Citrus Sinensis ID: 028531

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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-------21
Protein Sequence
MLINRFLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFRGIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNMPA
Secondary Structure (PSIPRED)
cHHHHHHHccccccccccEEEEEccccccccccccccHHHHHHHHHHHHcccccccccccEEEEEEEEccEEEEEEccccccccccccHHHHHHHcccccccEEEEEcccccccccEEEcccccccccccHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHccccccccccEEEEEcccccccccccHHHHHHHHHHHHHHHcccccccccEEEEEEEEEEccEEEEEEEEcccHHHcHHHHHHHHHHHcccHHHEEEEEEEcccccccEEEEEcccccccHHHHHHHHHHccccccccccccHHHEcccccHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHccccHHHHcEEccccc
Coil and Loop (DISEMBL)
mlinrflrrgfctavarpwlfvglgnpgdkykgtrhnvGFEMIDAFAEsqgismntvhckatfgqgfvgdapvllakpqtymnlsgestgplaayyklplnrvlvfhddmglpcgvlrlrhngghgghngLKSVMNNfrgigrppgqmdpKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNMPA
Flexible Loop (DISEMBL)
MLINRFLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFRGIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSkgltesarhfntiqkykhirlqnmpa
Low Complexity Region (SEG)
MLINRFLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVlrlrhngghgghnglKSVMNNFRGIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNMPA
Disordered region (IsUnstruct)
**INRFLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFRGIG*******PKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHFNTIQKYKHI*******
Disordered Region (DISOPRED)
***************ARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFRGIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHFNT**************
Disordered Region (DISEMBL)
MLINRFLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFRGIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNMPA
Disordered Region (DISPRO)
**INRFLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFRGIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQN***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLINRFLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFRGIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNMPA
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	208	2.2.26 [Sep-21-2011]
Q6NLS8	219	Peptidyl-tRNA hydrolase,	yes	no	0.966	0.917	0.712	4e-83
Q9M5P4	256	Chloroplastic group IIB i	N/A	no	0.894	0.726	0.545	4e-60
Q5ZCL8	259	Chloroplastic group IIB i	yes	no	0.875	0.702	0.557	1e-59
Q8GW64	288	Peptidyl-tRNA hydrolase,	no	no	0.884	0.638	0.525	2e-57
Q9FKN4	246	Chloroplastic group IIB i	no	no	0.875	0.739	0.567	3e-57
Q9LF14	240	Chloroplastic group IIB i	no	no	0.875	0.758	0.546	9e-57
Q5N9Q7	250	Peptidyl-tRNA hydrolase,	no	no	0.889	0.74	0.517	1e-56
Q10LI6	186	CRS2-like protein, chloro	no	no	0.557	0.623	0.75	1e-44
Q47SW2	213	Peptidyl-tRNA hydrolase O	yes	no	0.817	0.798	0.418	6e-39
A8F920	188	Peptidyl-tRNA hydrolase O	yes	no	0.831	0.920	0.445	4e-35

>sp|Q6NLS8|PTHM_ARATH Peptidyl-tRNA hydrolase, mitochondrial OS=Arabidopsis thaliana GN=At5g19830 PE=2 SV=1

 Score =  307 bits (786), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 151/212 (71%), Positives = 171/212 (80%), Gaps = 11/212 (5%)

Query: 2   LINRFLRRGFCTA-VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCK 60
           +++R  RR +CT+ V RPWLF+GLGNPGDKYKGTRHN+GFEMID FAES GI MN V+ K
Sbjct: 1   MLSRLSRRCYCTSSVHRPWLFLGLGNPGDKYKGTRHNIGFEMIDVFAESVGIQMNLVNFK 60

Query: 61  ATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLR 120
           A  GQGFV D PV+LAKPQTYMNLSGES+GPLAAYYKLPLNRVLV HDDM LPCGVLRL+
Sbjct: 61  AIMGQGFVADLPVILAKPQTYMNLSGESSGPLAAYYKLPLNRVLVVHDDMQLPCGVLRLQ 120

Query: 121 HNGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTAL 170
             GGHG HNGLKSVMN+FR          GIG+PPGQMDPKAFLLQKF+  ARER+D AL
Sbjct: 121 EKGGHGCHNGLKSVMNHFRGNREFARLRIGIGKPPGQMDPKAFLLQKFSMPARERMDKAL 180

Query: 171 QEGVEVLKLLLSKGLTESARHFNTIQKYKHIR 202
            EGV+ LKL+L+K   ES R FN  QKYKH++
Sbjct: 181 AEGVDALKLVLAKDFGESWRLFNVEQKYKHLK 212

The natural substrate for this enzyme may be peptidyl-tRNAs which drop off the ribosome during protein synthesis. May also be required for the splicing of group IIB introns in mitochondrions.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: 1EC: .EC: 2EC: 9

>sp|Q9M5P4|CRS2_MAIZE Chloroplastic group IIB intron splicing facilitator CRS2, chloroplastic OS=Zea mays GN=CRS2 PE=1 SV=1

 Score =  230 bits (587), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 107/196 (54%), Positives = 142/196 (72%), Gaps = 10/196 (5%)

Query: 18  PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
           PWL  GLGNPG+KY GTRHNVGFEM+D  A  +GI+MNT+  K+  G G +G+ PVL+ K
Sbjct: 61  PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVK 120

Query: 78  PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNN 137
           PQ+YMN SGE+ GPLAAYY++PL  +L+ +DD  LP GVLRL+  GGHG HNGL++V+ +
Sbjct: 121 PQSYMNYSGEAIGPLAAYYQVPLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEH 180

Query: 138 FR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
                       GIG PPG+MDP+AFLLQKF++  R +IDTAL++GV+ ++ L+ KG + 
Sbjct: 181 LDGRREFPRLSIGIGSPPGKMDPRAFLLQKFSSEERVQIDTALEQGVDAVRTLVLKGFSG 240

Query: 188 SARHFNTIQKYKHIRL 203
           S   FN +QKYK  R+
Sbjct: 241 STERFNLVQKYKFHRV 256

Required for the splicing of group IIB introns in chloroplasts. Forms complexes with either CAF1 or CAF2 which, in turn, interact with RNA and confer intron specificity of the splicing particles. Has no peptidyl-tRNA hydrolase activity.

Zea mays (taxid: 4577)

>sp|Q5ZCL8|CRS2_ORYSJ Chloroplastic group IIB intron splicing facilitator CRS2, chloroplastic OS=Oryza sativa subsp. japonica GN=Os01g0132800 PE=2 SV=1

 Score =  229 bits (584), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 107/192 (55%), Positives = 138/192 (71%), Gaps = 10/192 (5%)

Query: 18  PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
           PWL  GLGNPG KY GTRHNVGFEM+D  A  +GI+MNT+  K+  G G +G+ PVLL K
Sbjct: 64  PWLIAGLGNPGSKYHGTRHNVGFEMVDRIARDEGITMNTIQSKSLLGIGSIGEVPVLLVK 123

Query: 78  PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNN 137
           PQ+Y+N SGE+ GPLAAYY++PL  +LV +D+M LP GVLRL+  GGHG HNGL++VM  
Sbjct: 124 PQSYINYSGEAIGPLAAYYQVPLRHILVMYDEMSLPNGVLRLQRKGGHGRHNGLQNVMEC 183

Query: 138 FR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
                       GIG PPG+MD +AFLLQKF++  R +IDTAL++GV+ ++ L+ KG + 
Sbjct: 184 LDSSRELPRLSIGIGSPPGKMDTRAFLLQKFSSEERLQIDTALEQGVDAVRTLVLKGFSG 243

Query: 188 SARHFNTIQKYK 199
           S   FN +QKYK
Sbjct: 244 SIERFNLVQKYK 255

Required for the splicing of group IIB introns in chloroplasts.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q8GW64|PTHC_ARATH Peptidyl-tRNA hydrolase, chloroplastic OS=Arabidopsis thaliana GN=At1g18440 PE=2 SV=2

 Score =  221 bits (564), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 102/194 (52%), Positives = 142/194 (73%), Gaps = 10/194 (5%)

Query: 18  PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
           PWL VGLGNPG KY+GTRHNVGFEM+DA A+++GISMNTV+ KA FG+G +G+ P++LAK
Sbjct: 94  PWLIVGLGNPGKKYQGTRHNVGFEMVDALADAEGISMNTVNFKALFGKGVIGNIPIMLAK 153

Query: 78  PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNN 137
           PQT+MNLSGES G + ++YK+PL +VLV +DD+ LP G LRL   GGHGGHNG++S+++ 
Sbjct: 154 PQTFMNLSGESVGQIVSFYKIPLKQVLVVYDDLDLPFGKLRLLPKGGHGGHNGMRSIIDR 213

Query: 138 FR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
            +          GIGRPPG+MD   F+L++FN   +E +D   Q G+E +++LL +G  +
Sbjct: 214 LKGSRDFPRLRIGIGRPPGKMDTANFVLRQFNRQEQEELDHTFQTGLEAIRILLLEGFNK 273

Query: 188 SARHFNTIQKYKHI 201
           SA   NT +  + +
Sbjct: 274 SATFVNTRKSMEQL 287

The natural substrate for this enzyme may be peptidyl-tRNAs which drop off the ribosome during protein synthesis.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 2

EC: 9

>sp|Q9FKN4|CRS2A_ARATH Chloroplastic group IIB intron splicing facilitator CRS2-A, chloroplastic OS=Arabidopsis thaliana GN=CRS2A PE=2 SV=1

 Score =  221 bits (563), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 109/192 (56%), Positives = 134/192 (69%), Gaps = 10/192 (5%)

Query: 18  PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
           PWL VGLGNPG KY GTRHN+GFEMID  A +  ISMNT+  KA  G G VG+ P+LL K
Sbjct: 51  PWLIVGLGNPGLKYYGTRHNIGFEMIDHIARATDISMNTIQSKALVGIGSVGEVPILLVK 110

Query: 78  PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNN 137
           PQ YMN SGES GPLAAYY++PL  +L+ +DDMGL  GVLRL+  GGH  HNGLK+V  +
Sbjct: 111 PQGYMNFSGESVGPLAAYYQIPLRHILMIYDDMGLSNGVLRLQPKGGHSQHNGLKNVTEH 170

Query: 138 FR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
                       GIG PPG MD KAFLLQKF+ + R+++D  L++GVE +K L+ +G ++
Sbjct: 171 LNGCRGYPRLSIGIGNPPGNMDMKAFLLQKFSPLERKQMDEGLEQGVEGVKTLVEEGFSD 230

Query: 188 SARHFNTIQKYK 199
           S   FN  QKYK
Sbjct: 231 SISRFNLGQKYK 242

Required for the splicing of group IIB introns in chloroplasts.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LF14|CRS2B_ARATH Chloroplastic group IIB intron splicing facilitator CRS2-B, chloroplastic OS=Arabidopsis thaliana GN=CRS2B PE=2 SV=1

 Score =  219 bits (558), Expect = 9e-57,   Method: Compositional matrix adjust.
 Identities = 105/192 (54%), Positives = 135/192 (70%), Gaps = 10/192 (5%)

Query: 18  PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
           PWL VGLGNPG+KY GTRHNVGFEMID  A  +G+ MNT+  KA  G G + D P+LLAK
Sbjct: 45  PWLIVGLGNPGNKYHGTRHNVGFEMIDVLARKEGVLMNTIQSKALIGIGAIEDVPILLAK 104

Query: 78  PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNN 137
           PQTYMN SGES G LA++Y++PL  +L+ +D+M LP GVLRL+  GG G HNG+KSVM +
Sbjct: 105 PQTYMNFSGESVGSLASHYRVPLRHILMIYDEMALPNGVLRLQPKGGQGYHNGVKSVMGH 164

Query: 138 FR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
                       GIG+PPG MD KAFLLQKF+ + +++I+ AL++G E +K L+  G  +
Sbjct: 165 LDGRRNFPRLSIGIGKPPGNMDMKAFLLQKFSPLEQKQIEEALEQGSEAVKTLVLNGFNQ 224

Query: 188 SARHFNTIQKYK 199
               FN +QKYK
Sbjct: 225 GISRFNLVQKYK 236

Required for the splicing of group IIB introns in chloroplasts.

