYGNLLSATAFFCNSLKVGASTAGFGLIGIQIC 189

Query: 246 --SFAVFIMRHRN 256
             +     MRHR+
Sbjct: 190 EMALTWHRMRHRD 202

Serine protease involved in intramembrane proteolysis and the subsequent release of polypeptides from their membrane anchors. Has no detectable activity towards MIC2.

Toxoplasma gondii (taxid: 5811)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 1

EC: 0

EC: 5

>sp|P46116|AARA_PROST Rhomboid protease AarA OS=Providencia stuartii GN=aarA PE=1 SV=1

 Score = 62.4 bits (150), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 67/146 (45%), Gaps = 21/146 (14%)

Query: 129 IGRQWTNILLAVNVLVYIAQFAT-----QDKLLLWGAKINSLIDKGQFWRLATSAFLHAN 183
           I    T +LL + V  Y   FA+     +  L+L+GA I  L   G +WR   S  LH+N
Sbjct: 21  IALTLTLVLLNIAVYFYQIVFASPLDSRESNLILFGANIYQLSLTGDWWRYPISMMLHSN 80

Query: 184 IAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMS-----YRFCNSP------ 232
             HL  NC +L  IG   E+  G  + L +Y  S I ++  S     Y   NS       
Sbjct: 81  GTHLAFNCLALFVIGIGCERAYGKFKLLAIYIISGIGAALFSAYWQYYEISNSDLWTDST 140

Query: 233 -----AVGASGAIFGLVGSFAVFIMR 253
                 VGASGAI G+  +  +++++
Sbjct: 141 VYITIGVGASGAIMGIAAASVIYLIK 166

Rhomboid serine protease that catalyzes intramembrane proteolysis. Mediates quorum-sensing and the subsequent regulation of target genes via activation of the Tat protein export system. Catalyzes the proteolytic activation of tatA by removal of its N-terminal extension.

Providencia stuartii (taxid: 588)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 1

EC: 0

EC: 5

>sp|Q6IUY1|RHBL3_TOXGO Rhomboid-like protease 3 OS=Toxoplasma gondii GN=ROM3 PE=2 SV=1

 Score = 56.6 bits (135), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 43/146 (29%), Positives = 69/146 (47%), Gaps = 11/146 (7%)

Query: 114 HEGTSHLDTARTNLFIGRQWTNILLAVNV---LVYIAQFA-------TQDKLLLWGAKIN 163
           + G   L + +  +F G  W   ++ + V   ++YI            +  L+L GA   
Sbjct: 16  NSGDRTLRSWKDTVFPGISWDKSIVWITVAQIIMYIISCVLSRSYEPNERTLMLLGAAYA 75

Query: 164 SLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSA 223
                 Q WR+ T  FLHA I HL++N   +  I   +E+  G +++L  YF SAI  + 
Sbjct: 76  PAFSNFQLWRVVTPLFLHATILHLVLNLVFILHISLRLEERYGTKKFLVTYFLSAIVGNL 135

Query: 224 MSYRFCN-SPAVGASGAIFGLVGSFA 248
           +S      + +VGAS A FG++G  A
Sbjct: 136 LSMLMQPWALSVGASTAGFGIIGGMA 161

Serine protease involved in intramembrane proteolysis and the subsequent release of polypeptides from their membrane anchors.

Toxoplasma gondii (taxid: 5811)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 1

EC: 0

EC: 5

>sp|Q83PV6|GLPG_SHIFL Rhomboid protease GlpG OS=Shigella flexneri GN=glpG PE=3 SV=5

 Score = 50.8 bits (120), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 32/113 (28%), Positives = 56/113 (49%), Gaps = 1/113 (0%)

Query: 134 TNILLAVNVLVYIA-QFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCY 192
           T +++   V+V+IA Q     +++LW A       K +FWR  T A +H ++ H++ N  
Sbjct: 97  TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 156

Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVG 245
               +G  +EK  G  + + +   SA+ S  M  +F      G SG ++ L+G
Sbjct: 157 WWWYLGGAVEKRLGSGKLIVITLISALLSGYMQQKFSGPWFGGLSGVVYALMG 209

Rhomboid-type serine protease that catalyzes intramembrane proteolysis.

Shigella flexneri (taxid: 623)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 1

EC: 0

EC: 5

>sp|P53259|PCP1_YEAST Rhomboid protein 1, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PCP1 PE=1 SV=1

 Score = 50.4 bits (119), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 31/89 (34%), Positives = 48/89 (53%), Gaps = 8/89 (8%)

Query: 177 SAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCN------ 230
           SAF H    HL +N  +L S G ++  + G   +  +Y +SAIA S  S  +        
Sbjct: 189 SAFSHQEFWHLGMNMLALWSFGTSLATMLGASNFFSLYMNSAIAGSLFSLWYPKLARLAI 248

Query: 231 -SPAVGASGAIFGLVGSFAVFIMRHRNIL 258
             P++GASGA+FG++G F+ ++  H  IL
Sbjct: 249 VGPSLGASGALFGVLGCFS-YLFPHAKIL 276

Mitochondrial rhomboid serine protease processing the mitochondrial membrane fusion regulator MGM1, and the cytochrome c peroxidase (CCP1). Required for TIM11 stability, ATP synthase complex assembly, mitochondrial morphology, cytochrome c (CYC1) storage and mitochondrial genome maintenance.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 1

EC: 0

EC: 5

>sp|P58872|RHBL3_HUMAN Rhomboid-related protein 3 OS=Homo sapiens GN=RHBDL3 PE=2 SV=1

 Score = 49.7 bits (117), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 28/80 (35%), Positives = 42/80 (52%), Gaps = 1/80 (1%)

Query: 168 KGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASS-AMSY 226
           + Q WR  T  F+HA I HL +N      +G  +E + G  R   VY +  +A S A+S 
Sbjct: 208 RAQVWRYLTYIFMHAGIEHLGLNVVLQLLVGVPLEMVHGATRIGLVYVAGVVAGSLAVSV 267

Query: 227 RFCNSPAVGASGAIFGLVGS 246
               +P VG+SG ++ LV +
Sbjct: 268 ADMTAPVVGSSGGVYALVSA 287

May be involved in regulated intramembrane proteolysis and the subsequent release of functional polypeptides from their membrane anchors.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 1

EC: 0

EC: 5

>sp|B7NMI8|GLPG_ECO7I Rhomboid protease GlpG OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=glpG PE=3 SV=1

 Score = 48.9 bits (115), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 31/113 (27%), Positives = 56/113 (49%), Gaps = 1/113 (0%)

Query: 134 TNILLAVNVLVYIA-QFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCY 192
           T +++   V+V+IA Q     +++LW A       K +FWR  T A +H ++ H++ N  
Sbjct: 97  TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 156

Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVG 245
               +G  +EK  G  + + +   SA+ S  +  +F      G SG ++ L+G
Sbjct: 157 WWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWFGGLSGVVYALMG 209

Rhomboid-type serine protease that catalyzes intramembrane proteolysis.

Escherichia coli O7:K1 (strain IAI39 / ExPEC) (taxid: 585057)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 1

EC: 0

EC: 5

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	309
255581209	340	KOM, putative [Ricinus communis] gi|2235	0.831	0.755	0.609	5e-89
224073304	325	predicted protein [Populus trichocarpa]	0.828	0.787	0.590	2e-85
118483595	325	unknown [Populus trichocarpa]	0.828	0.787	0.587	7e-85
225448034	330	PREDICTED: rhomboid protease gluP [Vitis	0.822	0.769	0.590	2e-80
363807582	342	uncharacterized protein LOC100805315 [Gl	0.815	0.736	0.583	2e-73
357452411	327	Rhomboid protease gluP [Medicago truncat	0.779	0.737	0.564	4e-71
388500820	327	unknown [Medicago truncatula]	0.779	0.737	0.560	4e-70
334182855	336	RHOMBOID-like protein 10 [Arabidopsis th	0.799	0.735	0.517	2e-64
388498512	220	unknown [Lotus japonicus]	0.491	0.690	0.763	5e-63
30689150	343	RHOMBOID-like protein 10 [Arabidopsis th	0.799	0.720	0.5	8e-62

>gi|255581209|ref|XP_002531417.1| KOM, putative [Ricinus communis] gi|223528967|gb|EEF30959.1| KOM, putative [Ricinus communis]

 Score =  333 bits (855), Expect = 5e-89,   Method: Compositional matrix adjust.
 Identities = 164/269 (60%), Positives = 201/269 (74%), Gaps = 12/269 (4%)

Query: 13  HREPFDWLTRPPLNLITTTAKHSLSVSLSRRLLHHHPLHARRLLHSSVKKLSRLCHIPRL 72
           H +P  W+   P+    TT  H ++ + S RL          LLHSS KKLS LCH+PRL
Sbjct: 19  HHQPIWWVQFQPVGPTPTTPFHLIATATSLRL--------SFLLHSSFKKLSHLCHVPRL 70

Query: 73  KDQWCENAFRFNGVNFFRFTNDAFASS----LSFFNGGGTRKNSGHEGTSHLDTARTNLF 128
           KD WC  A +F G++F + +ND  AS+    LSFFNGG T K  G +G  + + +++N F
Sbjct: 71  KDIWCRKASQFKGIDFLQISNDVLASTTSHCLSFFNGGETGKGHGIQGAPYSEASKSNSF 130

Query: 129 IGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLM 188
            GR+WTNILLA+N+LV+ AQFATQ KLL WGAK+NSLIDKGQFWRL TS+FLHANI HLM
Sbjct: 131 NGRKWTNILLAINILVFAAQFATQGKLLFWGAKVNSLIDKGQFWRLVTSSFLHANIGHLM 190

Query: 189 VNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFA 248
           VN YSLNSIGPT+E + GPRR+L VYF+SAIASSA SY FC +PAVGASGAIFGLVGS A
Sbjct: 191 VNSYSLNSIGPTIENLSGPRRFLAVYFTSAIASSATSYWFCKAPAVGASGAIFGLVGSLA 250

Query: 249 VFIMRHRNILGGGKEELQHLAKVIIFNMV 277
           VF++RHR ++ GGKEELQH+A+VI+ NMV
Sbjct: 251 VFVIRHRGMIRGGKEELQHIAQVILLNMV 279

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224073304|ref|XP_002304070.1| predicted protein [Populus trichocarpa] gi|222841502|gb|EEE79049.1| predicted protein [Populus trichocarpa]

 Score =  322 bits (824), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 166/281 (59%), Positives = 201/281 (71%), Gaps = 25/281 (8%)

Query: 1   MESSASGRALPHHREPFDWLTRPPLNLITTTAKHSLSVSLSRRLLHHHPLHARRLLHSSV 60
           M SS S    P  R P       PLNLITT A                 L    L+HSS 
Sbjct: 2   MGSSLSASPQPLWRVPIQ-----PLNLITTVAS----------------LRFGFLVHSSF 40

Query: 61  KKLSRLCHIPRLKDQWCENAFRFNGVNFFRFTNDAFASS----LSFFNGGGTRKNSGHEG 116
           K +S L H+PRLKD W E A +  G++  +F+ND FAS+    L FFNGGGTRK   +EG
Sbjct: 41  KNISHLYHVPRLKDVWHEKASQLQGIDVLQFSNDVFASTCSSCLCFFNGGGTRKGFRNEG 100

Query: 117 TSHLDTARTNLFIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLAT 176
           + +L+T+  + F GRQWTNILLA+N+LVY AQ AT+ KLL WGAK+NSLIDKGQFWRLAT
Sbjct: 101 SPNLETSGRSSFNGRQWTNILLAINILVYFAQIATRGKLLFWGAKVNSLIDKGQFWRLAT 160

Query: 177 SAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGA 236
           S+ LHANI HLMVNCYSLNS+GPT+E + GPRR++ VY +SAIASSAMSY FC +PAVGA
Sbjct: 161 SSVLHANIGHLMVNCYSLNSVGPTIENLSGPRRFIAVYLTSAIASSAMSYWFCRAPAVGA 220

Query: 237 SGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMV 277
           SGAIFGLVGS AVF++RHR ++GGGKE+LQ++AKVI  NM+
Sbjct: 221 SGAIFGLVGSLAVFVIRHRRMIGGGKEDLQNIAKVIFLNMM 261

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118483595|gb|ABK93694.1| unknown [Populus trichocarpa]

 Score =  320 bits (819), Expect = 7e-85,   Method: Compositional matrix adjust.
 Identities = 165/281 (58%), Positives = 200/281 (71%), Gaps = 25/281 (8%)

Query: 1   MESSASGRALPHHREPFDWLTRPPLNLITTTAKHSLSVSLSRRLLHHHPLHARRLLHSSV 60
           M SS S    P  R P       PLNLITT A                 L    L+HSS 
Sbjct: 2   MGSSLSASPQPLWRVPIQ-----PLNLITTVAS----------------LRFGFLVHSSF 40

Query: 61  KKLSRLCHIPRLKDQWCENAFRFNGVNFFRFTNDAFASS----LSFFNGGGTRKNSGHEG 116
           K +S L H+PRLKD W E A +  G++  +F+ND FAS+    L FFNGGGTRK   +EG
Sbjct: 41  KNISHLYHVPRLKDVWHEKASQLQGIDVLQFSNDVFASTCSSCLCFFNGGGTRKGFRNEG 100

Query: 117 TSHLDTARTNLFIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLAT 176
           + +L+T+  + F GRQWTNILLA+N+LVY AQ AT+ KLL WGAK+NSLIDKGQFWRLAT
Sbjct: 101 SPNLETSGRSSFNGRQWTNILLAINILVYFAQIATRGKLLFWGAKVNSLIDKGQFWRLAT 160

Query: 177 SAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGA 236
           S+ LHANI HLMVNCYSLNS+GPT+E + GPRR++ VY +SAIASSAMSY FC +PAVGA
Sbjct: 161 SSVLHANIGHLMVNCYSLNSVGPTIENLSGPRRFIAVYLTSAIASSAMSYWFCRAPAVGA 220

Query: 237 SGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMV 277
           SGAIFGLVGS AVF++RHR ++GG KE+LQ++AKVI  NM+
Sbjct: 221 SGAIFGLVGSLAVFVIRHRRMIGGAKEDLQNIAKVIFLNMM 261

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225448034|ref|XP_002273377.1| PREDICTED: rhomboid protease gluP [Vitis vinifera] gi|298204568|emb|CBI23843.3| unnamed protein product [Vitis vinifera]

 Score =  305 bits (780), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 156/264 (59%), Positives = 193/264 (73%), Gaps = 10/264 (3%)