Arabidopsis thaliana (taxid: 3702)

>sp|Q5N9Q7|PTHM_ORYSJ Peptidyl-tRNA hydrolase, mitochondrial OS=Oryza sativa subsp. japonica GN=Os01g0693900 PE=2 SV=1

 Score =  219 bits (558), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 101/195 (51%), Positives = 141/195 (72%), Gaps = 10/195 (5%)

Query: 17  RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLA 76
           +PWLFVGLGNPG  Y+GTRHNVGFEMID  AE++GIS++++  KA  G+G +GDAP++LA
Sbjct: 54  KPWLFVGLGNPGKVYQGTRHNVGFEMIDVIAEAEGISLSSMQFKAMVGKGRIGDAPIMLA 113

Query: 77  KPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMN 136
           KPQT+MN SGES G L +Y+K+PLN+VLV +DD+ LP   LRL   GGHGGHNG++S++N
Sbjct: 114 KPQTFMNASGESVGQLVSYFKIPLNQVLVMYDDLDLPFAKLRLLPKGGHGGHNGVRSIIN 173

Query: 137 NFR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLT 186
           + +          GIGRPPG+MDP  F+L+ FN   +E +D A   G+E ++++  +G  
Sbjct: 174 HLKQNRDFPRLRIGIGRPPGKMDPANFVLRPFNRKEQEELDFAFHRGLEAVRIMALEGFN 233

Query: 187 ESARHFNTIQKYKHI 201
           +SA + NT Q  + +
Sbjct: 234 KSATYVNTAQSSEML 248

The natural substrate for this enzyme may be peptidyl-tRNAs which drop off the ribosome during protein synthesis.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 2

EC: 9

>sp|Q10LI6|CRS2L_ORYSJ CRS2-like protein, chloroplastic OS=Oryza sativa subsp. japonica GN=Os03g0347800 PE=2 SV=1

 Score =  179 bits (454), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 87/116 (75%), Positives = 95/116 (81%)

Query: 15  VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVL 74
           V  PWLFVGLGNPG+KY+ TRHNVGF+MID FA+SQGIS+     KA FG+G V   PVL
Sbjct: 57  VINPWLFVGLGNPGEKYQCTRHNVGFDMIDMFAQSQGISLTRHPFKALFGEGMVEGVPVL 116

Query: 75  LAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNG 130
           LAKPQTYMNLSGES GPLAAYYKLPLNRVLV  DDM LPCGVLRL+  GG+G HNG
Sbjct: 117 LAKPQTYMNLSGESVGPLAAYYKLPLNRVLVAFDDMDLPCGVLRLQPKGGYGRHNG 172

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q47SW2|PTH_THEFY Peptidyl-tRNA hydrolase OS=Thermobifida fusca (strain YX) GN=pth PE=3 SV=1

 Score =  160 bits (405), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 75/179 (41%), Positives = 111/179 (62%), Gaps = 9/179 (5%)

Query: 19  WLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKP 78
           WL VGLGNPG KY G RHNVGF ++D  A  +G         A   +  VGDAPV+LAKP
Sbjct: 35  WLVVGLGNPGPKYAGNRHNVGFMVVDELAAQRGERWRLHKAHAQVVETRVGDAPVVLAKP 94

Query: 79  QTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNF 138
            +YMNLSG     L+A+YK+P++R++V HD++ +P   L+L+  GG  GHNGL+S+  + 
Sbjct: 95  ASYMNLSGGPVAKLSAFYKVPVDRIIVVHDELDIPFARLKLKRGGGSAGHNGLRSITASL 154

Query: 139 ---------RGIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTES 188
                     GIGRPPG+MD  +F+LQ F+   R+ +D  +    + ++ +++ GL ++
Sbjct: 155 GSPDYVRVRVGIGRPPGRMDAASFVLQDFSTAERKELDVHVARAADAVETVVTSGLEKA 213

The natural substrate for this enzyme may be peptidyl-tRNAs which drop off the ribosome during protein synthesis.

Thermobifida fusca (strain YX) (taxid: 269800)

EC: 3

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 2

EC: 9

>sp|A8F920|PTH_BACP2 Peptidyl-tRNA hydrolase OS=Bacillus pumilus (strain SAFR-032) GN=pth PE=3 SV=1

 Score =  147 bits (372), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 81/182 (44%), Positives = 104/182 (57%), Gaps = 9/182 (4%)

Query: 21  FVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQT 80
           FVGLGNPG +Y+ TRHNVGF  ID  ++   I +N       FG GFV    VLL KP T
Sbjct: 4   FVGLGNPGKEYEKTRHNVGFMTIDELSKKWDIPLNQSKFHGQFGTGFVSGQKVLLVKPLT 63

Query: 81  YMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVM----- 135
           YMNLSGE   PL  YY +PL  + V +DD+ LP G +RLR  G  GGHNG+KS++     
Sbjct: 64  YMNLSGECVRPLMDYYDIPLEHLKVIYDDLDLPTGRIRLRTKGSAGGHNGIKSLIQHLGS 123

Query: 136 ---NNFR-GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARH 191
              + FR GIGRP   M    ++L +F+   +  I +A+Q  VE  +  L+K   E    
Sbjct: 124 PEFDRFRIGIGRPQNGMKVVDYVLGRFSEEEQPDIASAIQASVEACEAALTKPFLEVMND 183

Query: 192 FN 193
           FN
Sbjct: 184 FN 185

The natural substrate for this enzyme may be peptidyl-tRNAs which drop off the ribosome during protein synthesis.

Bacillus pumilus (strain SAFR-032) (taxid: 315750)

EC: 3

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 2

EC: 9

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	208
225435751	217	PREDICTED: peptidyl-tRNA hydrolase, mito	0.985	0.944	0.804	1e-94
449452694	218	PREDICTED: peptidyl-tRNA hydrolase, mito	0.995	0.949	0.775	1e-92
449493540	218	PREDICTED: peptidyl-tRNA hydrolase, mito	0.995	0.949	0.770	3e-92
449493552	218	PREDICTED: peptidyl-tRNA hydrolase, mito	0.995	0.949	0.766	7e-92
449452658	218	PREDICTED: peptidyl-tRNA hydrolase, mito	0.995	0.949	0.766	9e-92
358248836	218	uncharacterized protein LOC100808506 [Gl	0.995	0.949	0.755	3e-91
356512501	217	PREDICTED: peptidyl-tRNA hydrolase, mito	0.995	0.953	0.737	2e-88
255582564	217	peptidyl-tRNA hydrolase, putative [Ricin	0.995	0.953	0.718	1e-85
224052908	222	predicted protein [Populus trichocarpa]	0.985	0.923	0.727	8e-85
297808049	218	aminoacyl-tRNA hydrolase [Arabidopsis ly	0.995	0.949	0.705	3e-82

>gi|225435751|ref|XP_002283606.1| PREDICTED: peptidyl-tRNA hydrolase, mitochondrial [Vitis vinifera] gi|297746470|emb|CBI16526.3| unnamed protein product [Vitis vinifera]

 Score =  351 bits (900), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 173/215 (80%), Positives = 183/215 (85%), Gaps = 10/215 (4%)

Query: 2   LINRFLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKA 61
           ++NRF RR FCTA  RPWLFVGLGNPGDKYKGTRHNVGFEMI+AFAESQGI M+TVHCKA
Sbjct: 1   MLNRFSRRLFCTASPRPWLFVGLGNPGDKYKGTRHNVGFEMINAFAESQGIPMDTVHCKA 60

Query: 62  TFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRH 121
            FGQGFV   PV LAKPQTYMNLSGES GPLAAYYKLPLNRV+VFHDDM LPCGVLRL H
Sbjct: 61  IFGQGFVDAVPVFLAKPQTYMNLSGESAGPLAAYYKLPLNRVVVFHDDMSLPCGVLRLHH 120

Query: 122 NGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQ 171
            GGHG HNGLKSV+ +FR          GIG+PPGQMDPKAFLLQKF+A ARERID ALQ
Sbjct: 121 KGGHGNHNGLKSVIYHFRGNREFPRLRIGIGKPPGQMDPKAFLLQKFSATARERIDAALQ 180

Query: 172 EGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNM 206
           EGV VLKLL SKGLTESAR FNT QKYKHIR+QNM
Sbjct: 181 EGVGVLKLLSSKGLTESARCFNTEQKYKHIRVQNM 215

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449452694|ref|XP_004144094.1| PREDICTED: peptidyl-tRNA hydrolase, mitochondrial-like [Cucumis sativus]

 Score =  345 bits (884), Expect = 1e-92,   Method: Compositional matrix adjust.
 Identities = 169/218 (77%), Positives = 183/218 (83%), Gaps = 11/218 (5%)

Query: 2   LINRFLRRGFCTAVA-RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCK 60
           + ++  +RGFCTA++ RPWLFVGLGNPG+K++GTRHNVGFEMID FAES GISMN VHCK
Sbjct: 1   MFSKLTKRGFCTAISSRPWLFVGLGNPGEKFRGTRHNVGFEMIDVFAESIGISMNRVHCK 60

Query: 61  ATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLR 120
           A FG+GFVGD PV LAKPQTYMNLSGES GPLAAYYKLPLNRVLVFHDDM LPCGVLRL+
Sbjct: 61  AVFGEGFVGDIPVFLAKPQTYMNLSGESAGPLAAYYKLPLNRVLVFHDDMNLPCGVLRLQ 120

Query: 121 HNGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTAL 170
           HNGGHG HNGLKSV+ +FR          GIGRPPGQMDPKAFLLQKFN  A+ERIDTAL
Sbjct: 121 HNGGHGYHNGLKSVIYHFRGNREFARLRIGIGRPPGQMDPKAFLLQKFNNTAQERIDTAL 180

Query: 171 QEGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNMPA 208
           QEGV  LKLLLS  L ESARHFN  QKYKHIRLQ MP 
Sbjct: 181 QEGVGALKLLLSHSLFESARHFNHEQKYKHIRLQTMPV 218

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449493540|ref|XP_004159339.1| PREDICTED: peptidyl-tRNA hydrolase, mitochondrial-like [Cucumis sativus]

 Score =  343 bits (880), Expect = 3e-92,   Method: Compositional matrix adjust.
 Identities = 168/218 (77%), Positives = 183/218 (83%), Gaps = 11/218 (5%)

Query: 2   LINRFLRRGFCTAVA-RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCK 60
           + ++  +RGFCTA++ RPWLFVGLGNPG+K++GTRHNVGFEMID FAES GI MN VHCK
Sbjct: 1   MFSKLTKRGFCTAISSRPWLFVGLGNPGEKFRGTRHNVGFEMIDVFAESVGIPMNRVHCK 60

Query: 61  ATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLR 120
           A FG+GFVGD PV LAKPQTYMNLSGES GPLAAYYKLPLNRVLVFHDDM LPCGVLRL+
Sbjct: 61  AVFGEGFVGDIPVFLAKPQTYMNLSGESAGPLAAYYKLPLNRVLVFHDDMTLPCGVLRLQ 120

Query: 121 HNGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTAL 170
           HNGGHG HNGLKSV+++FR          GIGRPPGQMDPKAFLLQKFN  A+ERIDTAL
Sbjct: 121 HNGGHGYHNGLKSVISHFRGNREFARLRIGIGRPPGQMDPKAFLLQKFNNTAQERIDTAL 180

Query: 171 QEGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNMPA 208
           QEGV  LKLLLS  L ESARHFN  QKYKHIRLQ MP 
Sbjct: 181 QEGVGALKLLLSHSLFESARHFNHEQKYKHIRLQTMPV 218

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449493552|ref|XP_004159345.1| PREDICTED: peptidyl-tRNA hydrolase, mitochondrial-like [Cucumis sativus]

 Score =  342 bits (876), Expect = 7e-92,   Method: Compositional matrix adjust.
 Identities = 167/218 (76%), Positives = 182/218 (83%), Gaps = 11/218 (5%)

Query: 2   LINRFLRRGFCTAVA-RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCK 60
           + N+  +RGFCTA++ RPWLF+GLGNPG+K++GTRHNVGFEMID FAES GISMN VHCK
Sbjct: 1   MFNKLTKRGFCTAISSRPWLFMGLGNPGEKFRGTRHNVGFEMIDVFAESIGISMNRVHCK 60

Query: 61  ATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLR 120
           A FG+GFVGD PV LAKPQTYMNLSGES GPLAAYYKLPLNRVLVFHDDM LPCGVLRL+
Sbjct: 61  AVFGEGFVGDVPVFLAKPQTYMNLSGESAGPLAAYYKLPLNRVLVFHDDMNLPCGVLRLQ 120

Query: 121 HNGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTAL 170
           HNGGH  H GLKSV+ +FR          GIGRPPGQMD KAFLLQKFN  A+ERIDTAL
Sbjct: 121 HNGGHDYHKGLKSVIYHFRGNREFARLRIGIGRPPGQMDSKAFLLQKFNNTAQERIDTAL 180

Query: 171 QEGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNMPA 208
           QEGV  LKLLLS GL+ESARHFN  QKYKHIRLQ MP 
Sbjct: 181 QEGVGALKLLLSHGLSESARHFNHKQKYKHIRLQTMPV 218

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449452658|ref|XP_004144076.1| PREDICTED: peptidyl-tRNA hydrolase, mitochondrial-like [Cucumis sativus]

 Score =  341 bits (875), Expect = 9e-92,   Method: Compositional matrix adjust.
 Identities = 167/218 (76%), Positives = 182/218 (83%), Gaps = 11/218 (5%)

Query: 2   LINRFLRRGFCTAVA-RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCK 60
           + N+  +RGFCTA++ RPWLF+GLGNPG+K++GTRHNVGFEMID FAES GISMN VHCK
Sbjct: 1   MFNKLTKRGFCTAISSRPWLFMGLGNPGEKFRGTRHNVGFEMIDVFAESIGISMNRVHCK 60

Query: 61  ATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLR 120
           A FG+GFVGD PV LAKPQTYMNLSGES GPLAAYYKLPLNRVLVFHDDM LPCGVLRL+
Sbjct: 61  AVFGEGFVGDIPVFLAKPQTYMNLSGESAGPLAAYYKLPLNRVLVFHDDMNLPCGVLRLQ 120

Query: 121 HNGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTAL 170
           HNGGH  H GLKSV+ +FR          GIGRPPGQMD KAFLLQKFN  A+ERIDTAL
Sbjct: 121 HNGGHDYHKGLKSVIYHFRGNREFARLRIGIGRPPGQMDSKAFLLQKFNNTAQERIDTAL 180

Query: 171 QEGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNMPA 208
           QEGV  LKLLLS GL+ESARHFN  QKYKHIRLQ MP 
Sbjct: 181 QEGVGALKLLLSHGLSESARHFNHKQKYKHIRLQTMPV 218

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358248836|ref|NP_001239948.1| uncharacterized protein LOC100808506 [Glycine max] gi|255645293|gb|ACU23143.1| unknown [Glycine max]

 Score =  340 bits (871), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 164/217 (75%), Positives = 180/217 (82%), Gaps = 10/217 (4%)

Query: 2   LINRFLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKA 61
           +++R  RR FCT   RPWLFVGLGNPGDK+KGTRHNVGFEMIDAFAESQGI M+TVH KA
Sbjct: 1   MLHRLSRRCFCTFTPRPWLFVGLGNPGDKFKGTRHNVGFEMIDAFAESQGIPMDTVHSKA 60

Query: 62  TFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRH 121
            FG+GFVG+ PV LAKPQTYMNLSGESTGPLAAYYKLPLN+VLVFHDDM LPCGVLRL  
Sbjct: 61  IFGKGFVGEVPVFLAKPQTYMNLSGESTGPLAAYYKLPLNQVLVFHDDMNLPCGVLRLHD 120

Query: 122 NGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQ 171
            GGHG H GLKSV+ NFR          GIG PPGQMDPKAFLLQKFN  AR+RID ALQ
Sbjct: 121 KGGHGSHKGLKSVIYNFRGNREFPRLRIGIGSPPGQMDPKAFLLQKFNVTARQRIDEALQ 180

Query: 172 EGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNMPA 208
           EG++ LKLLLSKGLTESA+ FN  QKYKH+R+QN+P 
Sbjct: 181 EGIDALKLLLSKGLTESAKRFNKEQKYKHLRVQNLPV 217

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356512501|ref|XP_003524957.1| PREDICTED: peptidyl-tRNA hydrolase, mitochondrial-like [Glycine max]

 Score =  330 bits (845), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 160/217 (73%), Positives = 177/217 (81%), Gaps = 10/217 (4%)

Query: 2   LINRFLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKA 61
           ++NR  RR FCT   RPWLFVGLGNPG+K+KGTRHNVGFEMIDAFAESQGI M+TVH KA
Sbjct: 1   MLNRLNRRFFCTVAPRPWLFVGLGNPGEKFKGTRHNVGFEMIDAFAESQGIPMDTVHSKA 60

Query: 62  TFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRH 121
             G+GFVG+ PV LAKPQTYMNLSGESTGPLAAYYKLPLN+VLVFHDDM LPCGVLRL  
Sbjct: 61  ISGKGFVGEVPVFLAKPQTYMNLSGESTGPLAAYYKLPLNQVLVFHDDMNLPCGVLRLHD 120

Query: 122 NGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQ 171
            GGHG H GLKSV+ +F+          GIG PPGQMDPKAFLLQKFN  AR+RID ALQ
Sbjct: 121 KGGHGSHKGLKSVIYHFKGNREFPRLRIGIGSPPGQMDPKAFLLQKFNVTARQRIDEALQ 180

Query: 172 EGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNMPA 208
           EGV+ LKLLLSKGL  SA+ FN  QKYKH+R+QN+P 
Sbjct: 181 EGVDALKLLLSKGLAVSAKRFNKEQKYKHLRVQNLPV 217

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255582564|ref|XP_002532065.1| peptidyl-tRNA hydrolase, putative [Ricinus communis] gi|223528269|gb|EEF30320.1| peptidyl-tRNA hydrolase, putative [Ricinus communis]

 Score =  321 bits (823), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 156/217 (71%), Positives = 175/217 (80%), Gaps = 10/217 (4%)

Query: 2   LINRFLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKA 61
           ++N+  RR FCT  +RPWL VGLGNPGDKYKGTRHNVGFEMIDAFA+   I M+ +H KA
Sbjct: 1   MLNKVCRRCFCTVASRPWLIVGLGNPGDKYKGTRHNVGFEMIDAFAQLLQIPMDKLHSKA 60

Query: 62  TFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRH 121
            FG+GFVG+A VLLAKPQTYMNLSGES GPLAAYYKLPLNRV+V HDDM LPCGVLRL+ 
Sbjct: 61  IFGEGFVGEASVLLAKPQTYMNLSGESAGPLAAYYKLPLNRVIVLHDDMDLPCGVLRLQP 120

Query: 122 NGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQ 171
            GGHG HNGLKSV+++FR          GIGRPPGQMDPKAFLLQKFNA A++RIDTA+ 
Sbjct: 121 KGGHGSHNGLKSVIHHFRGNREFARLRIGIGRPPGQMDPKAFLLQKFNATAQKRIDTAIP 180

Query: 172 EGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNMPA 208
           EG   LK +L KGLTE+AR FN  QKYKHIRLQ MP 
Sbjct: 181 EGAAALKSILFKGLTETARCFNQEQKYKHIRLQTMPT 217

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224052908|ref|XP_002297632.1| predicted protein [Populus trichocarpa] gi|222844890|gb|EEE82437.1| predicted protein [Populus trichocarpa]

 Score =  318 bits (815), Expect = 8e-85,   Method: Compositional matrix adjust.
 Identities = 160/220 (72%), Positives = 175/220 (79%), Gaps = 15/220 (6%)

Query: 2   LINRFLRRGFCTAVA-----RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNT 56
           ++NR  RR FCTA A      PWLFVGLGNPG+K+KGTRHNVGFEMIDAFA S GISMN 
Sbjct: 1   MLNRVSRRCFCTAAAAPTTLSPWLFVGLGNPGEKFKGTRHNVGFEMIDAFAGSLGISMNI 60

Query: 57  VHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGV 116
             CKA FG+GFVGDAPVLLAKPQTYMNLSGES GPLAAYYKLPLNRV+VFHDDM LPCGV
Sbjct: 61  PLCKALFGEGFVGDAPVLLAKPQTYMNLSGESAGPLAAYYKLPLNRVIVFHDDMELPCGV 120

Query: 117 LRLRHNGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARERI 166
           LRL+  GGHG H GLKSV+N+FR          GIGRPPGQMDPKAFLLQKFNA ARERI
Sbjct: 121 LRLQEKGGHGCHRGLKSVINHFRGNREFARLRIGIGRPPGQMDPKAFLLQKFNATARERI 180

Query: 167 DTALQEGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNM 206
           D AL EGV  L+ +L +GLT +AR FN  QKYK+IR + M
Sbjct: 181 DAALPEGVVALRCILFEGLTRTARWFNQEQKYKYIRSETM 220

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297808049|ref|XP_002871908.1| aminoacyl-tRNA hydrolase [Arabidopsis lyrata subsp. lyrata] gi|297317745|gb|EFH48167.1| aminoacyl-tRNA hydrolase [Arabidopsis lyrata subsp. lyrata]

 Score =  310 bits (793), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 153/217 (70%), Positives = 171/217 (78%), Gaps = 10/217 (4%)

Query: 2   LINRFLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKA 61
           +++   RR +CT+V RPWLF+GLGNPGDKYKGTRHN+GFEMID FAES GI MN V+ KA
Sbjct: 1   MLSMLSRRCYCTSVHRPWLFLGLGNPGDKYKGTRHNIGFEMIDVFAESVGIQMNLVNFKA 60

Query: 62  TFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRH 121
             GQGFV D PV+LAKPQTYMNLSGES+GPLAAYYKLPLNRVLV HDDM LPCGVLRL+ 
Sbjct: 61  IMGQGFVDDLPVILAKPQTYMNLSGESSGPLAAYYKLPLNRVLVVHDDMQLPCGVLRLQE 120

Query: 122 NGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQ 171
            GGHG HNGLKSVMN+FR          GIG PPGQMDPKAFLLQKF+  ARER+D AL 
Sbjct: 121 KGGHGCHNGLKSVMNHFRGNREFARLRIGIGNPPGQMDPKAFLLQKFSVPARERMDKALA 180

Query: 172 EGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNMPA 208
           EGV+ LKL+LSK   ES R FN  QKYKH+R   + A
Sbjct: 181 EGVDALKLVLSKDFGESWRLFNVEQKYKHLRQHTIIA 217

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	208
TAIR|locus:2183234	219	AT5G19830 [Arabidopsis thalian	0.966	0.917	0.660	2.7e-68
TAIR|locus:2181412	240	AT5G16140 [Arabidopsis thalian	0.875	0.758	0.510	2.6e-47
TAIR|locus:2173298	250	AT5G38290 [Arabidopsis thalian	0.875	0.728	0.526	5.4e-47
TAIR|locus:2014134	288	AT1G18440 [Arabidopsis thalian	0.850	0.614	0.486	2.1e-45
TIGR_CMR|CHY_0196	187	CHY_0196 "peptidyl-tRNA hydrol	0.836	0.930	0.347	7.6e-25
UNIPROTKB|P65865	191	pth "Peptidyl-tRNA hydrolase"	0.841	0.916	0.351	1.8e-23
TIGR_CMR|BA_0050	186	BA_0050 "peptidyl-tRNA hydrola	0.841	0.940	0.347	2.9e-23
TIGR_CMR|DET_0595	189	DET_0595 "peptidyl-tRNA hydrol	0.841	0.925	0.336	6.1e-23
TIGR_CMR|GSU_0663	193	GSU_0663 "peptidyl-tRNA hydrol	0.822	0.886	0.356	2.7e-20
TIGR_CMR|SPO_0811	239	SPO_0811 "peptidyl-tRNA hydrol	0.826	0.719	0.324	5.8e-18

TAIR|locus:2183234 AT5G19830 [Arabidopsis thaliana (taxid:3702)]

 Score = 693 (249.0 bits), Expect = 2.7e-68, P = 2.7e-68
 Identities = 140/212 (66%), Positives = 159/212 (75%)

Query:     2 LINRFLRRGFCTA-VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCK 60
             +++R  RR +CT+ V RPWLF+GLGNPGDKYKGTRHN+GFEMID FAES GI MN V+ K
Sbjct:     1 MLSRLSRRCYCTSSVHRPWLFLGLGNPGDKYKGTRHNIGFEMIDVFAESVGIQMNLVNFK 60

Query:    61 ATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXX 120
             A  GQGFV D PV+LAKPQTYMNLSGES+GPLAAYYKLPLNRVLV HDDM LPCGV    
Sbjct:    61 AIMGQGFVADLPVILAKPQTYMNLSGESSGPLAAYYKLPLNRVLVVHDDMQLPCGVLRLQ 120

Query:   121 XXXXXXXXXXXKSVMNNFRG----------IGRPPGQMDPKAFLLQKFNAIARERIDTAL 170
                        KSVMN+FRG          IG+PPGQMDPKAFLLQKF+  ARER+D AL
Sbjct:   121 EKGGHGCHNGLKSVMNHFRGNREFARLRIGIGKPPGQMDPKAFLLQKFSMPARERMDKAL 180

Query:   171 QEGVEVLKLLLSKGLTESARHFNTIQKYKHIR 202
              EGV+ LKL+L+K   ES R FN  QKYKH++
Sbjct:   181 AEGVDALKLVLAKDFGESWRLFNVEQKYKHLK 212

GO:0004045 "aminoacyl-tRNA hydrolase activity" evidence=IEA;ISS

GO:0005739 "mitochondrion" evidence=ISM

GO:0006412 "translation" evidence=ISS

GO:0006783 "heme biosynthetic process" evidence=RCA

TAIR|locus:2181412 AT5G16140 [Arabidopsis thaliana (taxid:3702)]

 Score = 495 (179.3 bits), Expect = 2.6e-47, P = 2.6e-47
 Identities = 98/192 (51%), Positives = 125/192 (65%)