Query: 21  TRPPLNLITTTAKHSLSVSLSRRL---LHHHPLHARRLLHSSVKKLSRLCHIPRLKDQWC 77
           +R PL+ +  T  H ++ + S RL   +H   +H    L SS K+L+ L H+P LK+ W 
Sbjct: 10  SRFPLSKVGPTPAHLITTAASLRLGHFIHRQYIHLGFFLRSSFKRLAHLAHVPGLKNIWF 69

Query: 78  ENAFRFNGVNFFRFTNDAFASS----LSFFNGGGTRKNSGHEGTSHLDTARTNLFIGRQW 133
             A +F G++F    +D+F+++    L FF G  TRK S  EG S+ +  R N   GRQW
Sbjct: 70  GKAIQFQGISF---PSDSFSATCSSYLYFFGGEETRKGSRDEGMSYSEAPRRNSLRGRQW 126

Query: 134 TNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYS 193
           TNIL+A+NVLV+I Q ATQ KLLLWGAKINSLIDKGQFWRLATS+FLHANI HLMVNC+S
Sbjct: 127 TNILIAINVLVFIGQAATQGKLLLWGAKINSLIDKGQFWRLATSSFLHANIGHLMVNCFS 186

Query: 194 LNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMR 253
           LNS+GPT+E + GPRRYL VYF+SAIASSAMSY  C  PAVGASGAIFGLVGS AVF+MR
Sbjct: 187 LNSVGPTVENLSGPRRYLAVYFTSAIASSAMSYWLCKGPAVGASGAIFGLVGSVAVFMMR 246

Query: 254 HRNILGGGKEELQHLAKVIIFNMV 277
           HR ++G  KE LQH+A+VI+ NMV
Sbjct: 247 HRGLVGDSKESLQHIARVIVLNMV 270

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363807582|ref|NP_001242663.1| uncharacterized protein LOC100805315 [Glycine max] gi|255640088|gb|ACU20335.1| unknown [Glycine max]

 Score =  281 bits (719), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 151/259 (58%), Positives = 178/259 (68%), Gaps = 7/259 (2%)

Query: 24  PLNLITTTAKHSLSVSLSRRLLHHHPLHARRLLHSSVKKLSRLCHIPRLKDQWCENAFRF 83
           PL+LI T A       L RR  HH  L    LLHS  KKL+ L HI RL D+WC+  F+ 
Sbjct: 22  PLDLIATAASLHFGHLLRRRATHH--LRLGVLLHSCFKKLAPLTHIFRLNDKWCQRCFQL 79

Query: 84  NGVNFFRFTNDAFASSLSFFNGGGTRKNSG-----HEGTSHLDTARTNLFIGRQWTNILL 138
           NG+N+ + +     SS S           G       G S+   +  + F GR+WT ILL
Sbjct: 80  NGLNYLQLSTGDLTSSWSTSFSFFNGGGDGGRRYGKAGMSNSKMSGKDPFNGRKWTEILL 139

Query: 139 AVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIG 198
           A NVL YIAQ ATQ KLLLWGAKINSLIDKGQ WRLATS+FLHANI HL+VNCYSLNS+G
Sbjct: 140 AANVLFYIAQLATQGKLLLWGAKINSLIDKGQLWRLATSSFLHANIGHLLVNCYSLNSVG 199

Query: 199 PTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNIL 258
           PT+E   GPRR+L VYF SAIASSA SY FC  PAVGASGAIFGLVGS AVF++RH++++
Sbjct: 200 PTVESFSGPRRFLAVYFISAIASSATSYWFCRMPAVGASGAIFGLVGSVAVFVLRHKDLV 259

Query: 259 GGGKEELQHLAKVIIFNMV 277
           GGGK +LQH+A+VI  NMV
Sbjct: 260 GGGKRDLQHIAQVIALNMV 278

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357452411|ref|XP_003596482.1| Rhomboid protease gluP [Medicago truncatula] gi|355485530|gb|AES66733.1| Rhomboid protease gluP [Medicago truncatula]

 Score =  274 bits (700), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 145/257 (56%), Positives = 185/257 (71%), Gaps = 16/257 (6%)

Query: 24  PLNLITTTAKHSLSVSLSRRLLHHHPLHARRLLHSSVKKLSRLCHIPRLKDQWCENAFRF 83
           PL++I T A    S  +S RL  H       LL S  +KL+    + RLKD+WC+   + 
Sbjct: 18  PLDIIATAASFHFSHRVSHRLRLHF------LLRSCFQKLA---PVFRLKDKWCQKYLQL 68

Query: 84  NGVNFFRFTNDAFAS----SLSFFNGGGTRKNSGHEGTSHLDTARTNLFIGRQWTNILLA 139
            G+N+ + ++D   S    S SFFNGG    +SG+  +     +R N F GR+WTNILLA
Sbjct: 69  KGLNYLQLSSDGLTSACSTSFSFFNGGRPEASSGNSDS---KMSRKNPFNGRKWTNILLA 125

Query: 140 VNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGP 199
            NVL Y+AQ ATQ KLL WGAK+NSLIDKGQ WRL TS+FLHANI HLM+NCYSLNS+GP
Sbjct: 126 ANVLFYVAQLATQGKLLSWGAKVNSLIDKGQVWRLVTSSFLHANIGHLMINCYSLNSVGP 185

Query: 200 TMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILG 259
           T+E   GPRRYL +YF+S+IAS+AMSYRFC  PAVGASGAIFGLVGS AVF++RH++++G
Sbjct: 186 TVESFSGPRRYLAIYFASSIASAAMSYRFCKMPAVGASGAIFGLVGSVAVFVLRHKDLVG 245

Query: 260 GGKEELQHLAKVIIFNM 276
           GGK++LQH+A+VI  N+
Sbjct: 246 GGKKDLQHIAQVIALNL 262

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388500820|gb|AFK38476.1| unknown [Medicago truncatula]

 Score =  271 bits (692), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 144/257 (56%), Positives = 184/257 (71%), Gaps = 16/257 (6%)

Query: 24  PLNLITTTAKHSLSVSLSRRLLHHHPLHARRLLHSSVKKLSRLCHIPRLKDQWCENAFRF 83
           PL++I T A    S  +S RL  H       LL S  +KL+ +    RLKD+WC+   + 
Sbjct: 18  PLDIIATAASFHFSHRVSHRLRLHF------LLRSCFQKLAPVF---RLKDKWCQKYLQL 68

Query: 84  NGVNFFRFTNDAFAS----SLSFFNGGGTRKNSGHEGTSHLDTARTNLFIGRQWTNILLA 139
            G+N+ + ++D   S    S SFFNGG    +SG+  +     +R N F GR+WTNILLA
Sbjct: 69  KGLNYLQLSSDGLTSACSTSFSFFNGGRPEASSGNSDS---KMSRKNPFNGRKWTNILLA 125

Query: 140 VNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGP 199
            NVL Y+AQ ATQ KLL WGAK+NSLIDKGQ WRL TS+FLHANI HLM+NCYSLNS+GP
Sbjct: 126 ANVLFYVAQLATQGKLLSWGAKVNSLIDKGQVWRLVTSSFLHANIGHLMINCYSLNSVGP 185

Query: 200 TMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILG 259
           T+E   GPRRYL +YF+S+IAS+AMSYRFC  PAVGASGAIFGLVGS AVF++RH++++G
Sbjct: 186 TVESFSGPRRYLAIYFASSIASAAMSYRFCKMPAVGASGAIFGLVGSVAVFVLRHKDLVG 245

Query: 260 GGKEELQHLAKVIIFNM 276
           GG ++LQH+A+VI  N+
Sbjct: 246 GGIKDLQHIAQVIALNL 262

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334182855|ref|NP_001185093.1| RHOMBOID-like protein 10 [Arabidopsis thaliana] gi|332192482|gb|AEE30603.1| RHOMBOID-like protein 10 [Arabidopsis thaliana]

 Score =  252 bits (643), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 132/255 (51%), Positives = 173/255 (67%), Gaps = 8/255 (3%)

Query: 30  TTAKHSLSVSLSRRLLHHHPLHARRLLH--SSVKKLSRLCHIPRLKDQWCENAFRFNGVN 87
           +TA    + + S    HH   H R   H  SS+KKL       R+K    +  F FNG N
Sbjct: 18  STAFRGFATAASVHACHHVSRHLRLDFHLRSSLKKLQHFSDDARMKFARYQRVFVFNGAN 77

Query: 88  FFRFTNDAFASSLS----FFNGGGTRKN--SGHEGTSHLDTARTNLFIGRQWTNILLAVN 141
           F +   D   S  S    FFNGG +R N   G EG+S+ +T++ N   GR+WTN+LLA+N
Sbjct: 78  FLKSRVDIRLSQSSPFVCFFNGGESRLNPRGGEEGSSNPETSKRNTVNGRRWTNVLLAIN 137

Query: 142 VLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTM 201
           V++YIAQ A+  K+L WGAKINSLI++GQ WRLAT++ LHAN  HLM+NCYSLNSIGPT 
Sbjct: 138 VIMYIAQIASDGKVLTWGAKINSLIERGQLWRLATASVLHANPMHLMINCYSLNSIGPTA 197

Query: 202 EKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGG 261
           E + GP+R+L VY +SA+ASSAMSY F  +P+VGASGAIFGLVGS AVF++RH+ ++ GG
Sbjct: 198 ESLGGPKRFLAVYLTSAVASSAMSYWFNKAPSVGASGAIFGLVGSVAVFVIRHKQMVRGG 257

Query: 262 KEELQHLAKVIIFNM 276
            E+L  +A++I  NM
Sbjct: 258 NEDLMQIAQIIALNM 272

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388498512|gb|AFK37322.1| unknown [Lotus japonicus]

 Score =  247 bits (631), Expect = 5e-63,   Method: Compositional matrix adjust.
 Identities = 116/152 (76%), Positives = 134/152 (88%)

Query: 126 NLFIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIA 185
           N F  R+WTNILLA NVL +IAQ ATQ KLLLWGAK+NSLIDKGQ WRLATS+FLHANI 
Sbjct: 5   NPFNRRKWTNILLAANVLFFIAQLATQGKLLLWGAKVNSLIDKGQIWRLATSSFLHANIG 64

Query: 186 HLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVG 245
           HLM+NC+SLNS+GPT+E+  GPRR+L VYF SAIASSAMSY FC  PAVGASGAIFGLVG
Sbjct: 65  HLMINCFSLNSVGPTVERFSGPRRFLAVYFISAIASSAMSYWFCKMPAVGASGAIFGLVG 124

Query: 246 SFAVFIMRHRNILGGGKEELQHLAKVIIFNMV 277
           S AVF++RHR+I+GGGKE+LQH+A+VI+ NMV
Sbjct: 125 SVAVFVLRHRDIVGGGKEDLQHIARVIVLNMV 156

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30689150|ref|NP_173900.2| RHOMBOID-like protein 10 [Arabidopsis thaliana] gi|332192481|gb|AEE30602.1| RHOMBOID-like protein 10 [Arabidopsis thaliana]

 Score =  243 bits (620), Expect = 8e-62,   Method: Compositional matrix adjust.
 Identities = 131/262 (50%), Positives = 172/262 (65%), Gaps = 15/262 (5%)

Query: 30  TTAKHSLSVSLSRRLLHHHPLHARRLLH--SSVKKLSRLCHIPRLKDQWCENAFRFNGVN 87
           +TA    + + S    HH   H R   H  SS+KKL       R+K    +  F FNG N
Sbjct: 18  STAFRGFATAASVHACHHVSRHLRLDFHLRSSLKKLQHFSDDARMKFARYQRVFVFNGAN 77

Query: 88  FFRFTNDAFASSLS----FFNGGGTRKN--SGHEGTSHLDTARTNLFIGRQWTNILLAVN 141
           F +   D   S  S    FFNGG +R N   G EG+S+ +T++ N   GR+WTN+LLA+N
Sbjct: 78  FLKSRVDIRLSQSSPFVCFFNGGESRLNPRGGEEGSSNPETSKRNTVNGRRWTNVLLAIN 137

Query: 142 VLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTM 201
           V++YIAQ A+  K+L WGAKINSLI++GQ WRLAT++ LHAN  HLM+NCYSLNSIGPT 
Sbjct: 138 VIMYIAQIASDGKVLTWGAKINSLIERGQLWRLATASVLHANPMHLMINCYSLNSIGPTA 197

Query: 202 EKICGPRRYLGVYFSSAIAS-------SAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRH 254
           E + GP+R+L VY +SA+A        SAMSY F  +P+VGASGAIFGLVGS AVF++RH
Sbjct: 198 ESLGGPKRFLAVYLTSAVAKPILRVLGSAMSYWFNKAPSVGASGAIFGLVGSVAVFVIRH 257

Query: 255 RNILGGGKEELQHLAKVIIFNM 276
           + ++ GG E+L  +A++I  NM
Sbjct: 258 KQMVRGGNEDLMQIAQIIALNM 279

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	309
TAIR|locus:2032940	343	RBL10 "RHOMBOID-like protein 1	0.702	0.632	0.526	1.1e-57
UNIPROTKB|Q8EI50	528	SO_1000 "Rhomboid protease" [S	0.398	0.232	0.371	1.5e-12
TIGR_CMR|SO_1000	528	SO_1000 "rhomboid family prote	0.398	0.232	0.371	1.5e-12
TAIR|locus:2159808	434	AT5G38510 [Arabidopsis thalian	0.401	0.285	0.309	4.2e-11
UNIPROTKB|Q81VF8	190	BAS0235 "Rhomboid family prote	0.378	0.615	0.305	3.8e-10
TIGR_CMR|BA_0249	190	BA_0249 "rhomboid family prote	0.378	0.615	0.305	3.8e-10
TAIR|locus:2182925	346	RBL3 "RHOMBOID-like protein 3"	0.368	0.329	0.373	1.6e-09
DICTYBASE|DDB_G0295849	489	DDB_G0295849 "rhomboid family	0.336	0.212	0.361	2.6e-09
UNIPROTKB|Q5HUF9	172	CJE1083 "Rhomboid family prote	0.362	0.651	0.312	3e-09
TIGR_CMR|CJE_1083	172	CJE_1083 "rhomboid family prot	0.362	0.651	0.312	3e-09

TAIR|locus:2032940 RBL10 "RHOMBOID-like protein 10" [Arabidopsis thaliana (taxid:3702)]

 Score = 593 (213.8 bits), Expect = 1.1e-57, P = 1.1e-57
 Identities = 121/230 (52%), Positives = 159/230 (69%)

Query:    60 VKKLSRLCHIPRLKDQWCENAFRFNGVNFFRFTNDAFASSLS----FFNGGGTRKN--SG 113
             +KKL       R+K    +  F FNG NF +   D   S  S    FFNGG +R N   G
Sbjct:    50 LKKLQHFSDDARMKFARYQRVFVFNGANFLKSRVDIRLSQSSPFVCFFNGGESRLNPRGG 109

Query:   114 HEGTSHLDTARTNLFIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWR 173
              EG+S+ +T++ N   GR+WTN+LLA+NV++YIAQ A+  K+L WGAKINSLI++GQ WR
Sbjct:   110 EEGSSNPETSKRNTVNGRRWTNVLLAINVIMYIAQIASDGKVLTWGAKINSLIERGQLWR 169

Query:   174 LATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIAS-------SAMSY 226
             LAT++ LHAN  HLM+NCYSLNSIGPT E + GP+R+L VY +SA+A        SAMSY
Sbjct:   170 LATASVLHANPMHLMINCYSLNSIGPTAESLGGPKRFLAVYLTSAVAKPILRVLGSAMSY 229

Query:   227 RFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNM 276
              F  +P+VGASGAIFGLVGS AVF++RH+ ++ GG E+L  +A++I  NM
Sbjct:   230 WFNKAPSVGASGAIFGLVGSVAVFVIRHKQMVRGGNEDLMQIAQIIALNM 279

GO:0004252 "serine-type endopeptidase activity" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISM

GO:0006508 "proteolysis" evidence=IEA

GO:0031969 "chloroplast membrane" evidence=IDA

UNIPROTKB|Q8EI50 SO_1000 "Rhomboid protease" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 189 (71.6 bits), Expect = 1.5e-12, P = 1.5e-12
 Identities = 49/132 (37%), Positives = 72/132 (54%)

Query:   129 IGRQWTNILLAVNVLVYIAQ-FATQ------DKLLL-WGAKINSLIDKGQFWRLATSAFL 180
             +G   T ILL   VL+++   FA+       + +LL WGA +  L+   Q WRL ++ FL
Sbjct:   332 VGFVITPILLLSKVLIFMLMVFASHHFITLPNSVLLDWGANLRQLVLDQQVWRLISNVFL 391

Query:   181 HANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSP-AVGASGA 239
             H  + HL+ N Y L   G  +E + G  R LGVY  S +A+S  S  +  +  ++GASGA
Sbjct:   392 HGGLMHLIFNLYGLFFAGIFLEPLLGKWRLLGVYLMSGLAASIASISWYEATISIGASGA 451

Query:   240 IFGLVGSFAVFI 251
             I GL G   ++I
Sbjct:   452 IMGLFGVLIMWI 463

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|SO_1000 SO_1000 "rhomboid family protein" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 189 (71.6 bits), Expect = 1.5e-12, P = 1.5e-12
 Identities = 49/132 (37%), Positives = 72/132 (54%)

Query:   129 IGRQWTNILLAVNVLVYIAQ-FATQ------DKLLL-WGAKINSLIDKGQFWRLATSAFL 180
             +G   T ILL   VL+++   FA+       + +LL WGA +  L+   Q WRL ++ FL
Sbjct:   332 VGFVITPILLLSKVLIFMLMVFASHHFITLPNSVLLDWGANLRQLVLDQQVWRLISNVFL 391

Query:   181 HANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSP-AVGASGA 239
             H  + HL+ N Y L   G  +E + G  R LGVY  S +A+S  S  +  +  ++GASGA
Sbjct:   392 HGGLMHLIFNLYGLFFAGIFLEPLLGKWRLLGVYLMSGLAASIASISWYEATISIGASGA 451

Query:   240 IFGLVGSFAVFI 251
             I GL G   ++I
Sbjct:   452 IMGLFGVLIMWI 463

GO:0008150 "biological_process" evidence=ND

GO:0003674 "molecular_function" evidence=ND

TAIR|locus:2159808 AT5G38510 [Arabidopsis thaliana (taxid:3702)]

 Score = 176 (67.0 bits), Expect = 4.2e-11, P = 4.2e-11
 Identities = 39/126 (30%), Positives = 72/126 (57%)

Query:   156 LLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYF 215
             LL+GAKIN LI  G++WRL T  FLH+ I H+ ++ ++L + GP + +  G   +  +Y 
Sbjct:   216 LLYGAKINDLILAGEWWRLVTPMFLHSGIPHVALSSWALLTFGPKVCRDYGLFTFCLIYI 275

Query:   216 SSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGK-EELQHLAKVII- 273
                ++ + MS+     P VG +G  F L+G++ V   +++ ++   + E+L   A ++  
Sbjct:   276 LGGVSGNFMSFLHTADPTVGGTGPAFALIGAWLVDQNQNKEMIKSNEYEDLFQKAIIMTG 335

Query:   274 FNMVCS 279
             F ++ S
Sbjct:   336 FGLILS 341

GO:0004252 "serine-type endopeptidase activity" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISM

GO:0006508 "proteolysis" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

UNIPROTKB|Q81VF8 BAS0235 "Rhomboid family protein" [Bacillus anthracis (taxid:1392)]

 Score = 148 (57.2 bits), Expect = 3.8e-10, P = 3.8e-10
 Identities = 37/121 (30%), Positives = 63/121 (52%)

Query:   138 LAVNVL-VYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNS 196
             +A+++L +        D  L   A  +  I  G++WRL TS F+H ++ H + N   L  
Sbjct:    13 IAISLLLIQFIMIMLGDFFLFPMAAYHEYIANGEWWRLITSLFVHVDLQHFLSNSICLFV 72

Query:   197 IGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAV--GASGAIFGLVGSFAVFIMRH 254
             +G ++EK  G   ++ ++F S I  +  SY       +  GASG IFGL+G+  +F++  
Sbjct:    73 LGSSIEKQLGRFSFIIIFFLSGILGNIFSYLIMPHEYIHAGASGGIFGLLGA-QLFLLYS 131

Query:   255 R 255
             R
Sbjct:   132 R 132

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|BA_0249 BA_0249 "rhomboid family protein" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 148 (57.2 bits), Expect = 3.8e-10, P = 3.8e-10
 Identities = 37/121 (30%), Positives = 63/121 (52%)

Query:   138 LAVNVL-VYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNS 196
             +A+++L +        D  L   A  +  I  G++WRL TS F+H ++ H + N   L  
Sbjct:    13 IAISLLLIQFIMIMLGDFFLFPMAAYHEYIANGEWWRLITSLFVHVDLQHFLSNSICLFV 72

Query:   197 IGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAV--GASGAIFGLVGSFAVFIMRH 254
             +G ++EK  G   ++ ++F S I  +  SY       +  GASG IFGL+G+  +F++  
Sbjct:    73 LGSSIEKQLGRFSFIIIFFLSGILGNIFSYLIMPHEYIHAGASGGIFGLLGA-QLFLLYS 131

Query:   255 R 255
             R
Sbjct:   132 R 132

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2182925 RBL3 "RHOMBOID-like protein 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 161 (61.7 bits), Expect = 1.6e-09, P = 1.6e-09
 Identities = 43/115 (37%), Positives = 61/115 (53%)

Query:   163 NSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASS 222
             + +++K + WRL T  +LHA + HL  N  SL  IG  +E+  G  R   +Y  S I  S
Sbjct:   126 SKVVEKKEGWRLLTCIWLHAGVIHLGANMLSLVFIGIRLEQQFGFVRIGVIYLLSGIGGS 185

Query:   223 AMSYRFC-NSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNM 276
              +S  F  NS +VGASGA+FGL+GS    +  +  I       L  L  VI+ N+
Sbjct:   186 VLSSLFIRNSISVGASGALFGLLGSMLSELFTNWTIYSNKIAALLTLLFVILINL 240

GO:0004252 "serine-type endopeptidase activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006508 "proteolysis" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0009506 "plasmodesma" evidence=IDA

DICTYBASE|DDB_G0295849 DDB_G0295849 "rhomboid family protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 162 (62.1 bits), Expect = 2.6e-09, P = 2.6e-09
 Identities = 38/105 (36%), Positives = 57/105 (54%)

Query:   155 LLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVY 214
             LL  GAK + LI  G++WR  T  FLH  I H ++N  +   +G  +E+  G  R + +Y
Sbjct:   277 LLDVGAKYSPLILNGEWWRFFTPIFLHVGIFHYLMNMVTQLRVGMQLERAYGGHRIVPIY 336

Query:   215 FSSAIASSAMS-YRFCNSPAVGASGAIFGLVGSFAVFIMRHRNIL 258
                 +A +  S     NS  VGASGAIFG +G     ++R+ ++L
Sbjct:   337 LLCGVAGNLCSAIMLPNSVQVGASGAIFGFLGVLLTDLIRNWSVL 381

GO:0016021 "integral to membrane" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA;ISS

GO:0004252 "serine-type endopeptidase activity" evidence=IEA

GO:0008236 "serine-type peptidase activity" evidence=ISS

UNIPROTKB|Q5HUF9 CJE1083 "Rhomboid family protein" [Campylobacter jejuni RM1221 (taxid:195099)]

 Score = 140 (54.3 bits), Expect = 3.0e-09, P = 3.0e-09
 Identities = 39/125 (31%), Positives = 63/125 (50%)

Query:   134 TNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYS 193
             T  L+ +N+L Y     + D   + G  +N L   G +W+L +S FLH N+ HL++N   
Sbjct:     3 TIFLIFLNILCYF--LISYDYYNILG--LNILFFNGAYWQLLSSMFLHGNLTHLILNMIV 58

Query:   194 LNSIGPTMEKICGPRRYLGVYFSSAIASSAMS-------YRFC--NSPAVGASGAIFGLV 244
             L   G  +E   G   ++ +YF   +  S +S       +++   N   +GASGAI  L+
Sbjct:    59 LFQFGRMLETYLGALCFIFIYFIGGLLCSLLSVFYVYFDFKYFGENINVIGASGAICVLM 118

Query:   245 GSFAV 249
             G +AV
Sbjct:   119 GFYAV 123

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|CJE_1083 CJE_1083 "rhomboid family protein" [Campylobacter jejuni RM1221 (taxid:195099)]

 Score = 140 (54.3 bits), Expect = 3.0e-09, P = 3.0e-09
 Identities = 39/125 (31%), Positives = 63/125 (50%)

Query:   134 TNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYS 193
             T  L+ +N+L Y     + D   + G  +N L   G +W+L +S FLH N+ HL++N   
Sbjct:     3 TIFLIFLNILCYF--LISYDYYNILG--LNILFFNGAYWQLLSSMFLHGNLTHLILNMIV 58

Query:   194 LNSIGPTMEKICGPRRYLGVYFSSAIASSAMS-------YRFC--NSPAVGASGAIFGLV 244
             L   G  +E   G   ++ +YF   +  S +S       +++   N   +GASGAI  L+
Sbjct:    59 LFQFGRMLETYLGALCFIFIYFIGGLLCSLLSVFYVYFDFKYFGENINVIGASGAICVLM 118

Query:   245 GSFAV 249
             G +AV
Sbjct:   119 GFYAV 123

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.21	LOW CONFIDENCE prediction!
3rd Layer	3.4.21.105	0.737

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	estExt_fgenesh4_pg.C_LG_III0079	SubName- Full=Putative uncharacterized protein; (325 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	ACT8	actin 8 (376 aa)							•		0.688
	gw1.VI.85.1	hypothetical protein (242 aa)			•				•		0.548

---

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	309
pfam01694	146	pfam01694, Rhomboid, Rhomboid family	1e-25
COG0705	228	COG0705, COG0705, Membrane associated serine prote	3e-18
PTZ00101	278	PTZ00101, PTZ00101, rhomboid-1 protease; Provision	1e-12
TIGR03902	154	TIGR03902, rhom_GG_sort, rhomboid family GlyGly-CT	5e-08
TIGR04239	271	TIGR04239, rhombo_GlpG, rhomboid family protease G	1e-07
PRK10907	276	PRK10907, PRK10907, intramembrane serine protease	4e-06

>gnl|CDD|216649 pfam01694, Rhomboid, Rhomboid family

 Score = 99.2 bits (248), Expect = 1e-25
 Identities = 50/115 (43%), Positives = 71/115 (61%), Gaps = 2/115 (1%)

Query: 165 LIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAM 224
           L+ +GQ WRL TS FLHA   HL+ N  +L   G  +E+I G  R+L +Y  S +A S +
Sbjct: 1   LLQRGQLWRLITSMFLHAGWLHLLFNMLALLFFGIPLERILGSVRFLLLYLLSGLAGSLL 60

Query: 225 SYRFC--NSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMV 277
           SY F   +SP+VGASGAIFGL+G+  V + R+R +L      L  L  +I+ N++
Sbjct: 61  SYLFSPASSPSVGASGAIFGLLGALLVLLPRNRILLFNFPGALLLLLGIILLNLL 115

This family contains integral membrane proteins that are related to Drosophila rhomboid protein. Members of this family are found in bacteria and eukaryotes. Rhomboid promotes the cleavage of the membrane-anchored TGF-alpha-like growth factor Spitz, allowing it to activate the Drosophila EGF receptor. Analysis has shown that Rhomboid-1 is an intramembrane serine protease (EC:3.4.21.105). Parasite-encoded rhomboid enzymes are also important for invasion of host cells by Toxoplasma and the malaria parasite. Length = 146

>gnl|CDD|223777 COG0705, COG0705, Membrane associated serine protease [Amino acid transport and metabolism]

 Score = 81.4 bits (201), Expect = 3e-18
 Identities = 39/140 (27%), Positives = 65/140 (46%), Gaps = 16/140 (11%)

Query: 128 FIGRQW--TNILLAVNVLVYIAQ-----------FATQDKLLLWGAKINSLIDKGQFWRL 174
            + R    T  L+ +N+LV++ +                   L+   +   + + Q WRL
Sbjct: 12  RLIRAPPVTLFLILLNILVFLLELVLGWSAIFLLTFLFRLFGLYPLNLLGALARDQLWRL 71

Query: 175 ATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRF---CNS 231
            T+ FLHA   HL+ N  +L   G  +E+  G  R+L  Y  S + +      F     +
Sbjct: 72  ITAIFLHAGFLHLLFNMLALWVFGSNLERRLGTLRFLLFYLLSGLLAGLAQVLFGPKGGA 131

Query: 232 PAVGASGAIFGLVGSFAVFI 251
           P++GASGAIFGL+G++ +  
Sbjct: 132 PSLGASGAIFGLLGAYFLLF 151

Length = 228

>gnl|CDD|185445 PTZ00101, PTZ00101, rhomboid-1 protease; Provisional

 Score = 66.4 bits (162), Expect = 1e-12
 Identities = 46/150 (30%), Positives = 73/150 (48%), Gaps = 21/150 (14%)

Query: 127 LFIGRQWTNILLAVNV---LVYI-------AQFAT-QDKLLL-WGAKINSLIDKGQFWRL 174
           +F    W + ++A+++   +V+I       A F T  D LL+  GA + S I +G+  RL
Sbjct: 46  IFPHFTWKSFIMAISIIQIIVFIISVSIKPADFLTPSDSLLVTLGANVASRIKQGEIHRL 105

Query: 175 ATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYR--FCNSP 232
               FLHANI H   N +    +G T+EK  G  + + +YF + I  + +S    +C   
Sbjct: 106 ILPIFLHANIFHTFFNVFFQLRMGFTLEKNYGIVKIIILYFLTGIYGNILSSSVTYC-PI 164

Query: 233 AVGASGAIFGLVG------SFAVFIMRHRN 256
            VGAS +  GL+G           ++RHR 
Sbjct: 165 KVGASTSGMGLLGIVTSELILLWHVIRHRE 194

Length = 278

>gnl|CDD|234388 TIGR03902, rhom_GG_sort, rhomboid family GlyGly-CTERM serine protease

 Score = 51.1 bits (123), Expect = 5e-08
 Identities = 28/94 (29%), Positives = 44/94 (46%), Gaps = 2/94 (2%)

Query: 164 SLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSA 223
           + I +G++WRL T  F+H N  HL++N   L  +    E+    RR L +    ++  S 
Sbjct: 9   AAILEGEWWRLLTGHFVHLNWWHLLMNLAGLLLLWLLFERHLRARRLLLLLLLLSLLISL 68

Query: 224 MSYRFCNSPA--VGASGAIFGLVGSFAVFIMRHR 255
               F  S    VG SG + GL    A+  +R+ 
Sbjct: 69  GLLLFLPSLQWYVGLSGVLHGLFAWGALRDIRYG 102

This model describes a rhomboid-like intramembrane serine protease. Its species distribution closely matches model TIGR03501, GlyGly-CTERM, which describes a protein targeting domain analogous to LPXTG and PEP-CTERM. In a number of species (Ralstonia eutropha ,R. metallidurans, R. solanacearum, Marinobacter aquaeolei, etc) with just one GlyGly-CTERM protein (i.e., a dedicated system), the rhombosortase and GlyGly-CTERM genes are adjacent. Length = 154

>gnl|CDD|234518 TIGR04239, rhombo_GlpG, rhomboid family protease GlpG

 Score = 51.8 bits (125), Expect = 1e-07
 Identities = 30/113 (26%), Positives = 52/113 (46%), Gaps = 1/113 (0%)

Query: 134 TNILLAVNVLVYIA-QFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCY 192
           T  ++A+ +LV++  Q     ++    A       + Q WR  T A LH ++ H++ N  
Sbjct: 97  TLSVMALCILVFLLMQLGGDQQVFSALAFPADPSQQSQLWRWFTPALLHFSLLHIIFNLL 156

Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVG 245
               +G  +EK  G  + L ++  SA+ S+   Y        G SG ++ LVG
Sbjct: 157 WWWYLGGQIEKRLGSGKLLVLFLVSALLSNWAQYLVSGPNFGGLSGVVYALVG 209

GlpG in E. coli is a rhomboid family intramembrane serine protease that has been extensively characterized as a proxy for rhomboid family proteases in animals. It efficiently cleaves eukaryote-derived model substrates. This multiple membrane-spanning protein excludes inappropriate substrates from access to its cleavage site, and shows activity against truncated versions, but not full-length versions, of the E. coli multidrug transporter MdfA. This finding suggests a housekeeping function in removing faulty proteins. In contrast, several eukaryotic rhomboid family proteases release peptide hormones for signaling functions, and the Shewanella and Vibrio protein rhombosortase appears to be part of a protein-sorting system, cleaving a C-terminal anchoring helix domain. Length = 271

>gnl|CDD|182828 PRK10907, PRK10907, intramembrane serine protease GlpG; Provisional

 Score = 46.9 bits (112), Expect = 4e-06
 Identities = 30/113 (26%), Positives = 52/113 (46%), Gaps = 1/113 (0%)

Query: 134 TNILLAVNVLVYIA-QFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCY 192
           T  ++   V+V+I  Q      ++LW A       K + WR  T A LH ++ H++ N  
Sbjct: 97  TLGVMIACVVVFILMQILGDQTVMLWLAWPFDPSLKFELWRYFTHALLHFSLLHILFNLL 156

Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVG 245
               +G  +EK  G  + + +   SA+ S  +  +F      G SG ++ L+G
Sbjct: 157 WWWYLGGAVEKRLGSGKLIVITLISALLSGWVQSKFSGPWFGGLSGVVYALMG 209

Length = 276

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	309
PTZ00101	278	rhomboid-1 protease; Provisional	99.96
PRK10907	276	intramembrane serine protease GlpG; Provisional	99.96
COG0705	228	Membrane associated serine protease [Amino acid tr	99.92
KOG2289	316	consensus Rhomboid family proteins [Signal transdu	99.89
PF01694	145	Rhomboid: Rhomboid family; InterPro: IPR022764 In	99.87
KOG2632	258	consensus Rhomboid family proteins [Function unkno	99.76
KOG2290	652	consensus Rhomboid family proteins [Signal transdu	99.59
KOG2980	310	consensus Integral membrane protease of the rhombo	98.92
PF04511	197	DER1: Der1-like family; InterPro: IPR007599 The en	98.88
PF08551	99	DUF1751: Eukaryotic integral membrane protein (DUF	98.38
KOG0858	239	consensus Predicted membrane protein [Function unk	98.36
KOG2890	326	consensus Predicted membrane protein [Function unk	97.07
COG5291	313	Predicted membrane protein [Function unknown]	96.49
KOG4463	323	consensus Uncharacterized conserved protein [Funct	95.77

>PTZ00101 rhomboid-1 protease; Provisional

Probab=99.96  E-value=2.2e-28  Score=227.90  Aligned_cols=178  Identities=22%  Similarity=0.272  Sum_probs=136.3

Q ss_pred             ccchhHHHHHHHHHHHHHHHHHhc-------h--HHHHHhhhchhhhhccCCcchhhhhhcccCCHHHHHHHHHHHHHHH
Q 021695          128 FIGRQWTNILLAVNVLVYIAQFAT-------Q--DKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIG  198 (309)
Q Consensus       128 ~~~~~~t~~LI~i~v~vfll~~~~-------~--~~l~~~g~~~~~~i~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G  198 (309)
                      .+.+.+|..++++++++|++....       +  ..+..+|+..+..+.++||||++|++|+|.|+.|+++||+.++.+|
T Consensus        50 f~i~~l~~~Iiii~iivfil~l~~~~~~~l~p~~~~L~~~Ga~~~~~i~~gq~WRLiT~~FlH~~~~HLl~Nm~~l~~~G  129 (278)
T PTZ00101         50 FTWKSFIMAISIIQIIVFIISVSIKPADFLTPSDSLLVTLGANVASRIKQGEIHRLILPIFLHANIFHTFFNVFFQLRMG  129 (278)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHhcccccCCCCHHHHHHHhCcchhhhhcCCCHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence            345788999999999999986552       1  1456778877778889999999999999999999999999999999


Q ss_pred             HHHHHHhChHHHHHHHHHHHHHHHHHHHHhcC-CceechHHHHHHHHHHHHHHHHhhhhhccCchHHHHHHHHHHHH--H
Q 021695          199 PTMEKICGPRRYLGVYFSSAIASSAMSYRFCN-SPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIF--N  275 (309)
Q Consensus       199 ~~lE~~~G~~~fl~lyl~sgi~g~l~s~l~~~-~~~vGaSGaIfGLlga~~~~~~~~~~~~~~~~~~~~~i~~~l~l--~  275 (309)
                      ..+|+.+|++|++.+|+++|+.|++++..+.+ ..++||||++||++|+++......+............+....++  .
T Consensus       130 ~~lE~~~G~~r~~ilYl~sGi~G~l~s~~~~~~~~svGASgAifGLiGa~~~~lil~w~~~~~~~~~~~~~i~~~li~~~  209 (278)
T PTZ00101        130 FTLEKNYGIVKIIILYFLTGIYGNILSSSVTYCPIKVGASTSGMGLLGIVTSELILLWHVIRHRERVVFNIIFFSLISFF  209 (278)
T ss_pred             HHHHHHHChHHHHHHHHHHHHHHHHHHHHHccCCcEEehhHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999987654 56899999999999999765444332222111111111111111  2


Q ss_pred             HHHHhccCChhHHHHHHHHHHHHHHHHccC
Q 021695          276 MVCSAAFANIVKIESRHTLTGETCYFIDPS  305 (309)
Q Consensus       276 lv~~ll~~~v~~~aHLgG~l~G~~~~l~~~  305 (309)
                      +...+..+++|++||+||+++|++.....+
T Consensus       210 l~~~~~g~~Id~~aHlGG~i~G~llg~~~~  239 (278)
T PTZ00101        210 YYFTFNGSNIDHVGHLGGLLSGISMGILYN  239 (278)
T ss_pred             HHHhcCCCCccHHHHHHHHHHHHHHHHHHH
Confidence            223344578999999999999987655433

>PRK10907 intramembrane serine protease GlpG; Provisional

Probab=99.96  E-value=5.9e-28  Score=225.18  Aligned_cols=172  Identities=20%  Similarity=0.156  Sum_probs=131.4

Q ss_pred             cchhHHHHHHHHHHHHHHHHHhchH-HHHHhhhchhhhhccCCcchhhhhhcccCCHHHHHHHHHHHHHHHHHHHHHhCh
Q 021695          129 IGRQWTNILLAVNVLVYIAQFATQD-KLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGP  207 (309)
Q Consensus       129 ~~~~~t~~LI~i~v~vfll~~~~~~-~l~~~g~~~~~~i~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~  207 (309)
                      +..|+|..++++|+++|+++..... ....+...+......+||||++|++|+|.|+.|+++||+++|.+|..+|+.+|+
T Consensus        92 ~~~p~T~~li~i~i~vf~l~~~~~~~~~~~~l~~~~~~~~~~q~WRl~T~~flH~~~~Hl~fNml~l~~lG~~iE~~~G~  171 (276)
T PRK10907         92 RAGPLTLGVMIACVVVFILMQILGDQTVMLWLAWPFDPSLKFELWRYFTHALLHFSLLHILFNLLWWWYLGGAVEKRLGS  171 (276)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHhccHHHHHHHhccccccccCCcHHHHhHHHHhCCHHHHHHHHHHHHHHHHHHHHHHCh
Confidence            3567999999999999998876533 233444333344568999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCceechHHHHHHHHHHHHHHHHhhhhhccCchHHHHHHHHHHHHHHH---HHhccCC
Q 021695          208 RRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMV---CSAAFAN  284 (309)
Q Consensus       208 ~~fl~lyl~sgi~g~l~s~l~~~~~~vGaSGaIfGLlga~~~~~~~~~~~~~~~~~~~~~i~~~l~l~lv---~~ll~~~  284 (309)
                      ++++.+|+++++.++++++++.....+|+||+|||++++......+.+......++.   +....++.++   .+++.++
T Consensus       172 ~~~l~l~l~s~i~~~~~~~~~~~~~~gGaSGvVygL~g~~~~~~~~~p~~~~~lp~~---~~~f~llwl~~g~~~~~g~~  248 (276)
T PRK10907        172 GKLIVITLISALLSGWVQSKFSGPWFGGLSGVVYALMGYVWLRGERDPQSGIYLPRG---LIAFALLWLVAGYFDLFGMS  248 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHHhccccccchhhhHH---HHHHHHHHHHHHHHHccCcc
Confidence            999999999999999999988777889999999999997655433322211111111   1222222232   4455678


Q ss_pred             hhHHHHHHHHHHHHHHHHc
Q 021695          285 IVKIESRHTLTGETCYFID  303 (309)
Q Consensus       285 v~~~aHLgG~l~G~~~~l~  303 (309)
                      |+++||++|+++|++..+.
T Consensus       249 Ian~AHlgGli~Gll~g~~  267 (276)
T PRK10907        249 IANAAHVAGLAVGLAMAFW  267 (276)
T ss_pred             cHHHHHHHHHHHHHHHHHH
Confidence            9999999999999876543

>COG0705 Membrane associated serine protease [Amino acid transport and metabolism]

Probab=99.92  E-value=5.1e-24  Score=193.13  Aligned_cols=173  Identities=27%  Similarity=0.399  Sum_probs=132.2

Q ss_pred             chhHHHHHHHHHHHHHHHHHhchHH-HHH-------hhhchhhhhccC---CcchhhhhhcccCCHHHHHHHHHHHHHHH
Q 021695          130 GRQWTNILLAVNVLVYIAQFATQDK-LLL-------WGAKINSLIDKG---QFWRLATSAFLHANIAHLMVNCYSLNSIG  198 (309)
Q Consensus       130 ~~~~t~~LI~i~v~vfll~~~~~~~-l~~-------~g~~~~~~i~~g---q~WRLlTs~FlH~~~~HLl~Nm~~L~~~G  198 (309)
                      .++.|..++.+|+++|+........ ...       .+..+.......   |+||++|++|+|.|+.|+++||+.+|.+|
T Consensus        16 ~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~lit~~FlH~~~~Hll~N~~~l~~fg   95 (228)
T COG0705          16 APPVTLFLILLNILVFLLELVLGWSAIFLLTFLFRLFGLYPLNLLGALARDQLWRLITAIFLHAGFLHLLFNMLALWVFG   95 (228)
T ss_pred             cchHHHHHHHHHHHHHHHHHHccchHHHHHHHhhhHHhhcchhhhccccccchHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence            4788999999999999988765332 111       222222222111   89999999999999999999999999999


Q ss_pred             HHHHHHhChHHHHHHHHHHHHHHHHHHHHhcC---CceechHHHHHHHHHHHHHHHHhhhhhccC--chH-HHHHHHHHH
Q 021695          199 PTMEKICGPRRYLGVYFSSAIASSAMSYRFCN---SPAVGASGAIFGLVGSFAVFIMRHRNILGG--GKE-ELQHLAKVI  272 (309)
Q Consensus       199 ~~lE~~~G~~~fl~lyl~sgi~g~l~s~l~~~---~~~vGaSGaIfGLlga~~~~~~~~~~~~~~--~~~-~~~~i~~~l  272 (309)
                      ..+|+..|+.+|+.+|+++|+++++.+..+.+   .+++||||++||++++++...+..+.....  .++ ....+...+
T Consensus        96 ~~le~~~G~~~f~~~yl~~gl~~~~~~~~~~~~~~~~~~GASG~i~gllga~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  175 (228)
T COG0705          96 SNLERRLGTLRFLLFYLLSGLLAGLAQVLFGPKGGAPSLGASGAIFGLLGAYFLLFPFARILLLFLSLPRPALILILIWL  175 (228)
T ss_pred             HHHHHHhchhHHHHHHHHHHHHHHHHHHHHcccccCcccchhHHHHHHHHHHHHHccccchhhhhccCchhHHHHHHHHH
Confidence            99999999999999999999999999888764   369999999999999999999988754433  222 222233333