Query:    18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
             PWL VGLGNPG+KY GTRHNVGFEMID  A  +G+ MNT+  KA  G G + D P+LLAK
Sbjct:    45 PWLIVGLGNPGNKYHGTRHNVGFEMIDVLARKEGVLMNTIQSKALIGIGAIEDVPILLAK 104

Query:    78 PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVMN- 136
             PQTYMN SGES G LA++Y++PL  +L+ +D+M LP GV               KSVM  
Sbjct:   105 PQTYMNFSGESVGSLASHYRVPLRHILMIYDEMALPNGVLRLQPKGGQGYHNGVKSVMGH 164

Query:   137 -----NFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
                  NF     GIG+PPG MD KAFLLQKF+ + +++I+ AL++G E +K L+  G  +
Sbjct:   165 LDGRRNFPRLSIGIGKPPGNMDMKAFLLQKFSPLEQKQIEEALEQGSEAVKTLVLNGFNQ 224

Query:   188 SARHFNTIQKYK 199
                 FN +QKYK
Sbjct:   225 GISRFNLVQKYK 236

GO:0004045 "aminoacyl-tRNA hydrolase activity" evidence=IEA;ISS

GO:0006412 "translation" evidence=ISS

GO:0009507 "chloroplast" evidence=ISM

GO:0006783 "heme biosynthetic process" evidence=RCA

TAIR|locus:2173298 AT5G38290 [Arabidopsis thaliana (taxid:3702)]

 Score = 492 (178.3 bits), Expect = 5.4e-47, P = 5.4e-47
 Identities = 101/192 (52%), Positives = 125/192 (65%)

Query:    18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
             PWL VGLGNPG KY GTRHN+GFEMID  A +  ISMNT+  KA  G G VG+ P+LL K
Sbjct:    55 PWLIVGLGNPGLKYYGTRHNIGFEMIDHIARATDISMNTIQSKALVGIGSVGEVPILLVK 114

Query:    78 PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSV--- 134
             PQ YMN SGES GPLAAYY++PL  +L+ +DDMGL  GV               K+V   
Sbjct:   115 PQGYMNFSGESVGPLAAYYQIPLRHILMIYDDMGLSNGVLRLQPKGGHSQHNGLKNVTEH 174

Query:   135 MNNFRG-------IGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
             +N  RG       IG PPG MD KAFLLQKF+ + R+++D  L++GVE +K L+ +G ++
Sbjct:   175 LNGCRGYPRLSIGIGNPPGNMDMKAFLLQKFSPLERKQMDEGLEQGVEGVKTLVEEGFSD 234

Query:   188 SARHFNTIQKYK 199
             S   FN  QKYK
Sbjct:   235 SISRFNLGQKYK 246

GO:0004045 "aminoacyl-tRNA hydrolase activity" evidence=IEA;ISS

GO:0006412 "translation" evidence=ISS

GO:0009507 "chloroplast" evidence=ISM

GO:0006783 "heme biosynthetic process" evidence=RCA

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0016556 "mRNA modification" evidence=RCA

GO:0030154 "cell differentiation" evidence=RCA

TAIR|locus:2014134 AT1G18440 [Arabidopsis thaliana (taxid:3702)]

 Score = 477 (173.0 bits), Expect = 2.1e-45, P = 2.1e-45
 Identities = 91/187 (48%), Positives = 127/187 (67%)

Query:    18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
             PWL VGLGNPG KY+GTRHNVGFEM+DA A+++GISMNTV+ KA FG+G +G+ P++LAK
Sbjct:    94 PWLIVGLGNPGKKYQGTRHNVGFEMVDALADAEGISMNTVNFKALFGKGVIGNIPIMLAK 153

Query:    78 PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVMNN 137
             PQT+MNLSGES G + ++YK+PL +VLV +DD+ LP G                +S+++ 
Sbjct:   154 PQTFMNLSGESVGQIVSFYKIPLKQVLVVYDDLDLPFGKLRLLPKGGHGGHNGMRSIIDR 213

Query:   138 FRG----------IGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
              +G          IGRPPG+MD   F+L++FN   +E +D   Q G+E +++LL +G  +
Sbjct:   214 LKGSRDFPRLRIGIGRPPGKMDTANFVLRQFNRQEQEELDHTFQTGLEAIRILLLEGFNK 273

Query:   188 SARHFNT 194
             SA   NT
Sbjct:   274 SATFVNT 280

GO:0004045 "aminoacyl-tRNA hydrolase activity" evidence=IEA;ISS

GO:0006412 "translation" evidence=ISS

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0006783 "heme biosynthetic process" evidence=RCA

TIGR_CMR|CHY_0196 CHY_0196 "peptidyl-tRNA hydrolase" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 283 (104.7 bits), Expect = 7.6e-25, P = 7.6e-25
 Identities = 64/184 (34%), Positives = 97/184 (52%)

Query:    19 WLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKP 78
             ++  GLGNPG +Y+ TRHN GF ++D  A+  GI +     K+  G+G +    VLL KP
Sbjct:     2 FIIAGLGNPGQEYENTRHNAGFMVVDELAKKHGILITKRKFKSLVGEGEILGVKVLLLKP 61

Query:    79 QTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVMNNF 138
             QTYMNLSG +     ++YKLPL+R++V +DD+ LP G                 S+++  
Sbjct:    62 QTYMNLSGTAVQEAVSFYKLPLSRLVVVYDDLDLPLGKIRLRLKGSAGGHRGMGSIISCL 121

Query:   139 R---------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESA 189
                       GIGRP    D K ++LQ F    RE ++  L+   E + + L++G  ++ 
Sbjct:   122 GSEEIPRLKIGIGRP-AVGDVKDYVLQPFTGAEREILEPTLKLAAEAITVALTEGFNKAM 180

Query:   190 RHFN 193
               FN
Sbjct:   181 TDFN 184

GO:0004045 "aminoacyl-tRNA hydrolase activity" evidence=ISS

GO:0006412 "translation" evidence=ISS

UNIPROTKB|P65865 pth "Peptidyl-tRNA hydrolase" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 270 (100.1 bits), Expect = 1.8e-23, P = 1.8e-23
 Identities = 66/188 (35%), Positives = 95/188 (50%)

Query:    15 VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCK--ATFGQGFVGDAP 72
             +A P L VGLGNPG  Y  TRHN+GF + D  A   G      H +  A    G      
Sbjct:     1 MAEPLLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKA-HKRSGAEVATGRSAGRS 59

Query:    73 VLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXK 132
             ++LAKP+ YMN SG   GPLA +Y +    ++V HDD+ L  G                +
Sbjct:    60 LVLAKPRCYMNESGRQIGPLAKFYSVAPANIIVIHDDLDLEFGRIRLKIGGGEGGHNGLR 119

Query:   133 SVM-----NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSK 183
             SV+      +F+    GIGRPPG+ DP AF+L+ F    R  + T  ++  +  +LL+ +
Sbjct:   120 SVVAALGTKDFQRVRIGIGRPPGRKDPAAFVLENFTPAERAEVPTICEQAADATELLIEQ 179

Query:   184 GLTESARH 191
             G+ E A++
Sbjct:   180 GM-EPAQN 186

GO:0004045 "aminoacyl-tRNA hydrolase activity" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0040007 "growth" evidence=IMP

TIGR_CMR|BA_0050 BA_0050 "peptidyl-tRNA hydrolase" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 268 (99.4 bits), Expect = 2.9e-23, P = 2.9e-23
 Identities = 64/184 (34%), Positives = 95/184 (51%)

Query:    20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQ 79
             L VGLGNPG +Y+ TRHN+GF  ID  A+   IS+N    K  FG GFV    V+L KP 
Sbjct:     3 LIVGLGNPGREYELTRHNIGFMAIDELAKRWNISLNEQKFKGLFGAGFVNGEKVILLKPL 62

Query:    80 TYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVMNN-- 137
             TYMNLSGES  PL  YYK+ +   +V +DD+ +P G                KS +++  
Sbjct:    63 TYMNLSGESIRPLMDYYKIDVEDFVVLYDDLDIPVGKLRLRMKGSAGGHNGVKSTISHLG 122

Query:   138 ---FR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESAR 190
                F+    GI RP   M    ++L +F +     ++ ++++  +  +  L+K   +   
Sbjct:   123 TQEFQRIRMGIDRPKNGMKVVDYVLGRFTSEEIPDVNHSIEKAADACEEWLNKPFLQIMN 182

Query:   191 HFNT 194
              FN+
Sbjct:   183 TFNS 186

GO:0004045 "aminoacyl-tRNA hydrolase activity" evidence=ISS

GO:0006412 "translation" evidence=ISS

TIGR_CMR|DET_0595 DET_0595 "peptidyl-tRNA hydrolase" [Dehalococcoides ethenogenes 195 (taxid:243164)]

 Score = 265 (98.3 bits), Expect = 6.1e-23, P = 6.1e-23
 Identities = 63/187 (33%), Positives = 91/187 (48%)

Query:    20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQ 79
             L +GLGNPG +Y G RHNVGF+ +  FA+   IS +   C +  G G + D  ++LAKPQ
Sbjct:     3 LIIGLGNPGKEYSGNRHNVGFQCLSRFAKDNHISFDKKCCLSRTGSGRINDEEIVLAKPQ 62

Query:    80 TYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVMNNFR 139
             TYMNLSG++   L   Y L    ++V  DD+ LP G                 S++ +  
Sbjct:    63 TYMNLSGKAASQLLRRYNLKAADIIVVQDDLDLPAGKIRLRLGGSAGGHNGISSIITDIG 122

Query:   140 ---------GIGRPPGQMDPKAFL---LQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
                      GIG+P  + +    +   L  F    RE +D A+    E L  LL+ GL  
Sbjct:   123 TKEFIRLKIGIGKPDSRNNGTEVVDHVLGNFGGEEREIMDKAITRASEALTCLLTFGLDT 182

Query:   188 SARHFNT 194
             ++  FN+
Sbjct:   183 ASNRFNS 189

GO:0004045 "aminoacyl-tRNA hydrolase activity" evidence=ISS

GO:0006412 "translation" evidence=ISS

TIGR_CMR|GSU_0663 GSU_0663 "peptidyl-tRNA hydrolase" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 240 (89.5 bits), Expect = 2.7e-20, P = 2.7e-20
 Identities = 66/185 (35%), Positives = 92/185 (49%)

Query:    20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQ 79
             L VGLGNPG KY  TRHN GF ++D  A + G S+        FG+G      +LL KPQ
Sbjct:     5 LIVGLGNPGPKYLWTRHNAGFMVLDRLAHAIGASVTRKSFSGVFGEGAWHGERLLLLKPQ 64

Query:    80 TYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVMNNFR 139
             TYMNLSG S      ++KLPL   +V HDD+ +P G                +S++    
Sbjct:    65 TYMNLSGRSVAEALRFHKLPLCDTIVIHDDLDIPFGRVKVKEGGGHGGHNGLRSLVQELG 124

Query:   140 G---------IGRPPGQMDPKAFLLQKFNAIARERIDTA-LQEG-VEVLKLLLSKGLTES 188
             G         IGRP    D   ++L  F+    E  D A L +G +++L+ LL+ GL ++
Sbjct:   125 GAGFVRVRVGIGRPV-HGDVVNYVLTNFSQ--DEMADLAHLLDGTLDLLESLLTAGLPKT 181

Query:   189 ARHFN 193
                +N
Sbjct:   182 MSLYN 186

GO:0004045 "aminoacyl-tRNA hydrolase activity" evidence=ISS

GO:0006412 "translation" evidence=ISS

TIGR_CMR|SPO_0811 SPO_0811 "peptidyl-tRNA hydrolase" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 218 (81.8 bits), Expect = 5.8e-18, P = 5.8e-18
 Identities = 60/185 (32%), Positives = 88/185 (47%)

Query:    20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQ 79
             LFVGLGNPG KY   RHN+GF  +D  AE  G     V  +    +G +G   VLL KP+
Sbjct:     3 LFVGLGNPGAKYARNRHNIGFMALDRIAEDHGFGPWRVKFQGQIAEGRLGREKVLLLKPE 62

Query:    80 TYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVMNNFR 139
             T+MN SG+S G    +YKL    + V HD++ L  G                +S+ ++  
Sbjct:    63 TFMNRSGQSVGEAMRFYKLDSTDITVLHDELDLAPGKVKVKAGGGHAGHNGLRSIHDHIG 122

Query:   140 --------GIGRPPGQMDPKA-FLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESAR 190
                     GIG P G+ +  A ++L  F     + ++  L+ GV      L+ G  + AR
Sbjct:   123 AAYDRVRLGIGHP-GRKEAVAGYVLHDFARADEDWLEDVLR-GVSEGAPHLAAG--DGAR 178