Q ss_pred             HHHHHHHhccC--ChhHHHHHHHHHHHHHHHH
Q 021695          273 IFNMVCSAAFA--NIVKIESRHTLTGETCYFI  302 (309)
Q Consensus       273 ~l~lv~~ll~~--~v~~~aHLgG~l~G~~~~l  302 (309)
                      +..++......  ++++++|++|+++|.++..
T Consensus       176 ~~~~~~~~~~~~~~va~~aHl~G~i~G~l~~~  207 (228)
T COG0705         176 LYSLFSGAGSFGPSVAWSAHLGGLIGGLLLAA  207 (228)
T ss_pred             HHHHHHHhcCCchHHHHHHHHHHHHHHHHHHH
Confidence            44444444432  5899999999999987763

>KOG2289 consensus Rhomboid family proteins [Signal transduction mechanisms]

Probab=99.89  E-value=7.9e-24  Score=199.35  Aligned_cols=143  Identities=29%  Similarity=0.399  Sum_probs=124.8

Q ss_pred             HhhhchhhhhccCCcchhhhhhcccCCHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHhcC-Cceec
Q 021695          157 LWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCN-SPAVG  235 (309)
Q Consensus       157 ~~g~~~~~~i~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~~fl~lyl~sgi~g~l~s~l~~~-~~~vG  235 (309)
                      .++......++++|+||++|++|+|+|+.||++||+.+.++|..+|+..|.+|+.++|+++++.|++++.++.+ ..+||
T Consensus       105 ~~~~~i~~~~~r~E~WRllTym~LHaGi~HL~~N~~~ql~iGi~LE~~~G~~RiglIYl~gg~aGSlls~l~d~~~~sVG  184 (316)
T KOG2289|consen  105 MGGLLIYKPVHRGELWRLLTYMWLHAGIFHLLLNMLSQLFIGIPLEQVHGFLRIGLIYLAGGVAGSLLSSLFDPNSISVG  184 (316)
T ss_pred             cCCceecChhhhchhHHHHHHHHHhcCHHHHHHHHHHHHhccccHHhhcCceEEeeehhhhhhhhHHHHHHhccCCceec
Confidence            34555677788999999999999999999999999999999999999999999999999999999999999986 45999


Q ss_pred             hHHHHHHHHHHHHHHHHhhhhhccCchHHHHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHH
Q 021695          236 ASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAAFANIVKIESRHTLTGETCY  300 (309)
Q Consensus       236 aSGaIfGLlga~~~~~~~~~~~~~~~~~~~~~i~~~l~l~lv~~ll~~~v~~~aHLgG~l~G~~~  300 (309)
                      |||++|||+||.+.....++..+......++.++.++.+++-+|+. +.+|+++|+||+++|..+
T Consensus       185 ASggvfaLlgA~Ls~l~~Nw~~m~~~~~~l~~ll~Ii~i~l~~G~~-~~~~~~~h~gg~~~G~~~  248 (316)
T KOG2289|consen  185 ASGGVFALLGAHLSNLLTNWTIMKNKFAALRTLLIIIFINLDLGFA-PYVDNFAHIGGLLAGFLL  248 (316)
T ss_pred             ccHHHHHHHHHHHHHHHhhHHHhcchHHHHHHHHHHHHHHHhhccc-cceeccccccccCCCcch
Confidence            9999999999999998888877665444566666666777778876 679999999999997543

>PF01694 Rhomboid: Rhomboid family; InterPro: IPR022764 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=99.87  E-value=9.8e-23  Score=170.98  Aligned_cols=139  Identities=32%  Similarity=0.468  Sum_probs=104.1

Q ss_pred             ccCCcchhhhhhcccCCHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHhcCC--ceechHHHHHHHH
Q 021695          167 DKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNS--PAVGASGAIFGLV  244 (309)
Q Consensus       167 ~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~~fl~lyl~sgi~g~l~s~l~~~~--~~vGaSGaIfGLl  244 (309)
                      +++|+||++|++|+|.|+.|+++|++.++.+|..+|+.+|++++..+|+.+++.++++..++.+.  +.+|+||+++|++
T Consensus         2 ~~~~~wrl~T~~f~h~~~~hl~~n~~~l~~~g~~lE~~~G~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~G~Sg~~~~l~   81 (145)
T PF01694_consen    2 QNGQWWRLFTSPFVHANFLHLLFNLLALWFFGSLLERRLGSRRFLALYLLSGLLGSLLSLLFSPPNQPYVGASGAVFGLL   81 (145)
T ss_dssp             GCC-TTHHHHGGG--SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-S-----SSHHHHHHHH
T ss_pred             CCCcchhhhHHHHHccCHHHHHHHHHHHHHhhhhHhhhccchHHHHHHHHHHHhhhhccccccccccccCCCcccchHHH
Confidence            67999999999999999999999999999999999999999999999999999999999887643  5999999999999


Q ss_pred             HHHHHHHHhhhhhccCchHHHHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHHHHccCC
Q 021695          245 GSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAAFANIVKIESRHTLTGETCYFIDPSK  306 (309)
Q Consensus       245 ga~~~~~~~~~~~~~~~~~~~~~i~~~l~l~lv~~ll~~~v~~~aHLgG~l~G~~~~l~~~~  306 (309)
                      ++.+...++.++...............+.+.+..+. .+++++.+|++|+++|+++....+|
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~hl~G~~~G~~~~~~~~~  142 (145)
T PF01694_consen   82 GAFLFLYPQNKKRLRFIYLALVVPIIVLVIILLLGF-IPNISFLGHLGGFLAGLLYGFLILR  142 (145)
T ss_dssp             HHHHHHHHCCCCCS---HCCCCCCCCCCCHHHCTSS-SSTTTHHHHHHHHHHHHHHHHHHCH
T ss_pred             HHHHHHHhhccchhhcchHHHHHHHHHHHHHHHHHH-HHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999998864333211111111111222222333 6889999999999999888655443

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of proteins contain serine peptidases belonging to the MEROPS peptidase family S54 (Rhomboid, clan ST). They are integral membrane proteins related to the Drosophila melanogaster (Fruit fly) rhomboid protein P20350 from SWISSPROT. Members of this family are found in archaea, bacteria and eukaryotes. The D. melanogaster rhomboid protease cleaves type-1 transmembrane domains using a catalytic triad composed of serine, histidine and asparagine contributed by different transmembrane domains. It cleaves the transmembrane proteins Spitz, Gurken and Keren within their transmembrane domains to release a soluble TGFalpha-like growth factor. Cleavage occurs in the Golgi, following translocation of the substrates from the endoplasmic reticulum membrane by Star, another transmembrane protein. The growth factors are then able to activate the epidermal growth factor receptor [, ]. Few substrates of mammalian rhomboid homologues have been determined, but rhomboid-like protein 2 (MEROPS S54.002) has been shown to cleave ephrin B3 []. Parasite-encoded rhomboid enzymes are also important for invasion of host cells by Toxoplasma and the malaria parasite. In Saccharomyces cerevisiae (Baker's yeast) the Pcp1 (MDM37) protein (MEROPS S54.007) is a mitochondrial endopeptidase required for the activation of cytochrome c peroxidase and for the processing of the mitochondrial dynamin-like protein Mgm1 [, ]. Mutations in Pcp1 result in cells have fragmented mitochondria, which have very few short tubulues []. This entry represents the 6 transmembrane helix rhomboid domain.; GO: 0004252 serine-type endopeptidase activity, 0016021 integral to membrane; PDB: 3UBB_A 3B45_A 3B44_A 2NRF_A 3TXT_A 2O7L_A 2XTU_A 2IRV_A 2XOW_A 2XTV_A ....

>KOG2632 consensus Rhomboid family proteins [Function unknown]

Probab=99.76  E-value=8.2e-18  Score=153.44  Aligned_cols=174  Identities=18%  Similarity=0.173  Sum_probs=134.8

Q ss_pred             ccccchhHHHHHHHHHHHHHHHHHhchHHHHHhhhchhhhhccCCcchhhhhhcccCCHHHHHHHHHHHHHHHHHHHHHh
Q 021695          126 NLFIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKIC  205 (309)
Q Consensus       126 ~~~~~~~~t~~LI~i~v~vfll~~~~~~~l~~~g~~~~~~i~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~  205 (309)
                      .+.+.+.+|..++.++.++|+......-.  .....+.....+.|.||++||+++|.+..|+++||+++|.+|...|+..
T Consensus        10 ~~~~~p~~ts~~~~~~~~i~lv~~~~~i~--~~~~l~~~~l~~~ql~RL~Ty~l~H~s~~hllfnmlaL~~~g~~fE~~~   87 (258)
T KOG2632|consen   10 FWMKIPLLTSIVVVLAILIYLVSFFPGIV--EVLGLPSELLINWQLYRLITYALVHLSLPHLLFNMLALWPLGSQFERTH   87 (258)
T ss_pred             ccccchHHHHHHHHHHHHHHHHhccchhh--hHhcCCHHHhhhHHHHHHHHHHHHhccHHHHHHHHHHHHhchhHHHhhc
Confidence            33455788999999999999887655322  2223345566789999999999999999999999999999999999999


Q ss_pred             C-hHHHHHHHHHHHHHHHHHHHHhc----------CCceechHHHHHHHHHHHHHHHHhhhhhccCchHHHHHHHHHHHH
Q 021695          206 G-PRRYLGVYFSSAIASSAMSYRFC----------NSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIF  274 (309)
Q Consensus       206 G-~~~fl~lyl~sgi~g~l~s~l~~----------~~~~vGaSGaIfGLlga~~~~~~~~~~~~~~~~~~~~~i~~~l~l  274 (309)
                      | +.+++.+....+++.+++.++..          ....+|.||..|++++......+.++..++..- .+.......+.
T Consensus        88 G~t~~~l~~~~llalf~gIl~ll~~~~~~~~d~~~~~~a~G~s~v~Fam~~~~~~~sp~r~~~~fg~~-siP~~l~Pw~l  166 (258)
T KOG2632|consen   88 GTTVRILMFTVLLALFSGILYLLAYHVFLLSDLVYVEGAIGFSGVLFAMMAVLEVQSPVRSRSVFGLF-SIPIVLAPWAL  166 (258)
T ss_pred             cceehHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhcccccccHHHHHHHHHHhhcCcccchhhcccc-cccHHHHHHHH
Confidence            9 88888888888999888876543          245799999999999998888877774433321 11222334444


Q ss_pred             HHHHHhccCChhHHHHHHHHHHHHHHHH
Q 021695          275 NMVCSAAFANIVKIESRHTLTGETCYFI  302 (309)
Q Consensus       275 ~lv~~ll~~~v~~~aHLgG~l~G~~~~l  302 (309)
                      .....++.|+.|+++|++|+++|++|..
T Consensus       167 Li~~~~lvp~aSFlghl~GllvG~ay~~  194 (258)
T KOG2632|consen  167 LIATQILVPQASFLGHLCGLLVGYAYAF  194 (258)
T ss_pred             HHHHHHHccCchHHHHHHHHHHHHHHHH
Confidence            4556677799999999999999998876

>KOG2290 consensus Rhomboid family proteins [Signal transduction mechanisms]

Probab=99.59  E-value=1.4e-15  Score=147.11  Aligned_cols=132  Identities=24%  Similarity=0.282  Sum_probs=111.4

Q ss_pred             cCCcchhhhhhcccCCHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHhcC-CceechHHHHHHHHHH
Q 021695          168 KGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCN-SPAVGASGAIFGLVGS  246 (309)
Q Consensus       168 ~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~~fl~lyl~sgi~g~l~s~l~~~-~~~vGaSGaIfGLlga  246 (309)
                      ..|+||++||.|+|++..|++..|.....+-..+|+..|+.|..++|++||+.||+++..|.+ .+.||.||+-||++++
T Consensus       448 PdQfYRL~~SLFlHagviH~~vSi~FQm~vmrdlEkL~g~~riAIiy~~SGitGNLASAIFlpY~~eVgPa~sQ~Gila~  527 (652)
T KOG2290|consen  448 PDQFYRLWLSLFLHAGVIHLLVSICFQMTVMRDLEKLAGWHRIAIIYFLSGITGNLASAIFLPYRAEVGPAGSQFGILAC  527 (652)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhcchhhheeeecccccccchheeeeccccccCCcccccchHHH
Confidence            569999999999999999999999999999999999999999999999999999999998875 6799999999999999


Q ss_pred             HHHHHHhhhhhccCchHHHHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHHH
Q 021695          247 FAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAAFANIVKIESRHTLTGETCYF  301 (309)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~i~~~l~l~lv~~ll~~~v~~~aHLgG~l~G~~~~  301 (309)
                      ..+-....+..+..+...... +.+.++.+.+|++ |.||||+|+.|.+.|+...
T Consensus       528 l~vEl~qs~~il~~~w~a~~~-Lia~~L~L~iGli-PWiDN~aHlfG~i~GLl~s  580 (652)
T KOG2290|consen  528 LFVELFQSWQILERPWRAFFH-LIATLLVLCIGLI-PWIDNWAHLFGTIFGLLTS  580 (652)
T ss_pred             HHHHHHhhhHhhhhHHHHHHH-HHHHHHHHHhccc-cchhhHHHHHHHHHHHHHH
Confidence            999888888766552222222 2333344555665 8999999999999997543

>KOG2980 consensus Integral membrane protease of the rhomboid family involved in different forms of regulated intramembrane proteolysis [Signal transduction mechanisms]

Probab=98.92  E-value=5.6e-10  Score=104.11  Aligned_cols=167  Identities=17%  Similarity=0.153  Sum_probs=115.3

Q ss_pred             HHHHHHHHHHHHHHHHHhchHH--HHHhhhchhhhhccCCcchhhhhhcccCCHHHHHHHHHHHHHHHH-HHHHHhChHH
Q 021695          133 WTNILLAVNVLVYIAQFATQDK--LLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGP-TMEKICGPRR  209 (309)
Q Consensus       133 ~t~~LI~i~v~vfll~~~~~~~--l~~~g~~~~~~i~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~-~lE~~~G~~~  209 (309)
                      ++..++++|+.+|.+|....-.  ...|...-  .....-.|.+++|.|.|.+.+|+..||+.++.+.. .+....|...
T Consensus       117 ~v~~ll~~n~~vf~lWrv~~~~~~~~~~mls~--~~~~t~~w~i~~s~Fsh~~a~h~g~~~~~~~~y~~~a~~~~~~~~~  194 (310)
T KOG2980|consen  117 VVFGLLIANAFVFTLWRVPQKQFTMIPWMLSR--NAYKTGCWKIILSTFSHYSALHLGPNMLVLKSYLAGALKGSLGFSS  194 (310)
T ss_pred             chhHHHHHHHHHHHHHHhcchhhhhhhHHhhc--ccccccceeEEeehhcchhHhhhcHHHHHHHHHhcccccCCcchhh
Confidence            7889999999999999887542  22333221  12344567799999999999999999999999987 7888899999


Q ss_pred             HHHHHHHHHHHHHHHHHHh-----cCCceechHHHHHHHHHHHHHHHHhhhhhccCch-HHH-HHHHH-HHHHHHHHHhc
Q 021695          210 YLGVYFSSAIASSAMSYRF-----CNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGK-EEL-QHLAK-VIIFNMVCSAA  281 (309)
Q Consensus       210 fl~lyl~sgi~g~l~s~l~-----~~~~~vGaSGaIfGLlga~~~~~~~~~~~~~~~~-~~~-~~i~~-~l~l~lv~~ll  281 (309)
                      +.++|+.++..+..+...-     -..+.+||||+++++++..+.++|+.+..+.... ... ..+.. .++...+.++.
T Consensus       195 ~~AlylSa~~~~~~i~~~~~v~~~~~gp~LGAsGav~ai~a~~~~lfP~~~~~i~f~~~v~~ga~~~~~~i~~~~~a~~~  274 (310)
T KOG2980|consen  195 FFALYLSAGVKGLFISVKDKVPTSWAGPSLGASGAVYAILALDCTLFPKTTLYILFVFPVPAGAGLAFKAIAAYDFAGLI  274 (310)
T ss_pred             cccceeccccccceeEeeccccccccccccccchHHHHHHHHHhhcCcCcceeEEEeecccccchhHHHHHHHhhhccee
Confidence            9999996555555544322     1256899999999999999999998885544321 111 11111 11111111111


Q ss_pred             --cCChhHHHHHHHHHHHHHHH
Q 021695          282 --FANIVKIESRHTLTGETCYF  301 (309)
Q Consensus       282 --~~~v~~~aHLgG~l~G~~~~  301 (309)
                        ...-|+.+|++|-+.|..+.
T Consensus       275 l~~~~~n~~Ah~~gsl~Gv~va  296 (310)
T KOG2980|consen  275 LGWGFFNHAAHLSGSLFGVVVA  296 (310)
T ss_pred             eccccchhHhhhcchHHHHHHH
Confidence              13457779999999886553

>PF04511 DER1: Der1-like family; InterPro: IPR007599 The endoplasmic reticulum (ER) of the yeast Saccharomyces cerevisiae (Baker's yeast) contains a proteolytic system able to selectively degrade misfolded lumenal secretory proteins

Probab=98.88  E-value=2.2e-08  Score=89.41  Aligned_cols=169  Identities=19%  Similarity=0.115  Sum_probs=109.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHhchHHHHHhhhchhhhhccCCcchhhhhhcccCCH-HHHHHHHHHHHHHHHHHHHH-h-Ch
Q 021695          131 RQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANI-AHLMVNCYSLNSIGPTMEKI-C-GP  207 (309)
Q Consensus       131 ~~~t~~LI~i~v~vfll~~~~~~~l~~~g~~~~~~i~~gq~WRLlTs~FlH~~~-~HLl~Nm~~L~~~G~~lE~~-~-G~  207 (309)
                      ||+|+.+++.++++.++......+......+++..++++|+||++|+.|.-++. .++++|++.++..++.+|+. + ++
T Consensus         2 PpVTR~~~~~~~~~s~l~~~~~~~~~~l~~~~~~v~~~~q~WRl~Tsff~~g~~~~~~l~~~~~l~~~s~~LE~~~f~~~   81 (197)
T PF04511_consen    2 PPVTRYWLISTVALSLLVSFGIISPYYLYFDWELVFKKFQIWRLFTSFFYFGPFSLNFLFNLYFLYQYSSSLEEGHFQGR   81 (197)
T ss_pred             ChhHHHHHHHHHHHHHHHHCCCCCHHHeeECcHHHhhhcCceeeEEEEEEEcCCCHHHHHHHHHHHHHhhHhccCCCCCC
Confidence            689999999999998887765334444445556667789999999999987665 79999999999999999997 2 23


Q ss_pred             -HHHHHHHHHHHHHHHHHHHHhcCC----ceechHHHHHHHHHHHHHHHHhhhhh-ccCchHHHHHHHHHHHHHHHHHhc
Q 021695          208 -RRYLGVYFSSAIASSAMSYRFCNS----PAVGASGAIFGLVGSFAVFIMRHRNI-LGGGKEELQHLAKVIIFNMVCSAA  281 (309)
Q Consensus       208 -~~fl~lyl~sgi~g~l~s~l~~~~----~~vGaSGaIfGLlga~~~~~~~~~~~-~~~~~~~~~~i~~~l~l~lv~~ll  281 (309)
                       .+|+...+.+++.-.+++.+....    ...| +.....++=.++-..|+.+.. ++..+.+.+.+..+   .+++.++
T Consensus        82 ~ady~~~ll~~~~~i~~~~~~~~~~~~~~~~l~-~~l~~~l~Y~wsr~np~~~v~~~g~~~i~a~ylP~~---~~~~~~l  157 (197)
T PF04511_consen   82 SADYLWFLLFGASLILILSLLIGPYFFNIPFLG-SSLSFALTYIWSRKNPNAQVSFFGLFTIKAKYLPWV---LLAFSLL  157 (197)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhccchhHHHHHH-HHHHHHHHHHHHHhCcccceeeEEEEEEChhhHHHH---HHHHHHH
Confidence             678877777777666666644211    1222 333344433333333443422 33333344443322   2233333


Q ss_pred             cCChhHHHHHHHHHHHHHHHHc
Q 021695          282 FANIVKIESRHTLTGETCYFID  303 (309)
Q Consensus       282 ~~~v~~~aHLgG~l~G~~~~l~  303 (309)
                      ..+.+...++-|+++|.+|.+.
T Consensus       158 ~~~~~~~~~l~Gi~~Ghly~fl  179 (197)
T PF04511_consen  158 FGGSSPIPDLLGILVGHLYYFL  179 (197)
T ss_pred             hCCCcHHHHHHHHHHHHHHHHH
Confidence            3445677999999999887643

For examination of the components involved in this degradation process, mutants were isolated. They could be divided into four complementation groups. The mutations led to stabilisation of two different substrates for this process, and the classes were called der for degradation in the ER. DER1 was cloned by complementation of the der1-2 mutation. The DER1 gene codes for a novel, hydrophobic protein that is localized to the ER. Deletion of DER1 abolished degradation of the substrate proteins, suggesting that the function of the Der1 protein may be specifically required for the degradation process associated with the ER []. Interestingly this family seems distantly related to the Rhomboid family of membrane peptidases. This family may also mediate degradation of misfolded proteins.

>PF08551 DUF1751: Eukaryotic integral membrane protein (DUF1751); InterPro: IPR013861 This entry is found in eukaryotic integral membrane proteins

Probab=98.38  E-value=2.9e-07  Score=73.65  Aligned_cols=76  Identities=25%  Similarity=0.447  Sum_probs=63.8

Q ss_pred             CcchhhhhhcccCCHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHhc--------C-----Cceech
Q 021695          170 QFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFC--------N-----SPAVGA  236 (309)
Q Consensus       170 q~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~~fl~lyl~sgi~g~l~s~l~~--------~-----~~~vGa  236 (309)
                      .+|+++|+.|++.++..+++|.+.++..|+.+|+.||+++++-++.+..+.+|+......        +     .+.-|.
T Consensus         7 ~pWtl~T~~fve~~i~~~l~~~~~l~~~g~~lE~~WGs~E~lkFi~vv~~~tnl~~~~~~~~~y~i~~~~~~l~~~i~G~   86 (99)
T PF08551_consen    7 YPWTLFTAGFVETNIIGLLFSLLTLFYGGRYLEPIWGSREFLKFILVVNVITNLLTFLLYLLLYAITGNESYLFVPISGF   86 (99)
T ss_pred             ehHHHHHHHHHHhHHHHHHHHHHHHHHhhHHHHHhcChHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCceeEEEecCc
Confidence            799999999999999999999999999999999999999999999999888888765431        1     234566


Q ss_pred             HHHHHHHHH
Q 021695          237 SGAIFGLVG  245 (309)
Q Consensus       237 SGaIfGLlg  245 (309)
                      .|.+.|++.
T Consensus        87 ~~~~~g~lV   95 (99)
T PF08551_consen   87 MGVLAGFLV   95 (99)
T ss_pred             HHhHhheEE
Confidence            666666544

Q12239 from SWISSPROT, a Saccharomyces cerevisiae (Baker's yeast) protein, has been shown to localise COP II vesicles [].

>KOG0858 consensus Predicted membrane protein [Function unknown]

Probab=98.36  E-value=1.3e-06  Score=79.36  Aligned_cols=99  Identities=15%  Similarity=0.085  Sum_probs=79.2

Q ss_pred             ccchhHHHHHHHHHHHHHHHHHhchHHHHHhhhchhhhhccCCcchhhhhhcccCC-HHHHHHHHHHHHHHHHHHHHHh-
Q 021695          128 FIGRQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHAN-IAHLMVNCYSLNSIGPTMEKIC-  205 (309)
Q Consensus       128 ~~~~~~t~~LI~i~v~vfll~~~~~~~l~~~g~~~~~~i~~gq~WRLlTs~FlH~~-~~HLl~Nm~~L~~~G~~lE~~~-  205 (309)
                      .+-||+|+.....|++.-++....-.+....-..++-.+.+.|+||++|+.+.-+. -.|.++||+.++-..+.+|+-. 
T Consensus        10 ~~iPpVTR~~~~~~v~tt~~~~l~lIsP~~l~~~p~Lv~kk~QiWRliTs~lyfg~~gf~fl~n~~FlyrY~~~LE~g~f   89 (239)
T KOG0858|consen   10 LQIPPVTRYYTTACVVTTLLVRLDLISPFQLYLNPELVFKKFQIWRLITSFLYFGPFGFDFLMNLYFLYRYSSMLEEGSF   89 (239)
T ss_pred             hcCChHHHHHHHHHHHHHHHHhhcccCchheEecHHHHHhHhHHHHhhhhhheeccccHHHHHHHHHHHHHHHHHhcCCC
Confidence            34579999999999999888776544444444445566789999999999998876 5999999999999999999942 


Q ss_pred             --ChHHHHHHHHHHHHHHHHHHH
Q 021695          206 --GPRRYLGVYFSSAIASSAMSY  226 (309)
Q Consensus       206 --G~~~fl~lyl~sgi~g~l~s~  226 (309)
                        .+.+|+.+.+.+++.-.+.++
T Consensus        90 ~~rtadf~~mllf~~~l~~~~~~  112 (239)
T KOG0858|consen   90 RGRTADFLYMLLFGAVLLTLTGL  112 (239)
T ss_pred             CCchhHHHHHHHHHHHHHHHHHH
Confidence              247888888888888776665

>KOG2890 consensus Predicted membrane protein [Function unknown]

Probab=97.07  E-value=0.0033  Score=59.26  Aligned_cols=86  Identities=20%  Similarity=0.284  Sum_probs=69.5

Q ss_pred             CCcchhhhhhcccCCHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHH--------hcC-----Cceec
Q 021695          169 GQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYR--------FCN-----SPAVG  235 (309)
Q Consensus       169 gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~~fl~lyl~sgi~g~l~s~l--------~~~-----~~~vG  235 (309)
                      ...|+++|+.|+-.+++-.+.|.+.+.+-|..+|+.||...++..|.+.-..-+++...        +.+     .+..|
T Consensus        65 ~~~WtliTs~fie~~vw~V~~sv~~L~v~G~~lEp~Wg~~e~lkff~ivn~~~~l~v~v~~~l~Y~it~n~v~L~~~i~G  144 (326)
T KOG2890|consen   65 FFPWTLITSGFIELNVWDVLVSVLTLSVGGKFLEPNWGSLELLKFFAIVNGSTTLVVLVPALLLYMITDNHVYLYIPIHG  144 (326)
T ss_pred             hhhHHHHhcchhhhhHHHHHHHHHheeecceeeccCCCCHHHHHHHHHhhchhHHHHHHHHHHHHHHhcCceEEEEEecc
Confidence            47999999999999999999999999999999999999999988887654444433221        111     34779


Q ss_pred             hHHHHHHHHHHHHHHHHhh
Q 021695          236 ASGAIFGLVGSFAVFIMRH  254 (309)
Q Consensus       236 aSGaIfGLlga~~~~~~~~  254 (309)
                      ..|..-|++.++=-.+|+.
T Consensus       145 ~~gilaGilVa~kQllpd~  163 (326)
T KOG2890|consen  145 TTGILAGILVAWKQLLPDT  163 (326)
T ss_pred             chHHHHHHHHHHHHHcCce
Confidence            9999999999887776665

>COG5291 Predicted membrane protein [Function unknown]

Probab=96.49  E-value=0.006  Score=56.07  Aligned_cols=88  Identities=16%  Similarity=0.175  Sum_probs=56.9

Q ss_pred             chhHHHHHHHHHHHHHHHHHh---chHHHHHhhhchhhhhccCCcchhhhhhcccCC-HHHHHHHHHHHHHHHHHHHH-H
Q 021695          130 GRQWTNILLAVNVLVYIAQFA---TQDKLLLWGAKINSLIDKGQFWRLATSAFLHAN-IAHLMVNCYSLNSIGPTMEK-I  204 (309)
Q Consensus       130 ~~~~t~~LI~i~v~vfll~~~---~~~~l~~~g~~~~~~i~~gq~WRLlTs~FlH~~-~~HLl~Nm~~L~~~G~~lE~-~  204 (309)
                      -||+|+.+..+..++-++...   .+....   ...+-.+.+-|+||++|+..+-++ -.-.++|++.++-..+.+|+ .
T Consensus        19 IPPITRy~~ll~~a~til~~~~lvsPwy~l---y~~pL~~k~~qiwRlfTs~~~~~~~~~d~~M~vyf~Y~yS~~LE~g~   95 (313)
T COG5291          19 IPPITRYMTLLISAVTILVYVDLVSPWYSL---YYSPLFLKRLQIWRLFTSFLYFGKPTLDMFMHVYFLYRYSRMLEEGC   95 (313)
T ss_pred             CCcHHHHHHHHHHHHHHHHHHhhcCcccee---eechhHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHHHHHhccc
Confidence            467777766665555554333   221111   112334567799999998887765 48899999999999999999 4