Query:   191 HFNTI 195
               N++
Sbjct:   179 FMNSV 183

GO:0004045 "aminoacyl-tRNA hydrolase activity" evidence=ISS

GO:0006412 "translation" 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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q63HI2	PTH_BACCZ	3, ., 1, ., 1, ., 2, 9	0.3967	0.8413	0.9408	yes	no
Q6NLS8	PTHM_ARATH	3, ., 1, ., 1, ., 2, 9	0.7122	0.9663	0.9178	yes	no
Q2J5Z1	PTH_FRASC	3, ., 1, ., 1, ., 2, 9	0.3684	0.8413	0.8883	yes	no
B8G3X3	PTH_CHLAD	3, ., 1, ., 1, ., 2, 9	0.3743	0.8509	0.9414	yes	no
A7GJD4	PTH_CLOBL	3, ., 1, ., 1, ., 2, 9	0.3689	0.8461	0.9312	yes	no
C0ZHD7	PTH_BREBN	3, ., 1, ., 1, ., 2, 9	0.3743	0.8557	0.9417	yes	no
A4T6N5	PTH_MYCGI	3, ., 1, ., 1, ., 2, 9	0.4030	0.8701	0.9427	yes	no
Q6MJR3	PTH_BDEBA	3, ., 1, ., 1, ., 2, 9	0.3978	0.8461	0.9411	yes	no
B9LE93	PTH_CHLSY	3, ., 1, ., 1, ., 2, 9	0.3689	0.8509	0.9414	yes	no
A1TEG1	PTH_MYCVP	3, ., 1, ., 1, ., 2, 9	0.4102	0.8653	0.9375	yes	no
B9IZD4	PTH_BACCQ	3, ., 1, ., 1, ., 2, 9	0.3967	0.8413	0.9408	yes	no
Q0RCD6	PTH_FRAAA	3, ., 1, ., 1, ., 2, 9	0.3582	0.8557	0.9035	yes	no
B1KTE2	PTH_CLOBM	3, ., 1, ., 1, ., 2, 9	0.3689	0.8461	0.9312	yes	no
Q0TMG7	PTH_CLOP1	3, ., 1, ., 1, ., 2, 9	0.3891	0.8365	0.9255	yes	no
C1FNE6	PTH_CLOBJ	3, ., 1, ., 1, ., 2, 9	0.3689	0.8461	0.9312	yes	no
B2TI10	PTH_CLOBB	3, ., 1, ., 1, ., 2, 9	0.3541	0.8701	0.9476	yes	no
Q9F8Q3	PTH_CARHZ	3, ., 1, ., 1, ., 2, 9	0.3913	0.8365	0.9304	yes	no
Q65PG8	PTH_BACLD	3, ., 1, ., 1, ., 2, 9	0.4043	0.8365	0.9255	yes	no
Q1B425	PTH_MYCSS	3, ., 1, ., 1, ., 2, 9	0.4065	0.8173	0.8854	yes	no
A7FPJ7	PTH_CLOB1	3, ., 1, ., 1, ., 2, 9	0.3689	0.8461	0.9312	yes	no
C3KW96	PTH_CLOB6	3, ., 1, ., 1, ., 2, 9	0.3689	0.8461	0.9312	yes	no
A8F920	PTH_BACP2	3, ., 1, ., 1, ., 2, 9	0.4450	0.8317	0.9202	yes	no
P37470	PTH_BACSU	3, ., 1, ., 1, ., 2, 9	0.4043	0.8365	0.9255	yes	no
B1IGZ7	PTH_CLOBK	3, ., 1, ., 1, ., 2, 9	0.3743	0.8461	0.9312	yes	no
A9WBS1	PTH_CHLAA	3, ., 1, ., 1, ., 2, 9	0.3689	0.8509	0.9414	yes	no
A9KR32	PTH_CLOPH	3, ., 1, ., 1, ., 2, 9	0.3695	0.8413	0.9162	yes	no
Q181A2	PTH_CLOD6	3, ., 1, ., 1, ., 2, 9	0.3913	0.8413	0.9408	yes	no
Q8XHJ8	PTH_CLOPE	3, ., 1, ., 1, ., 2, 9	0.3891	0.8365	0.9255	yes	no
Q3Z8W2	PTH_DEHE1	3, ., 1, ., 1, ., 2, 9	0.3850	0.8413	0.9259	yes	no
A5I7R5	PTH_CLOBH	3, ., 1, ., 1, ., 2, 9	0.3689	0.8461	0.9312	yes	no
A7GJW3	PTH_BACCN	3, ., 1, ., 1, ., 2, 9	0.4130	0.8413	0.9408	yes	no
Q5ZCL8	CRS2_ORYSJ	No assigned EC number	0.5572	0.875	0.7027	yes	no
B2UXS9	PTH_CLOBA	3, ., 1, ., 1, ., 2, 9	0.3541	0.8701	0.9476	yes	no
Q6HPW6	PTH_BACHK	3, ., 1, ., 1, ., 2, 9	0.3967	0.8413	0.9408	yes	no
A0PXL3	PTH_CLONN	3, ., 1, ., 1, ., 2, 9	0.3913	0.8365	0.9255	yes	no
Q5L3U7	PTH_GEOKA	3, ., 1, ., 1, ., 2, 9	0.3879	0.8365	0.9354	yes	no
Q899I4	PTH_CLOTE	3, ., 1, ., 1, ., 2, 9	0.3743	0.8461	0.9361	yes	no
Q81VY9	PTH_BACAN	3, ., 1, ., 1, ., 2, 9	0.3967	0.8413	0.9408	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.1.1.29	0.991
3rd Layer	3.1.1	0.976

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	208
cd02406	191	cd02406, CRS2, Chloroplast RNA splicing 2 (CRS2) i	1e-105
cd00462	171	cd00462, PTH, Peptidyl-tRNA hydrolase (PTH) is a m	5e-73
pfam01195	183	pfam01195, Pept_tRNA_hydro, Peptidyl-tRNA hydrolas	9e-70
PRK05426	189	PRK05426, PRK05426, peptidyl-tRNA hydrolase; Provi	2e-68
COG0193	190	COG0193, Pth, Peptidyl-tRNA hydrolase [Translation	3e-66
TIGR00447	188	TIGR00447, pth, peptidyl-tRNA hydrolase	3e-53

>gnl|CDD|239090 cd02406, CRS2, Chloroplast RNA splicing 2 (CRS2) is a nuclear-encoded protein required for the splicing of group II introns in the chloroplast

 Score =  299 bits (768), Expect = e-105
 Identities = 117/191 (61%), Positives = 144/191 (75%), Gaps = 10/191 (5%)

Query: 17  RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLA 76
            PWL  GLGNPG+KYKGTRHNVGFEM+D  AE++GI+MNT+  K+  G G +GD PVLLA
Sbjct: 1   TPWLIAGLGNPGNKYKGTRHNVGFEMVDRIAEAEGITMNTIQFKSLLGIGSIGDVPVLLA 60

Query: 77  KPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMN 136
           KPQTYMN SGES GPLAAYYK+PL  +LV +DDM LP GVLRL+  GGHG HNGL+SV+ 
Sbjct: 61  KPQTYMNYSGESVGPLAAYYKVPLRHILVIYDDMSLPNGVLRLQPKGGHGRHNGLQSVIE 120

Query: 137 NFR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLT 186
           +            GIG PPG+MDP+AFLLQKF++  RE+IDTAL++GV+ ++ L+ KG  
Sbjct: 121 HLDGSREFPRLSIGIGSPPGKMDPRAFLLQKFSSEEREQIDTALEQGVDAVRTLVLKGFN 180

Query: 187 ESARHFNTIQK 197
            SA  FN +QK
Sbjct: 181 GSAERFNLVQK 191

CRS2 forms stable complexes with two CRS2-associated factors, CAF1 and CAF2, which are required for the splicing of distinct subsets of CRS2-dependent introns. CRS2 is closely related to bacterial peptidyl-tRNA hydrolases (PTH). Length = 191

>gnl|CDD|238259 cd00462, PTH, Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome

 Score =  218 bits (557), Expect = 5e-73
 Identities = 82/171 (47%), Positives = 110/171 (64%), Gaps = 9/171 (5%)

Query: 20  LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQ 79
           L VGLGNPG KY+ TRHNVGF ++DA AE  G+S      K   G+G +G   VLL KPQ
Sbjct: 1   LIVGLGNPGPKYENTRHNVGFMVLDALAERYGVSFKKKKKKGLVGEGRIGGEKVLLLKPQ 60

Query: 80  TYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR 139
           TYMNLSGE+   LA +YK+P   +LV HDD+ LP G +RL+  GG GGHNGLKS++ +  
Sbjct: 61  TYMNLSGEAVAALANFYKIPPEDILVIHDDLDLPLGKIRLKKGGGSGGHNGLKSIIAHLG 120

Query: 140 ---------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLL 181
                    GIGRPP +MD   ++L KF+   RE ++ A+++  + L+ +L
Sbjct: 121 TEDFPRLRIGIGRPPNKMDVADYVLSKFSKEERELLEEAIEKAADALEDIL 171

This ensures the recycling of peptidyl-tRNAs into tRNAs produced through abortion of translation and is essential for cell viability.This group also contains chloroplast RNA splicing 2 (CRS2), which is closely related nuclear-encoded protein required for the splicing of nine group II introns in chloroplasts. Length = 171

>gnl|CDD|216355 pfam01195, Pept_tRNA_hydro, Peptidyl-tRNA hydrolase

 Score =  210 bits (537), Expect = 9e-70
 Identities = 81/178 (45%), Positives = 111/178 (62%), Gaps = 10/178 (5%)

Query: 20  LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTV-HCKATFGQGFVGDAPVLLAKP 78
           L VGLGNPG KY+ TRHNVGF +ID  AE  G+S+      K    +G +    V+L KP
Sbjct: 1   LIVGLGNPGPKYENTRHNVGFMVIDRLAERLGVSLKKKKKFKGLIAKGRIEGEKVILLKP 60

Query: 79  QTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVM--- 135
           QTYMNLSGE+   +A +YK+P   +LV HDD+ LP G LRL+  GG GGHNGLKS++   
Sbjct: 61  QTYMNLSGEAVRAIARFYKIPPEDILVVHDDLDLPLGKLRLKKGGGAGGHNGLKSIIQHL 120

Query: 136 --NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
             N+F+    GIGRPP + D   ++L KF+    E +D A+++  + L+ L+  G  +
Sbjct: 121 GTNDFKRLRIGIGRPPDKNDVADYVLSKFSPEELELLDKAIEKAADALEDLIEGGFDK 178

Length = 183

>gnl|CDD|235457 PRK05426, PRK05426, peptidyl-tRNA hydrolase; Provisional

 Score =  206 bits (528), Expect = 2e-68
 Identities = 76/187 (40%), Positives = 109/187 (58%), Gaps = 11/187 (5%)

Query: 18  PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVH-CKATFGQGFVGDAPVLLA 76
             L VGLGNPG +Y  TRHN+GF ++D  A   G S+      K    +G +    V+L 
Sbjct: 2   MKLIVGLGNPGPEYANTRHNIGFMVVDELARRLGGSLKEKKKFKGLIAEGRINGEKVILL 61

Query: 77  KPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVM- 135
           KPQTYMNLSG++   LA +YK+P   +LV HDD+ LP G +RL+  GG GGHNGLKS++ 
Sbjct: 62  KPQTYMNLSGKAVAALANFYKIPPEDILVIHDDLDLPPGKIRLKKGGGAGGHNGLKSIIA 121

Query: 136 ----NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
                +F     GIGRP  +     ++L KF+   +E +D A+ +  + ++LLL  G  +
Sbjct: 122 HLGTQDFWRLRIGIGRPDKK-KVVDYVLGKFSKEEQELLDKAIDKAADAIELLLEGGFEK 180

Query: 188 SARHFNT 194
           +   FN+
Sbjct: 181 AMNKFNS 187

Length = 189

>gnl|CDD|223271 COG0193, Pth, Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]

 Score =  201 bits (514), Expect = 3e-66
 Identities = 77/187 (41%), Positives = 105/187 (56%), Gaps = 10/187 (5%)

Query: 18  PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGIS-MNTVHCKATFGQGFVGDAPVLLA 76
             L VGLGNPG KY  TRHNVGF ++D  A    +S            +G +    V+L 
Sbjct: 2   MKLIVGLGNPGKKYAKTRHNVGFMVVDLLARRLNLSFKEEKKFNGLVAKGTIEGEKVILL 61

Query: 77  KPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVM- 135
           KP TYMNLSG++ G LA++YK+    +LV HD++ LP G +RL+  GG GGHNGLKS++ 
Sbjct: 62  KPTTYMNLSGKAVGALASFYKIKPEDILVVHDELDLPLGKVRLKLGGGAGGHNGLKSIIA 121