Q ss_pred             hChH--HHHHHHHHHHHH
Q 021695          205 CGPR--RYLGVYFSSAIA  220 (309)
Q Consensus       205 ~G~~--~fl~lyl~sgi~  220 (309)
                      +++.  +|..+.+...+.
T Consensus        96 f~~~lv~Y~~yl~~~~l~  113 (313)
T COG5291          96 FNTSLVEYFWYLLVISLV  113 (313)
T ss_pred             cCccHHHHHHHHHHHHHH
Confidence            5554  665544444433

>KOG4463 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.77  E-value=0.013  Score=54.39  Aligned_cols=95  Identities=20%  Similarity=0.282  Sum_probs=65.1

Q ss_pred             hhHHHHHHHHHHHHHHHHHhchHHHHHhhhchhhhh-ccCCcchhhhhhcccCCHHHHHHHHHHHHHHHHHHHHHhChHH
Q 021695          131 RQWTNILLAVNVLVYIAQFATQDKLLLWGAKINSLI-DKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGPRR  209 (309)
Q Consensus       131 ~~~t~~LI~i~v~vfll~~~~~~~l~~~g~~~~~~i-~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~~~  209 (309)
                      -|+|..+++-..++-+...... .--.++.++...+ .+.|+||++.+.|.-.+-.-+++-.+.++.+ +.+|+.+|+-|
T Consensus        11 mpVTK~~~iT~~~~~vvagI~~-~k~~f~l~y~~~l~~y~qywrlL~~qF~~~n~~e~~~~l~I~Y~f-R~~ERlLGShk   88 (323)
T KOG4463|consen   11 MPVTKAFVITSALFTVVAGIQG-RKSKFGLSYQDILEKYFQYWRLLMSQFAFSNTPELMFGLYILYYF-RVFERLLGSHK   88 (323)
T ss_pred             cchHHHHHHHHHHHHHHHHhhh-cccccccchhHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHH-HHHHHHhcccc
Confidence            4567766554444333222211 1112233333333 3489999999999999988888887777776 89999999999


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 021695          210 YLGVYFSSAIASSAMSYR  227 (309)
Q Consensus       210 fl~lyl~sgi~g~l~s~l  227 (309)
                      |..+.+.+++.+-++...
T Consensus        89 y~~fiv~s~~~~~l~~~i  106 (323)
T KOG4463|consen   89 YSVFIVFSGTVSLLLEVI  106 (323)
T ss_pred             ceeehhHHHHHHHHHHHH
Confidence            999999999888876553

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	309
2xov_A	181	Crystal Structure Of E.Coli Rhomboid Protease Glpg,		6e-06
3b45_A	180	Crystal Structure Of Glpg At 1.9a Resolution Length		6e-06
2ic8_A	182	Crystal Structure Of Glpg Length = 182		6e-06
2irv_A	182	Crystal Structure Of Glpg, A Rhomboid Intramembrane		7e-06
2xow_A	179	Structure Of Glpg In Complex With A Mechanism-Based		7e-06
2o7l_A	180	The Open-Cap Conformation Of Glpg Length = 180		8e-06
2xtu_A	181	Structure Of E.Coli Rhomboid Protease Glpg Active S		1e-05
2xtv_A	180	Structure Of E.Coli Rhomboid Protease Glpg, Active		1e-05
3b44_A	180	Crystal Structure Of Glpg W136a Mutant Length = 180		5e-04

>pdb|2XOV|A Chain A, Crystal Structure Of E.Coli Rhomboid Protease Glpg, Native Enzyme Length = 181

Iteration: 1
 Score = 48.1 bits (113), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 31/113 (27%), Positives = 56/113 (49%), Gaps = 1/113 (0%)
Query: 134 TNILLAVNVLVYIA-QFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCY 192
           T +++   V+V+IA Q     +++LW A       K +FWR  T A +H ++ H++ N  
Sbjct: 7   TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 66
Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVG 245
               +G  +EK  G  + + +   SA+ S  +  +F      G SG ++ L+G
Sbjct: 67  WWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWFGGLSGVVYALMG 119

>pdb|3B45|A Chain A, Crystal Structure Of Glpg At 1.9a Resolution Length = 180

Iteration: 1
 Score = 48.1 bits (113), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 31/113 (27%), Positives = 56/113 (49%), Gaps = 1/113 (0%)
Query: 134 TNILLAVNVLVYIA-QFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCY 192
           T +++   V+V+IA Q     +++LW A       K +FWR  T A +H ++ H++ N  
Sbjct: 7   TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 66
Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVG 245
               +G  +EK  G  + + +   SA+ S  +  +F      G SG ++ L+G
Sbjct: 67  WWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWFGGLSGVVYALMG 119

>pdb|2IC8|A Chain A, Crystal Structure Of Glpg Length = 182

Iteration: 1
 Score = 48.1 bits (113), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 31/113 (27%), Positives = 56/113 (49%), Gaps = 1/113 (0%)
Query: 134 TNILLAVNVLVYIA-QFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCY 192
           T +++   V+V+IA Q     +++LW A       K +FWR  T A +H ++ H++ N  
Sbjct: 7   TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 66
Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVG 245
               +G  +EK  G  + + +   SA+ S  +  +F      G SG ++ L+G
Sbjct: 67  WWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWFGGLSGVVYALMG 119

>pdb|2IRV|A Chain A, Crystal Structure Of Glpg, A Rhomboid Intramembrane Serine Protease Length = 182

Iteration: 1
 Score = 48.1 bits (113), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 31/113 (27%), Positives = 56/113 (49%), Gaps = 1/113 (0%)
Query: 134 TNILLAVNVLVYIA-QFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCY 192
           T +++   V+V+IA Q     +++LW A       K +FWR  T A +H ++ H++ N  
Sbjct: 6   TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 65
Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVG 245
               +G  +EK  G  + + +   SA+ S  +  +F      G SG ++ L+G
Sbjct: 66  WWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWFGGLSGVVYALMG 118

>pdb|2XOW|A Chain A, Structure Of Glpg In Complex With A Mechanism-Based Isocoumarin Inhibitor Length = 179

Iteration: 1
 Score = 47.8 bits (112), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 31/113 (27%), Positives = 56/113 (49%), Gaps = 1/113 (0%)
Query: 134 TNILLAVNVLVYIA-QFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCY 192
           T +++   V+V+IA Q     +++LW A       K +FWR  T A +H ++ H++ N  
Sbjct: 6   TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 65
Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVG 245
               +G  +EK  G  + + +   SA+ S  +  +F      G SG ++ L+G
Sbjct: 66  WWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWFGGLSGVVYALMG 118

>pdb|2O7L|A Chain A, The Open-Cap Conformation Of Glpg Length = 180

Iteration: 1
 Score = 47.8 bits (112), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 31/113 (27%), Positives = 56/113 (49%), Gaps = 1/113 (0%)
Query: 134 TNILLAVNVLVYIA-QFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCY 192
           T +++   V+V+IA Q     +++LW A       K +FWR  T A +H ++ H++ N  
Sbjct: 5   TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 64
Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVG 245
               +G  +EK  G  + + +   SA+ S  +  +F      G SG ++ L+G
Sbjct: 65  WWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWFGGLSGVVYALMG 117

>pdb|2XTU|A Chain A, Structure Of E.Coli Rhomboid Protease Glpg Active Site Mutant, S201t In Trigonal Crystal Form Length = 181

Iteration: 1
 Score = 47.4 bits (111), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 30/113 (26%), Positives = 56/113 (49%), Gaps = 1/113 (0%)
Query: 134 TNILLAVNVLVYIA-QFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCY 192
           T +++   V+V+IA Q     +++LW A       K +FWR  T A +H ++ H++ N  
Sbjct: 7   TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 66
Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVG 245
               +G  +EK  G  + + +   SA+ S  +  +F      G +G ++ L+G
Sbjct: 67  WWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWFGGLTGVVYALMG 119

>pdb|2XTV|A Chain A, Structure Of E.Coli Rhomboid Protease Glpg, Active Site Mutant, S201t, Orthorhombic Crystal Form Length = 180

Iteration: 1
 Score = 47.0 bits (110), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 30/113 (26%), Positives = 56/113 (49%), Gaps = 1/113 (0%)
Query: 134 TNILLAVNVLVYIA-QFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCY 192
           T +++   V+V+IA Q     +++LW A       K +FWR  T A +H ++ H++ N  
Sbjct: 5   TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 64
Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVG 245
               +G  +EK  G  + + +   SA+ S  +  +F      G +G ++ L+G
Sbjct: 65  WWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWFGGLTGVVYALMG 117

>pdb|3B44|A Chain A, Crystal Structure Of Glpg W136a Mutant Length = 180

Iteration: 1
 Score = 42.0 bits (97), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 30/113 (26%), Positives = 55/113 (48%), Gaps = 1/113 (0%)
Query: 134 TNILLAVNVLVYIA-QFATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCY 192
           T +++   V+V+IA Q     +++LW A       K +F R  T A +H ++ H++ N  
Sbjct: 7   TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFARYFTHALMHFSLMHILFNLL 66
Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVG 245
               +G  +EK  G  + + +   SA+ S  +  +F      G SG ++ L+G
Sbjct: 67  WWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWFGGLSGVVYALMG 119

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	309
2xov_A	181	Rhomboid protease GLPG; membrane protein, hydrolas	3e-39
2nr9_A	196	Protein GLPG homolog; intramembrane peptidase, rho	1e-38

>2xov_A Rhomboid protease GLPG; membrane protein, hydrolase, intramembrane protease; HET: BNG; 1.65A {Escherichia coli} PDB: 2ic8_A* 2nrf_A 2xtu_A* 2irv_A* 3b45_A* 2o7l_A* 2xow_A* 3txt_A* 2xtv_A* 3b44_A* Length = 181

 Score =  135 bits (341), Expect = 3e-39
 Identities = 35/153 (22%), Positives = 65/153 (42%), Gaps = 1/153 (0%)

Query: 134 TNILLAVNVLVYIAQFATQD-KLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCY 192
           T +++   V+V+IA     D +++LW A       K +FWR  T A +H ++ H++ N  
Sbjct: 7   TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 66

Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIM 252
               +G  +EK  G  + + +   SA+ S  +  +F      G SG ++ L+G   +   
Sbjct: 67  WWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWFGGLSGVVYALMGYVWLRGE 126

Query: 253 RHRNILGGGKEELQHLAKVIIFNMVCSAAFANI 285
           R        +  L   A + I          ++
Sbjct: 127 RDPQSGIYLQRGLIIFALIWIVAGWFDLFGMSM 159

>2nr9_A Protein GLPG homolog; intramembrane peptidase, rhomboid protease, membrane protein; HET: PA6 PQE; 2.20A {Haemophilus influenzae} SCOP: f.51.1.1 PDB: 3odj_A Length = 196

 Score =  134 bits (339), Expect = 1e-38
 Identities = 26/153 (16%), Positives = 59/153 (38%), Gaps = 1/153 (0%)

Query: 134 TNILLAVNVLVYIAQFATQDKLLLWGAKINSLID-KGQFWRLATSAFLHANIAHLMVNCY 192
           T IL A+ VL+YIAQ    +  +++     +  +   + WR  +   +H +  H++ N  
Sbjct: 12  TLILTALCVLIYIAQQLGFEDDIMYLMHYPAYEEQDSEVWRYISHTLVHLSNLHILFNLS 71

Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIM 252
                G  +E+  G  + L +Y  ++  +  +          G SG ++ ++G   +   
Sbjct: 72  WFFIFGGMIERTFGSVKLLMLYVVASAITGYVQNYVSGPAFFGLSGVVYAVLGYVFIRDK 131

Query: 253 RHRNILGGGKEELQHLAKVIIFNMVCSAAFANI 285
            + ++    +     L   I    +       +
Sbjct: 132 LNHHLFDLPEGFFTMLLVGIALGFISPLFGVEM 164

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	309
2xov_A	181	Rhomboid protease GLPG; membrane protein, hydrolas	99.97
2nr9_A	196	Protein GLPG homolog; intramembrane peptidase, rho	99.97

>2xov_A Rhomboid protease GLPG; membrane protein, hydrolase, intramembrane protease; HET: BNG; 1.65A {Escherichia coli} PDB: 2ic8_A* 2nrf_A 2xtu_A* 2irv_A* 3b45_A* 2o7l_A* 2xow_A* 3txt_A* 2xtv_A* 3b44_A*

Probab=99.97  E-value=3.5e-30  Score=225.21  Aligned_cols=175  Identities=21%  Similarity=0.176  Sum_probs=135.4

Q ss_pred             cchhHHHHHHHHHHHHHHHHHhchH-HHHHhhhchhhhhccCCcchhhhhhcccCCHHHHHHHHHHHHHHHHHHHHHhCh
Q 021695          129 IGRQWTNILLAVNVLVYIAQFATQD-KLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGP  207 (309)
Q Consensus       129 ~~~~~t~~LI~i~v~vfll~~~~~~-~l~~~g~~~~~~i~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~  207 (309)
                      |.+|+|..++++|+++|+++...+. ....+....+..+.++|+||++|++|+|.|+.|+++||+.++.+|..+|+.+|+
T Consensus         2 ~~~pvt~~li~~~v~vf~~~~~~~~~~~~~~~~~~p~~~~~~~~wrl~T~~f~H~~~~Hl~~Nm~~l~~~g~~~E~~~G~   81 (181)
T 2xov_A            2 RAGPVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLLWWWYLGGAVEKRLGS   81 (181)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHSSCCSGGGTTCTTHHHHGGGCCCSHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred             CCCcHHHHHHHHHHHHHHHHHHhCcHHHHHhhcCChhhccCCCCHHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHhCh
Confidence            4568999999999999999876543 334444444545678999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCceechHHHHHHHHHHHHHHHHhhhhhccCchHHHHHHHHHHHHHHHHHhc---cCC
Q 021695          208 RRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAA---FAN  284 (309)
Q Consensus       208 ~~fl~lyl~sgi~g~l~s~l~~~~~~vGaSGaIfGLlga~~~~~~~~~~~~~~~~~~~~~i~~~l~l~lv~~ll---~~~  284 (309)
                      +||+.+|+.+++.+++.++++.+..++|+||++||++++..+....+++.....+...   ....++++++++.   .++
T Consensus        82 ~~fl~~yl~~~i~~~l~~~~~~~~~~vGaSGai~gl~g~~~~~~~~~p~~~~~l~~~~---~~~~~~~~~~~~~~~~~~~  158 (181)
T 2xov_A           82 GKLIVITLISALLSGYVQQKFSGPWFGGLSGVVYALMGYVWLRGERDPQSGIYLQRGL---IIFALIWIVAGWFDLFGMS  158 (181)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCSCCCCSHHHHHHHHHHHHHHHHHCGGGSCCCCHHH---HHHHHHHHHHHHTTSSCCS
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHHHHhhCcCceeeeHHHH---HHHHHHHHHHHHHHhcccc
Confidence            9999999999999999999887666999999999999987654333332211112221   1222333444443   368