Query: 136 ----NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
               NNF     GIGRP    D   ++L KF+   RE +D A+ +  + L+LLL     +
Sbjct: 122 HLGTNNFYRLRIGIGRPGNGEDVADYVLGKFSKEERELLDKAIDKAADALELLLEGDFEK 181

Query: 188 SARHFNT 194
           +    N 
Sbjct: 182 AMNKLNA 188

Length = 190

>gnl|CDD|213531 TIGR00447, pth, peptidyl-tRNA hydrolase

 Score =  168 bits (428), Expect = 3e-53
 Identities = 76/175 (43%), Positives = 102/175 (58%), Gaps = 10/175 (5%)

Query: 20  LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCK-ATFGQGFVGDAPVLLAKP 78
           L VGLGNPG KY GTRHN GF ++D  A   G+S+ T         +G +    V+L KP
Sbjct: 3   LIVGLGNPGKKYAGTRHNAGFWVLDLLASRLGLSLRTEKKFFGYTERGLLSGKKVILLKP 62

Query: 79  QTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVM--- 135
            TYMNLSGE+   LA++Y++    +LV HD++ LP G +RL+  GG GGHNGLKS++   
Sbjct: 63  LTYMNLSGEAVRALASFYRIKPAELLVVHDELDLPLGKVRLKMGGGAGGHNGLKSIISHL 122

Query: 136 --NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKG 184
             NNF     GIG P G      F+L KF       ++ AL + VE L++  S+G
Sbjct: 123 GTNNFNRLRIGIGSPGGSNKVVEFVLSKFTKSELPLLEKALDKAVEALEMSFSEG 177

The natural substrate for this enzyme may be peptidyl-tRNAs that drop off the ribosome during protein synthesis. Peptidyl-tRNA hydrolase is a bacterial protein; YHR189W from Saccharomyces cerevisiae appears to be orthologous and likely has the same function [Protein synthesis, Other]. Length = 188

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	208
COG0193	190	Pth Peptidyl-tRNA hydrolase [Translation, ribosoma	100.0
cd02406	191	CRS2 Chloroplast RNA splicing 2 (CRS2) is a nuclea	100.0
TIGR00447	188	pth peptidyl-tRNA hydrolase. The natural substrate	100.0
PRK05426	189	peptidyl-tRNA hydrolase; Provisional	100.0
PF01195	184	Pept_tRNA_hydro: Peptidyl-tRNA hydrolase; InterPro	100.0
cd00462	171	PTH Peptidyl-tRNA hydrolase (PTH) is a monomeric p	100.0
KOG2255	224	consensus Peptidyl-tRNA hydrolase [Translation, ri	100.0
cd06070	140	H2MP_like-2 Putative [NiFe] hydrogenase-specific C	95.04
PRK11544	156	hycI hydrogenase 3 maturation protease; Provisiona	91.4
PRK12362	318	germination protease; Provisional	89.18
cd06062	146	H2MP_MemB-H2up Endopeptidases belonging to membran	88.94
TIGR00130	153	frhD coenzyme F420-reducing hydrogenase delta subu	85.66
TIGR00142	146	hycI hydrogenase maturation protease HycI. Hydroge	83.73
COG0680	160	HyaD Ni,Fe-hydrogenase maturation factor [Energy p	80.48

>COG0193 Pth Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=7.2e-74  Score=481.24  Aligned_cols=179  Identities=41%  Similarity=0.745  Sum_probs=173.2

Q ss_pred             CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCC-CccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHh
Q 028531           17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISM-NTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAY   95 (208)
Q Consensus        17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~-~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~   95 (208)
                      .++|||||||||++|+.||||||||++|.||++++.++ +.++|.+.++++.+.+++|+|+||+||||+||++|.++++|
T Consensus         1 ~~kLIVGLGNPG~~Y~~TRHNvGf~~vD~La~~~~~~~~~~~kf~~~~~~~~i~g~kv~l~kP~TyMNlSG~~V~~~~~f   80 (190)
T COG0193           1 MMKLIVGLGNPGKKYAKTRHNVGFMVVDLLARRLNLSFKEEKKFNGLVAKGTIEGEKVILLKPTTYMNLSGKAVGALASF   80 (190)
T ss_pred             CcEEEEECCCCchhhcccchhHHHHHHHHHHHHhCCCCccccccCceeEEEEeCCcEEEEecCccceeCcHHHHHHHHHH
Confidence            37899999999999999999999999999999999998 55789999999999999999999999999999999999999


Q ss_pred             cCCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC---------CCCCCCCCCCccccccccCCHHHHHHH
Q 028531           96 YKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARERI  166 (208)
Q Consensus        96 ~ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg---------GIGrP~~~~~v~~yVLs~f~~~E~~~l  166 (208)
                      |++++++|+|||||||||+|++|+|.+||+|||||||||+++||         |||||+.+++|++|||++|+++|++.+
T Consensus        81 y~i~~~~ilVvhDdLdl~~G~vrlk~~Gg~gGHNGlKSi~~~lGt~~f~RlRiGIGrP~~~~~v~~~VL~~f~~~E~~~l  160 (190)
T COG0193          81 YKIKPEDILVVHDELDLPLGKVRLKLGGGAGGHNGLKSIIAHLGTNNFYRLRIGIGRPGNGEDVADYVLGKFSKEERELL  160 (190)
T ss_pred             hCCCHHHEEEEeeccCCCCceEEEEcCCCCCCcccHHHHHHHhCCCccceEEEEcCCCCCCCchhHhhcCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999         999998888999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHhhch
Q 028531          167 DTALQEGVEVLKLLLSKGLTESARHFNTI  195 (208)
Q Consensus       167 ~~~i~~a~~~l~~~~~~~~~~amn~~n~~  195 (208)
                      ++++++|+++++.++..+++++||+||+.
T Consensus       161 ~~~~~~a~~~~~~~~~~~~~~~mn~~~~~  189 (190)
T COG0193         161 DKAIDKAADALELLLEGDFEKAMNKLNAL  189 (190)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHhcc
Confidence            99999999999999999999999999974

>cd02406 CRS2 Chloroplast RNA splicing 2 (CRS2) is a nuclear-encoded protein required for the splicing of group II introns in the chloroplast

Probab=100.00  E-value=4.8e-73  Score=478.60  Aligned_cols=180  Identities=64%  Similarity=1.127  Sum_probs=172.2

Q ss_pred             CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhc
Q 028531           17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYY   96 (208)
Q Consensus        17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~   96 (208)
                      .|+|||||||||++|++|||||||+++|.||++++.++++.++++.++++.+.+++++|+||+||||+||+||+++++||
T Consensus         1 ~~~LIvGLGNPG~~Y~~TRHNiGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMN~SG~aV~~~~~~y   80 (191)
T cd02406           1 TPWLIAGLGNPGNKYKGTRHNVGFEMVDRIAEAEGITMNTIQFKSLLGIGSIGDVPVLLAKPQTYMNYSGESVGPLAAYY   80 (191)
T ss_pred             CcEEEEEcCCCchhhCcCchhHHHHHHHHHHHHcCCCccccccceEEEEEEECCeEEEEEeCCCchhcCHHHHHHHHHHh
Confidence            47899999999999999999999999999999999987767888999999999999999999999999999999999999


Q ss_pred             CCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhh-C---------CCCCCCCCCCccccccccCCHHHHHHH
Q 028531           97 KLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNF-R---------GIGRPPGQMDPKAFLLQKFNAIARERI  166 (208)
Q Consensus        97 ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~L-g---------GIGrP~~~~~v~~yVLs~f~~~E~~~l  166 (208)
                      +|+++++||||||||||+|++|+|.+||+|||||||||+++| |         |||||+.+.++++|||++|+++|++.+
T Consensus        81 ki~~~~ilVihDdldl~~G~irlk~gGs~gGHNGlkSI~~~Lggt~~f~RlrIGIGrP~~~~~v~~yVL~~f~~~E~~~l  160 (191)
T cd02406          81 KVPLRHILVIYDDMSLPNGVLRLQPKGGHGRHNGLQSVIEHLDGSREFPRLSIGIGSPPGKMDPRAFLLQKFSSEEREQI  160 (191)
T ss_pred             CCCHHHEEEEEECCCCCCCeEEEcCCCCCCCcCCHHHHHHHhCCCCCeEEEEEEeCCCCCCCchhhhhcCCCCHHHHHHH
Confidence            999999999999999999999999999999999999999999 5         999997667899999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHhhchh
Q 028531          167 DTALQEGVEVLKLLLSKGLTESARHFNTIQ  196 (208)
Q Consensus       167 ~~~i~~a~~~l~~~~~~~~~~amn~~n~~~  196 (208)
                      +++++.|+++++.|+.++++++||+||+..
T Consensus       161 ~~~~~~a~~~~~~~~~~~~~~~~n~~n~~~  190 (191)
T cd02406         161 DTALEQGVDAVRTLVLKGFNGSAERFNLVQ  190 (191)
T ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHhCCC
Confidence            999999999999999999999999999643

CRS2 forms stable complexes with two CRS2-associated factors, CAF1 and CAF2, which are required for the splicing of distinct subsets of CRS2-dependent introns. CRS2 is closely related to bacterial peptidyl-tRNA hydrolases (PTH).

>TIGR00447 pth peptidyl-tRNA hydrolase

Probab=100.00  E-value=2.3e-71  Score=467.50  Aligned_cols=177  Identities=42%  Similarity=0.748  Sum_probs=169.3

Q ss_pred             CeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCc-cccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhc
Q 028531           18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNT-VHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYY   96 (208)
Q Consensus        18 ~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~-~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~   96 (208)
                      |+|||||||||++|++|||||||+++|.||++++.++.+ .++.+.+++..+.+++++|+||+||||+||++|+++++||
T Consensus         1 ~~LIvGLGNPG~~Y~~TRHNiGf~~ld~La~~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~~~   80 (188)
T TIGR00447         1 IKLIVGLGNPGKKYAGTRHNAGFWVLDLLASRLGLSLRTEKKFFGYTERGLLSGKKVILLKPLTYMNLSGEAVRALASFY   80 (188)
T ss_pred             CEEEEEeCCCchhhCcCchHHHHHHHHHHHHHcCcCCcccccceEEEEEEEECCeEEEEEeCCcchhcCcHHHHHHHHHh
Confidence            689999999999999999999999999999999998763 4677888888898999999999999999999999999999


Q ss_pred             CCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC---------CCCCCCCCCCccccccccCCHHHHHHHH
Q 028531           97 KLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARERID  167 (208)
Q Consensus        97 ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg---------GIGrP~~~~~v~~yVLs~f~~~E~~~l~  167 (208)
                      +|+++++||||||||||+|++|+|++||+|||||||||+++||         |||||+.+.++++|||++|+++|++.++
T Consensus        81 ~i~~~~ilVihDdldl~~G~irlk~~G~~gGHNGlkSI~~~lgt~~f~RlrIGIGrP~~~~~v~~yVL~~f~~~e~~~l~  160 (188)
T TIGR00447        81 RIKPAELLVVHDELDLPLGKVRLKMGGGAGGHNGLKSIISHLGTNNFNRLRIGIGSPGGSNKVVEFVLSKFTKSELPLLE  160 (188)
T ss_pred             CCChHHEEEEEecCCCCCceEEEecCCCCCCcCCHHHHHHHhCCCCcceEEEEeCCCCCCCchhhhccCCCCHHHHHHHH
Confidence            9999999999999999999999999999999999999999999         9999987678999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcC-HHHHHHHhhc
Q 028531          168 TALQEGVEVLKLLLSKG-LTESARHFNT  194 (208)
Q Consensus       168 ~~i~~a~~~l~~~~~~~-~~~amn~~n~  194 (208)
                      ++++.++++++.|+.++ ++++||+||+
T Consensus       161 ~~i~~~~~~~~~~~~~~~~~~~~n~~n~  188 (188)
T TIGR00447       161 KALDKAVEALEMSFSEGAFLKAMNRFNS  188 (188)
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHhhC
Confidence            99999999999999999 9999999985

The natural substrate for this enzyme may be peptidyl-tRNAs that drop off the ribosome during protein synthesis. Peptidyl-tRNA hydrolase is a bacterial protein; YHR189W from Saccharomyces cerevisiae appears to be orthologous and likely has the same function.

>PRK05426 peptidyl-tRNA hydrolase; Provisional

Probab=100.00  E-value=9.4e-70  Score=457.96  Aligned_cols=178  Identities=42%  Similarity=0.772  Sum_probs=169.2

Q ss_pred             CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCC-ccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHh
Q 028531           17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMN-TVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAY   95 (208)
Q Consensus        17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~-~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~   95 (208)
                      .|||||||||||++|++|||||||+++|.||++++..+. ..++.+.+++..+++.+++|+||+||||+||++|++++++
T Consensus         1 ~~~LivGLGNPG~~Y~~TRHNvGf~~ld~la~~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~~   80 (189)
T PRK05426          1 MMKLIVGLGNPGPEYANTRHNIGFMVVDELARRLGGSLKEKKKFKGLIAEGRINGEKVILLKPQTYMNLSGKAVAALANF   80 (189)
T ss_pred             CcEEEEEeCCCchhhCcCchHHHHHHHHHHHHHcCCCCcccccccEEEEEEEECCeEEEEEeCCcchhcCcHHHHHHHHH
Confidence            379999999999999999999999999999999887654 4567889999999889999999999999999999999999


Q ss_pred             cCCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC---------CCCCCCCCCCccccccccCCHHHHHHH
Q 028531           96 YKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARERI  166 (208)
Q Consensus        96 ~ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg---------GIGrP~~~~~v~~yVLs~f~~~E~~~l  166 (208)
                      |+|++++++|||||+|+|+|++|+|.+||+|||||||||+++||         |||||+ ..++++|||++|+++|++.+
T Consensus        81 ~~i~~~~ilVihDdldl~~G~~r~k~gGs~~GHNGlkSI~~~lgt~~f~RlriGIGrP~-~~~v~~yVL~~f~~~E~~~l  159 (189)
T PRK05426         81 YKIPPEDILVIHDDLDLPPGKIRLKKGGGAGGHNGLKSIIAHLGTQDFWRLRIGIGRPD-KKKVVDYVLGKFSKEEQELL  159 (189)
T ss_pred             hCCCHHHEEEEEecCCCCCceEEEecCCCCCCcCCHHHHHHHhCCCCeeEEEEEeCCCC-CCCcchhhcCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999         999997 56799999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHhhch
Q 028531          167 DTALQEGVEVLKLLLSKGLTESARHFNTI  195 (208)
Q Consensus       167 ~~~i~~a~~~l~~~~~~~~~~amn~~n~~  195 (208)
                      +++++.|+++++.|++++++++||++|+.
T Consensus       160 ~~~~~~a~~~v~~~~~~~~~~~~~~~n~~  188 (189)
T PRK05426        160 DKAIDKAADAIELLLEGGFEKAMNKFNSK  188 (189)
T ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHhCC
Confidence            99999999999999999999999999964

>PF01195 Pept_tRNA_hydro: Peptidyl-tRNA hydrolase; InterPro: IPR001328 Peptidyl-tRNA hydrolase (3

Probab=100.00  E-value=1.4e-68  Score=448.53  Aligned_cols=174  Identities=43%  Similarity=0.819  Sum_probs=154.5

Q ss_pred             eEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccc-cceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCC
Q 028531           20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVH-CKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKL   98 (208)
Q Consensus        20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k-~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki   98 (208)
                      |||||||||++|++|||||||+++|+||++++.++...+ +.+.+++..+.+.+++|+||+||||+||++|++++++|++
T Consensus         1 LivGLGNPG~~Y~~TRHNvG~~~ld~la~~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMN~SG~~V~~~~~~~~i   80 (184)
T PF01195_consen    1 LIVGLGNPGPKYENTRHNVGFMVLDRLASRLGLSWKQKKKFKSLISEGSIKGEKVILLKPQTYMNLSGKAVKKILSFYKI   80 (184)
T ss_dssp             EEEE---SSTTTTTSGGGHHHHHHHHHHHHTT---EEEGGGTEEEEEEEETTEEEEEEEESSTGGGHHHHHHHHHHHTT-
T ss_pred             CEEEcCCCChhhcCCCcCchHHHHHHHHHHhCCCccccccceeEEEEEEEeeeeEEEEcCCCeEeCccHhHHHHHHHhCC
Confidence            799999999999999999999999999999998886554 7888888889999999999999999999999999999999


Q ss_pred             CCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC---------CCCCCCCCCCccccccccCCHHHHHHHHHH
Q 028531           99 PLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARERIDTA  169 (208)
Q Consensus        99 ~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg---------GIGrP~~~~~v~~yVLs~f~~~E~~~l~~~  169 (208)
                      ++++++|||||+|+|+|++|+|++||+|||||||||+++||         |||||++..++++|||++|+++|++.++++
T Consensus        81 ~~~~ilVihDdldl~~G~irlk~~Gs~~GHNGlkSI~~~Lgt~~f~RlrIGIGrp~~~~~v~~yVL~~f~~~E~~~l~~~  160 (184)
T PF01195_consen   81 PPENILVIHDDLDLPLGKIRLKKGGSSGGHNGLKSIIQHLGTEDFPRLRIGIGRPPSKEDVADYVLSKFSPEERELLDKV  160 (184)
T ss_dssp             -GGGEEEEEEETTSSTTEEEEEESS--TT-HHHHHHHHHCTSSGSEEEEEEE--TSTTSGHHHHHTSB-HHHHHHHHHHH
T ss_pred             CcceEEEEEeccCCCCCeEEEccCCCCCCCCCHHHHHHHhccccceeEEEecCCCCCcchHHHHHhcCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999         999998777899999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCHHHHHHHhh
Q 028531          170 LQEGVEVLKLLLSKGLTESARHFN  193 (208)
Q Consensus       170 i~~a~~~l~~~~~~~~~~amn~~n  193 (208)
                      ++.|+++++.|+++++++|||+||
T Consensus       161 ~~~a~~~l~~~i~~~~~~~mn~~n  184 (184)
T PF01195_consen  161 IPQAAEALEQIIEGGFEKAMNKFN  184 (184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCHHHHHHHhC
Confidence            999999999999999999999998

1.1.29 from EC) (PTH) is a bacterial enzyme that cleaves peptidyl-tRNA or N-acyl-aminoacyl-tRNA to yield free peptides or N-acyl-amino acids and tRNA. The natural substrate for this enzyme may be peptidyl-tRNA which drop off the ribosome during protein synthesis [, ]. Bacterial PTH has been found to be evolutionary related to a yeast protein [].; GO: 0004045 aminoacyl-tRNA hydrolase activity; PDB: 3KJZ_A 3KK0_A 3P2J_A 3V2I_A 3TCN_A 3TD6_A 2Z2K_A 3TD2_A 2Z2J_B 2JRC_A ....

>cd00462 PTH Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome

Probab=100.00  E-value=4e-68  Score=442.00  Aligned_cols=162  Identities=51%  Similarity=0.916  Sum_probs=155.9

Q ss_pred             eEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCCC
Q 028531           20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLP   99 (208)
Q Consensus        20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki~   99 (208)
                      |||||||||++|++|||||||+++|+||++++.++.+.++.++++++.+.+++++|+||+||||+||++|.++++||+++
T Consensus         1 LIvGLGNPG~~Y~~TRHNvGf~~ld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~~~~i~   80 (171)
T cd00462           1 LIVGLGNPGPKYENTRHNVGFMVLDALAERYGVSFKKKKKKGLVGEGRIGGEKVLLLKPQTYMNLSGEAVAALANFYKIP   80 (171)
T ss_pred             CEEEECCCCcccCcCchHHHHHHHHHHHHHcCCCCCccccCEEEEEEEECCEEEEEEeCCcccccccHHHHHHHHhcCCC
Confidence            69999999999999999999999999999999988777778999999999999999999999999999999999999999


Q ss_pred             CCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC---------CCCCCCCCCCccccccccCCHHHHHHHHHHH
Q 028531          100 LNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARERIDTAL  170 (208)
Q Consensus       100 ~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg---------GIGrP~~~~~v~~yVLs~f~~~E~~~l~~~i  170 (208)
                      ++++||||||+|||+|++|+|++||+|||||||||+++||         |||||+.+.++++|||++|+++|++.+++++
T Consensus        81 ~~~ilVihDdldl~~G~vrlk~~G~~gGHNGlkSI~~~lgt~~f~RlriGIGrP~~~~~v~~yVL~~f~~~E~~~l~~~~  160 (171)
T cd00462          81 PEDILVIHDDLDLPLGKIRLKKGGGSGGHNGLKSIIAHLGTEDFPRLRIGIGRPPNKMDVADYVLSKFSKEERELLEEAI  160 (171)
T ss_pred             hhHEEEEEecCCCCCceEEEeCCCCCCCCCCHHHHHHHhCCCCeeEEEEEeCCCCCCCChhhhhcCCCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999         9999987779999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 028531          171 QEGVEVLKLLL  181 (208)
Q Consensus       171 ~~a~~~l~~~~  181 (208)
                      +.|+++++.|+
T Consensus       161 ~~~~~~~~~~~  171 (171)
T cd00462         161 EKAADALEDIL  171 (171)
T ss_pred             HHHHHHHHHhC
Confidence            99999998763

This ensures the recycling of peptidyl-tRNAs into tRNAs produced through abortion of translation and is essential for cell viability.This group also contains chloroplast RNA splicing 2 (CRS2), which is closely related nuclear-encoded protein required for the splicing of nine group II introns in chloroplasts.

>KOG2255 consensus Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.6e-52  Score=352.83  Aligned_cols=173  Identities=55%  Similarity=0.985  Sum_probs=153.7

Q ss_pred             CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhc
Q 028531           17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYY   96 (208)
Q Consensus        17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~   96 (208)
                      .+|+|+||||||++|..|||||||.++|.||++++++..+.+.++..+-+.+++..+++++|++|||.||++|.+++..|
T Consensus        38 k~wli~GLGNPg~~y~gTRHnvG~~Ml~~larrlgv~~nt~s~~a~~~l~~v~d~~~~llrp~qymN~SgesV~kva~~y  117 (224)
T KOG2255|consen   38 KPWLIVGLGNPGSKYVGTRHNVGFEMLDMLARRLGVPMNTISSKALEGLGLVGDVPILLLRPQQYMNFSGESVGKVAALY  117 (224)
T ss_pred             CceEEEecCCCcccccccchhhHHHHHHHHHHHhCCcccccCcccccceeeecceeeEeeCcHhhhccccchhhhhHHhh
Confidence            35899999999999999999999999999999999987766656666777888999999999999999999999999999


Q ss_pred             CCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC----------CCCCCCCCCCccccccccCCHHHHH-H
Q 028531           97 KLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARE-R  165 (208)
Q Consensus        97 ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg----------GIGrP~~~~~v~~yVLs~f~~~E~~-~  165 (208)
                      +++.++++||||||++|+|++|+|++||++||||+||++.+++          |||||++.+|+.+|||++|++.|++ .
T Consensus       118 ~i~~~~ivvIhDEl~l~~Gkl~Lrp~gs~rgHNGvrs~~~~l~g~~~fpRL~iGIGrppg~~d~~a~vLskfsp~e~ke~  197 (224)
T KOG2255|consen  118 KIPLRHIVVIHDELELPLGKLRLRPGGSHRGHNGVRSVFNCLNGRRSFPRLSIGIGRPPGNEDVKAFVLSKFSPAEQKEL  197 (224)
T ss_pred             cchheeEEEEeccccCcCceEEeccCCCccccccHHHHHhhccCCcccceeeeecCCCCCchhhhHHHHHhcChhhhHHH
Confidence            9999999999999999999999999999999999999999999          9999999999999999999999998 5


Q ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHhh
Q 028531          166 IDTALQEGVEVLKLLLSKGLTESARHFN  193 (208)
Q Consensus       166 l~~~i~~a~~~l~~~~~~~~~~amn~~n  193 (208)
                      |+..++.+..    ++.+++..-.++||
T Consensus       198 Let~l~~~~~----lil~~l~~~is~~~  221 (224)
T KOG2255|consen  198 LETLLEHVKT----LILQGLQQSISRFN  221 (224)
T ss_pred             HHHHHhhhHH----HHHHHHHHhcccCc
Confidence            5555555444    44455555556665

>cd06070 H2MP_like-2 Putative [NiFe] hydrogenase-specific C-terminal protease

Probab=95.04  E-value=0.3  Score=38.95  Aligned_cols=85  Identities=18%  Similarity=0.222  Sum_probs=51.5

Q ss_pred             eEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCCC
Q 028531           20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLP   99 (208)
Q Consensus        20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki~   99 (208)
                      ||+|+|||=.    .-==+|+.++++|++ .++                     -++.       .|.....++..+  .
T Consensus         1 lVlGiGN~l~----~DDg~G~~v~~~L~~-~~v---------------------~vi~-------~g~~~~~ll~~i--~   45 (140)
T cd06070           1 LIIGVGNRLY----GDDGFGSCLAEALEQ-CGA---------------------PVFD-------GGLDGFGLLSHL--E   45 (140)
T ss_pred             CEEEECchhc----ccCcHHHHHHHHHhh-CCC---------------------EEEE-------CCCcHHHHHHHH--c
Confidence            6899999953    223499999999976 111                     0110       122222334433  2


Q ss_pred             CCcEEEEeccCC--CCCceEEEecC---------CCCCCCC-chHHHHHhhC
Q 028531          100 LNRVLVFHDDMG--LPCGVLRLRHN---------GGHGGHN-GLKSVMNNFR  139 (208)
Q Consensus       100 ~~~ilVihDDld--lp~G~irlk~~---------Gs~gGHN-GLkSI~~~Lg  139 (208)
                      ..+.+||.|=++  .++|.++++..         .+...|+ |+.++.+.+.
T Consensus        46 ~~d~viiVDA~~~~~~pG~~~~~~~~~~~~~~~~~~~s~H~~~l~~~l~~~~   97 (140)
T cd06070          46 NYDIVIFIDVAVIDEDVGVFKITPEPASVAEQISFETDAHRLGPAHLLLLLK   97 (140)
T ss_pred             CCCEEEEEEeecCCCCCeEEEEecCchhccccccCCCCCCcCCHHHHHHHHH
Confidence            345667777654  68998888553         2224676 9999877766

Sequence comparison shows similarity to hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing and assembly with other subunits. Hydrogenase maturation endopeptidases are responsible for the proteolytic processing, liberating a short C-terminal peptide by cleaving after a His or an Arg residue, e.g., HycI (E. coli) is involved in processing of HypE (the large subunit of hydrogenases 3). This cleavage is nickel dependent.