Q ss_pred             hhHHHHHHHHHHHHHHHHccCC
Q 021695          285 IVKIESRHTLTGETCYFIDPSK  306 (309)
Q Consensus       285 v~~~aHLgG~l~G~~~~l~~~~  306 (309)
                      +|++||++|+++|+++.+..+|
T Consensus       159 v~~~aHlgG~l~G~l~~~~~~~  180 (181)
T 2xov_A          159 MANGAHIAGLAVGLAMAFVDSL  180 (181)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999988765443

>2nr9_A Protein GLPG homolog; intramembrane peptidase, rhomboid protease, membrane protein; HET: PA6 PQE; 2.20A {Haemophilus influenzae} SCOP: f.51.1.1 PDB: 3odj_A

Probab=99.97  E-value=4.5e-30  Score=227.28  Aligned_cols=171  Identities=15%  Similarity=0.191  Sum_probs=131.5

Q ss_pred             ccchhHHHHHHHHHHHHHHHHHhchH-HHHHhhhchhhhhccCCcchhhhhhcccCCHHHHHHHHHHHHHHHHHHHHHhC
Q 021695          128 FIGRQWTNILLAVNVLVYIAQFATQD-KLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICG  206 (309)
Q Consensus       128 ~~~~~~t~~LI~i~v~vfll~~~~~~-~l~~~g~~~~~~i~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G  206 (309)
                      .+++|+|..++++|+++|+++...+. ....+....+..+.++|+||++|++|+|.|+.|+++||+.++.+|..+|+.+|
T Consensus         6 ~~~~pvt~~li~~~v~vfll~~~~~~~~~~~~~~~~p~~~~~~~~wrl~T~~flH~~~~Hl~~Nm~~l~~~G~~lE~~~G   85 (196)
T 2nr9_A            6 AQQGKITLILTALCVLIYIAQQLGFEDDIMYLMHYPAYEEQDSEVWRYISHTLVHLSNLHILFNLSWFFIFGGMIERTFG   85 (196)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHSCCCSGGGGGCTTHHHHGGGCCSSHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             cccccHHHHHHHHHHHHHHHHHHcCcHHHHHhhcCCHhhcccCCcHHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHC
Confidence            34578999999999999999877643 33444444454567899999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHhcCCceechHHHHHHHHHHHHHHHHhhhhhccCchHHHHHHHHHHHHHHHHHhc----c
Q 021695          207 PRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAA----F  282 (309)
Q Consensus       207 ~~~fl~lyl~sgi~g~l~s~l~~~~~~vGaSGaIfGLlga~~~~~~~~~~~~~~~~~~~~~i~~~l~l~lv~~ll----~  282 (309)
                      +++++.+|+.+++.+++.++++.+..++||||+|||++++.++....+++.+ ..+....   ..+++++++++.    .
T Consensus        86 ~~~~l~~yl~~~~~~~l~~~~~~~~~~vGaSGai~gl~g~~~~~~~~~~~~~-~~~~~~~---~~~~~~~~~~~~~~~~~  161 (196)
T 2nr9_A           86 SVKLLMLYVVASAITGYVQNYVSGPAFFGLSGVVYAVLGYVFIRDKLNHHLF-DLPEGFF---TMLLVGIALGFISPLFG  161 (196)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHCSCCCCSHHHHHHHHHHHHHHHHSSTTSC-CCCCSST---TTTTTTTTHHHHSCSSC
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhcCCCeeeHHHHHHHHHHHHHHHHHhcchhh-cchHHHH---HHHHHHHHHHHHHhccC
Confidence            9999999999999999999988766699999999999997765433333221 1111111   111112223333    3


Q ss_pred             CChhHHHHHHHHHHHHHHHH
Q 021695          283 ANIVKIESRHTLTGETCYFI  302 (309)
Q Consensus       283 ~~v~~~aHLgG~l~G~~~~l  302 (309)
                      +++|++||++|+++|+++.+
T Consensus       162 ~~v~~~aHlgG~l~G~l~~~  181 (196)
T 2nr9_A          162 VEMGNAAHISGLIVGLIWGF  181 (196)
T ss_dssp             CTTCHHHHHHHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHHHHHHHH
Confidence            48999999999999987654

---

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	309
d3b45a1	180	f.51.1.1 (A:91-270) GlpG {Escherichia coli [TaxId:	3e-21
d2nr9a1	189	f.51.1.1 (A:4-192) GlpG homolog HI0618 {Haemophilu	9e-19

>d3b45a1 f.51.1.1 (A:91-270) GlpG {Escherichia coli [TaxId: 562]} Length = 180

class: Membrane and cell surface proteins and peptides
fold: Rhomboid-like
superfamily: Rhomboid-like
family: Rhomboid-like
domain: GlpG
species: Escherichia coli [TaxId: 562]

 Score = 86.7 bits (214), Expect = 3e-21
 Identities = 35/153 (22%), Positives = 65/153 (42%), Gaps = 1/153 (0%)

Query: 134 TNILLAVNVLVYIAQFATQD-KLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCY 192
           T +++   V+V+IA     D +++LW A       K +FWR  T A +H ++ H++ N  
Sbjct: 7   TWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLL 66

Query: 193 SLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIM 252
               +G  +EK  G  + + +   SA+ S  +  +F      G SG ++ L+G   +   
Sbjct: 67  WWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWFGGLSGVVYALMGYVWLRGE 126

Query: 253 RHRNILGGGKEELQHLAKVIIFNMVCSAAFANI 285
           R        +  L   A + I          ++
Sbjct: 127 RDPQSGIYLQRGLIIFALIWIVAGWFDLFGMSM 159

>d2nr9a1 f.51.1.1 (A:4-192) GlpG homolog HI0618 {Haemophilus influenzae [TaxId: 727]} Length = 189

class: Membrane and cell surface proteins and peptides
fold: Rhomboid-like
superfamily: Rhomboid-like
family: Rhomboid-like
domain: GlpG homolog HI0618
species: Haemophilus influenzae [TaxId: 727]

 Score = 80.2 bits (197), Expect = 9e-19
 Identities = 29/161 (18%), Positives = 61/161 (37%), Gaps = 3/161 (1%)

Query: 128 FIGRQW--TNILLAVNVLVYIAQ-FATQDKLLLWGAKINSLIDKGQFWRLATSAFLHANI 184
           F+ +Q   T IL A+ VL+YIAQ    +D ++             + WR  +   +H + 
Sbjct: 1   FLAQQGKITLILTALCVLIYIAQQLGFEDDIMYLMHYPAYEEQDSEVWRYISHTLVHLSN 60

Query: 185 AHLMVNCYSLNSIGPTMEKICGPRRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLV 244
            H++ N       G  +E+  G  + L +Y  ++  +  +          G SG ++ ++
Sbjct: 61  LHILFNLSWFFIFGGMIERTFGSVKLLMLYVVASAITGYVQNYVSGPAFFGLSGVVYAVL 120

Query: 245 GSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAAFANI 285
           G   +    + ++    +     L   I    +       +
Sbjct: 121 GYVFIRDKLNHHLFDLPEGFFTMLLVGIALGFISPLFGVEM 161

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	309
d3b45a1	180	GlpG {Escherichia coli [TaxId: 562]}	99.97
d2nr9a1	189	GlpG homolog HI0618 {Haemophilus influenzae [TaxId	99.96

>d3b45a1 f.51.1.1 (A:91-270) GlpG {Escherichia coli [TaxId: 562]}

class: Membrane and cell surface proteins and peptides
fold: Rhomboid-like
superfamily: Rhomboid-like
family: Rhomboid-like
domain: GlpG
species: Escherichia coli [TaxId: 562]

Probab=99.97  E-value=3.6e-29  Score=215.60  Aligned_cols=174  Identities=20%  Similarity=0.169  Sum_probs=143.1

Q ss_pred             cchhHHHHHHHHHHHHHHHHHhch-HHHHHhhhchhhhhccCCcchhhhhhcccCCHHHHHHHHHHHHHHHHHHHHHhCh
Q 021695          129 IGRQWTNILLAVNVLVYIAQFATQ-DKLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGP  207 (309)
Q Consensus       129 ~~~~~t~~LI~i~v~vfll~~~~~-~~l~~~g~~~~~~i~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~  207 (309)
                      |..|+|..++++|+++|+++...+ .+...+...+.+...++|+||++|++|+|.|+.|+++||+.++.+|+.+|+.+|+
T Consensus         2 r~~pvT~~li~i~~~vf~~~~~~~~~~~~~~~~~~~~~~~~g~~wrl~T~~f~H~~~~Hl~~N~~~l~~~G~~lE~~~G~   81 (180)
T d3b45a1           2 RAGPVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLLWWWYLGGAVEKRLGS   81 (180)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHSSCCSGGGTTCGGGGTGGGGCCCSHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred             CCCcHHHHHHHHHHHHHHHHHHhCcHHHHHHHcCCCcccccCchHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHhccc
Confidence            457999999999999999876543 4455666556667789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCceechHHHHHHHHHHHHHHHHhhhhhccCchHHHHHHHHHHHHHHHHHhccCChhH
Q 021695          208 RRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAAFANIVK  287 (309)
Q Consensus       208 ~~fl~lyl~sgi~g~l~s~l~~~~~~vGaSGaIfGLlga~~~~~~~~~~~~~~~~~~~~~i~~~l~l~lv~~ll~~~v~~  287 (309)
                      ++++.+|+.+++.|++++.++.+....|+||+++|++++..+..++++......+..........++........+++|+
T Consensus        82 ~~~~~~~~~~~~~g~l~~~~~~~~~~~G~sg~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~  161 (180)
T d3b45a1          82 GKLIVITLISALLSGYVQQKFSGPWFGGLSGVVYALMGYVWLRGERDPQSGIYLQRGLIIFALIWIVAGWFDLFGMSMAN  161 (180)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCSCCCCSHHHHHHHHHHHHHHHHHCGGGSCCCCHHHHHHHHHHHHHHHTTSSCCSSCH
T ss_pred             hhheeeeeHHHHHHHHHHHHHhccccccccchHHHHHHHHHHHhhhcchhHHhhHHHHHHHHHHHHHHHHHHhccCchHH
Confidence            99999999999999999999988889999999999999998887777654444333333333333333344445688999


Q ss_pred             HHHHHHHHHHHHHHH
Q 021695          288 IESRHTLTGETCYFI  302 (309)
Q Consensus       288 ~aHLgG~l~G~~~~l  302 (309)
                      .||++|+++|+++.+
T Consensus       162 ~aHlgG~l~G~~~~~  176 (180)
T d3b45a1         162 GAHIAGLAVGLAMAF  176 (180)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999998765

>d2nr9a1 f.51.1.1 (A:4-192) GlpG homolog HI0618 {Haemophilus influenzae [TaxId: 727]}

class: Membrane and cell surface proteins and peptides
fold: Rhomboid-like
superfamily: Rhomboid-like
family: Rhomboid-like
domain: GlpG homolog HI0618
species: Haemophilus influenzae [TaxId: 727]

Probab=99.96  E-value=8.2e-30  Score=221.76  Aligned_cols=175  Identities=15%  Similarity=0.170  Sum_probs=140.1

Q ss_pred             cchhHHHHHHHHHHHHHHHHHhchH-HHHHhhhchhhhhccCCcchhhhhhcccCCHHHHHHHHHHHHHHHHHHHHHhCh
Q 021695          129 IGRQWTNILLAVNVLVYIAQFATQD-KLLLWGAKINSLIDKGQFWRLATSAFLHANIAHLMVNCYSLNSIGPTMEKICGP  207 (309)
Q Consensus       129 ~~~~~t~~LI~i~v~vfll~~~~~~-~l~~~g~~~~~~i~~gq~WRLlTs~FlH~~~~HLl~Nm~~L~~~G~~lE~~~G~  207 (309)
                      |..|+|..++++|+++|+++....+ ....+...+.....++|+||++|+.|+|.|+.|+++||+.++.+|..+|+.+|+
T Consensus         4 ~~~pvt~~i~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~wrl~T~~f~H~~~~Hl~~N~~~l~~~g~~~E~~~G~   83 (189)
T d2nr9a1           4 QQGKITLILTALCVLIYIAQQLGFEDDIMYLMHYPAYEEQDSEVWRYISHTLVHLSNLHILFNLSWFFIFGGMIERTFGS   83 (189)
T ss_dssp             TSCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHSCCCSGGGGGCTTHHHHGGGCCSSHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred             CcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHccccccccCchHHhHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4468999999999999999877543 334444445566789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCceechHHHHHHHHHHHHHHHHhhhhhccCchHHHHHHHHHHHHHHHHHhccCChhH
Q 021695          208 RRYLGVYFSSAIASSAMSYRFCNSPAVGASGAIFGLVGSFAVFIMRHRNILGGGKEELQHLAKVIIFNMVCSAAFANIVK  287 (309)
Q Consensus       208 ~~fl~lyl~sgi~g~l~s~l~~~~~~vGaSGaIfGLlga~~~~~~~~~~~~~~~~~~~~~i~~~l~l~lv~~ll~~~v~~  287 (309)
                      ++++.+|+.+++++++.+.+..+.+.+|+||++||++++.+...+.++..+...+.....+...+.+..+.....+++|+
T Consensus        84 ~~~~~~~~~~~~~~~l~~~~~~~~~~vGaSG~v~gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~  163 (189)
T d2nr9a1          84 VKLLMLYVVASAITGYVQNYVSGPAFFGLSGVVYAVLGYVFIRDKLNHHLFDLPEGFFTMLLVGIALGFISPLFGVEMGN  163 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCSCCCCSHHHHHHHHHHHHHHHHSSTTSCCCCCSSTTTTTTTTTHHHHSCSSCCTTCH
T ss_pred             HhhhhHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHhhhHhccHHHHHHHHHHHHHHHHHHhccCCChHH
Confidence            99999999999999999998888889999999999999888877777755443322222222222223333445678999


Q ss_pred             HHHHHHHHHHHHHHHc
Q 021695          288 IESRHTLTGETCYFID  303 (309)
Q Consensus       288 ~aHLgG~l~G~~~~l~  303 (309)
                      +||++|+++|+++.+.
T Consensus       164 ~aHl~G~l~G~~~g~~  179 (189)
T d2nr9a1         164 AAHISGLIVGLIWGFI  179 (189)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999999877653