>PRK11544 hycI hydrogenase 3 maturation protease; Provisional

Probab=91.40  E-value=3.9  Score=33.26  Aligned_cols=130  Identities=15%  Similarity=0.148  Sum_probs=67.6

Q ss_pred             eeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCC
Q 028531           19 WLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKL   98 (208)
Q Consensus        19 ~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki   98 (208)
                      .+|+|+|||-..    ===+|..++++|.+.. .+      .            +.++.=.|    .|.-+...++.+  
T Consensus         3 ~lVlGiGN~L~g----DDGvG~~v~~~L~~~~-~~------~------------v~vid~gt----~~~~~~~~i~~~--   53 (156)
T PRK11544          3 DVVLTVGNSMMG----DDGAGPLLAEKLAAAP-KG------G------------WVVIDGGS----APENDIVAIREL--   53 (156)
T ss_pred             EEEEEeCccccc----cCcHHHHHHHHHhccC-CC------C------------eEEEECCC----CHHHHHHHHHhc--
Confidence            589999999643    2349999999997642 10      0            11111011    122222222221  


Q ss_pred             CCCcEEEEecc--CCCCCceEEEecCC------CCCCC-CchHHHHHhhCCCCCCCCC----CCcccccc-ccCCHHHHH
Q 028531           99 PLNRVLVFHDD--MGLPCGVLRLRHNG------GHGGH-NGLKSVMNNFRGIGRPPGQ----MDPKAFLL-QKFNAIARE  164 (208)
Q Consensus        99 ~~~~ilVihDD--ldlp~G~irlk~~G------s~gGH-NGLkSI~~~LgGIGrP~~~----~~v~~yVL-s~f~~~E~~  164 (208)
                      .+ +.+||.|=  .+.++|+++.-...      +...| -||..+++.+.|  +++.-    ..+.++=+ ..+|++   
T Consensus        54 ~~-d~vIiVDA~~~g~~PG~v~~~~~~~~~~~~~~s~H~~~l~~~l~~l~~--~~p~v~iigI~~~~~~~g~~LS~~---  127 (156)
T PRK11544         54 RP-ERLLIVDATDMGLNPGEIRIIDPDDIAEMFMMTTHNMPLNYLIDQLKE--DVPEVIFLGIQPDIVGFYYPMTQP---  127 (156)
T ss_pred             CC-CEEEEEECCccCcCCCEEEEEchhhcccccCCCCCcCCHHHHHHHHhc--CCCcEEEEEEEeeeccCCCCCCHH---
Confidence            22 55666674  56799999874211      22345 488888887763  33210    01112211 244443   


Q ss_pred             HHHHHHHHHHHHHHHHHhcC
Q 028531          165 RIDTALQEGVEVLKLLLSKG  184 (208)
Q Consensus       165 ~l~~~i~~a~~~l~~~~~~~  184 (208)
                       +.+.++++++.++.|..++
T Consensus       128 -v~~av~~~~~~l~~~~~~~  146 (156)
T PRK11544        128 -VKDAVETVYQRLEGWEGNG  146 (156)
T ss_pred             -HHHHHHHHHHHHHHhhccC
Confidence             4445666777777776543

>PRK12362 germination protease; Provisional

Probab=89.18  E-value=3.4  Score=38.09  Aligned_cols=124  Identities=19%  Similarity=0.206  Sum_probs=70.6

Q ss_pred             HHHHHhhcCCCCCeeEEEecCccCCcCcccchHHHHHHHHHHHH-cCCCCCccccceEEEEEEECC-eeEEEEeC----C
Q 028531            6 FLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAES-QGISMNTVHCKATFGQGFVGD-APVLLAKP----Q   79 (208)
Q Consensus         6 ~~~~~~~~~~~~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~-~~~~~~~~k~~~~~~~~~~~~-~~v~L~kP----~   79 (208)
                      .++..+.-......|||||||.-    -|--..|-.+++.|.-. +-..        ++++..-.+ ..|.-+-|    +
T Consensus        88 ~L~~ll~~~~~~~iLVvGLGN~~----vTpDaLGP~Vv~~l~vTrhl~~--------~~~~~~~~~~~pV~AiaPGVmg~  155 (318)
T PRK12362         88 ELKKLINLDKEMTVLVVGLGNWN----VTPDALGPKVVSKLMVTRHLKE--------YAPEEIDEGIRPVCAIAPGVLGI  155 (318)
T ss_pred             HHHHHhCCCCCCcEEEEEcCCCC----cCccccchhhhhhhhhhhhhhh--------hcCchhcCCCCcceEecCCcccc
Confidence            34444422344668999999973    59999999999988642 2111        111111111 23444434    4


Q ss_pred             chhcccchhHHHHHHhcCCCCCcEEEEeccCC----CCCc-eEEEecCC---CCCCCCchHHH-HHhhC----CCCCCC
Q 028531           80 TYMNLSGESTGPLAAYYKLPLNRVLVFHDDMG----LPCG-VLRLRHNG---GHGGHNGLKSV-MNNFR----GIGRPP  145 (208)
Q Consensus        80 TyMNlSG~aV~~~~~~~ki~~~~ilVihDDld----lp~G-~irlk~~G---s~gGHNGLkSI-~~~Lg----GIGrP~  145 (208)
                      |=||. ++-++.+.+.++   .+++|.-|-+-    --+| +|++.-.|   |+|=.|==+.| -+.||    .||=|.
T Consensus       156 TGiet-~Eii~gIv~k~k---pd~IIAIDALaar~~~Rl~~tIQisdtGI~PGSGVGN~R~~l~~etLGVPVIAIGVPT  230 (318)
T PRK12362        156 TGIET-AEIIKGVVEKIK---PDLVIAIDALAARSVERVNTTIQISDTGISPGSGVGNKRMGINEETLGVPVIAIGVPT  230 (318)
T ss_pred             cchhH-HHHHHHHHHhcC---CCEEEEEeccccCCHHHccCeEEECCCCCCCCccCCCcccccCHHHcCCCEEEEcCCe
Confidence            55654 355666776665   45777778775    2467 78887665   33322322222 35677    777774

>cd06062 H2MP_MemB-H2up Endopeptidases belonging to membrane-bound hydrogenases group

Probab=88.94  E-value=10  Score=30.20  Aligned_cols=90  Identities=22%  Similarity=0.256  Sum_probs=53.0

Q ss_pred             eEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCCC
Q 028531           20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLP   99 (208)
Q Consensus        20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki~   99 (208)
                      +|+|+|||-..    -==+|+.+++.|++.+..+..                 +.+      + ..|.....++....  
T Consensus         2 lV~GiGN~l~g----DDG~G~~va~~L~~~~~~~~~-----------------v~v------i-~~~~~~~~l~~~l~--   51 (146)
T cd06062           2 LVLGIGNILLA----DEGIGVHAVERLEENYSFPEN-----------------VEL------I-DGGTLGLELLPYIE--   51 (146)
T ss_pred             EEEEECccccc----cCcHHHHHHHHHHHhcCCCCC-----------------eEE------E-ECCCCHHHHHHHHh--
Confidence            79999999532    235999999999887433210                 111      1 11212223333221  


Q ss_pred             CCcEEEEeccC--CCCCceEEEecC---------CCCCCCCchHHHHHhhC
Q 028531          100 LNRVLVFHDDM--GLPCGVLRLRHN---------GGHGGHNGLKSVMNNFR  139 (208)
Q Consensus       100 ~~~ilVihDDl--dlp~G~irlk~~---------Gs~gGHNGLkSI~~~Lg  139 (208)
                      ..+.+|+.|=+  +.++|+++.-..         ..+..+-++..+++.+.
T Consensus        52 ~~d~viiVDA~~~g~~pG~i~~~~~~~~~~~~~~~~s~H~~~l~~~l~~~~  102 (146)
T cd06062          52 EADRLIIVDAVDAGGPPGTVYRFEGEDVPAFLSAKLSAHQVGLLEVLALAE  102 (146)
T ss_pred             cCCEEEEEEcccCCCCCCeEEEEechhccccccCCcCcccCCHHHHHHHHH
Confidence            24677777864  779999876421         22444567888887765

These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD from E. coli is well studied in this group. Maturation of [NiFe] hydrogenases include proteolytic processing of large subunit, assembly with other subunits, and formation of the nickel metallocenter. Hydrogenase maturation endopeptidase (HybD) cleaves a short C-terminal peptide after a His or an Arg residue in the large subunit (pre-HybC) of hydrogenase 2 (hyb operon) in E. coli. This cleavage is nickel dependent. A variety of endopeptidases belong to this group that are similar in function and sequence homology. They include such proteins as HynC, HoxM, and HupD.

>TIGR00130 frhD coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit)

Probab=85.66  E-value=17  Score=29.25  Aligned_cols=95  Identities=19%  Similarity=0.181  Sum_probs=53.3

Q ss_pred             CeeEEEecCccCCcCcccchHHHHHHHHHHHH-cCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhc
Q 028531           18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAES-QGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYY   96 (208)
Q Consensus        18 ~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~-~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~   96 (208)
                      +.+|+|+|||-.    .-==+|..++++|+++ +..+  .               .+.+      ++........+....
T Consensus         4 ~ilVlGiGN~l~----gDDGvG~~v~~~L~~~~~~~~--~---------------~v~v------id~gt~~~~~l~~~~   56 (153)
T TIGR00130         4 EILVVGCGNILF----GDDGFGPAVIEYLKENGVEKP--D---------------NVCL------IDAGTGAPHFVFTLI   56 (153)
T ss_pred             eEEEEEeCcccc----ccCcHhHHHHHHHHHhCCCCC--C---------------CeEE------EECCCcHHHHHHHHh
Confidence            468999999952    2235999999999863 2211  0               0111      111111111111111


Q ss_pred             CCCCCcEEEEecc--CCCCCceEEEecC-----C-CCCCC-CchHHHHHhhC
Q 028531           97 KLPLNRVLVFHDD--MGLPCGVLRLRHN-----G-GHGGH-NGLKSVMNNFR  139 (208)
Q Consensus        97 ki~~~~ilVihDD--ldlp~G~irlk~~-----G-s~gGH-NGLkSI~~~Lg  139 (208)
                      .+...+.+||-|=  .+.++|+++.-..     + +...| -|+..+++.+.
T Consensus        57 ~~~~~d~vIivDA~~~~~~PG~v~~~~~~~~~~~~~~s~H~~~l~~~l~~l~  108 (153)
T TIGR00130        57 PQSKWKKIIVVDIADFGAEPGTLRVLNVDELPNGRYMDAHGWSLAYPLHDLE  108 (153)
T ss_pred             hhcCCCEEEEEEccCCCcCCCEEEEEchHHcCCCCCCCCccCCHHHHHHHhc
Confidence            2334566777785  5789999987431     2 22345 59999998765

FrhD is not part of the active FRH heterotrimer, but is probably a protease required for maturation. Alternative name: 8-hydroxy-5-deazaflavin (F420) reducing hydrogenase (FRH) subunit delta.

>TIGR00142 hycI hydrogenase maturation protease HycI

Probab=83.73  E-value=20  Score=28.53  Aligned_cols=92  Identities=14%  Similarity=0.143  Sum_probs=52.0

Q ss_pred             eEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCCC
Q 028531           20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLP   99 (208)
Q Consensus        20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki~   99 (208)
                      +|+|+|||-..    ===+|..++++|.+.+...                  .+.++.-.|    .|.-...+++.++  
T Consensus         2 lVlGiGN~l~~----DDG~G~~v~~~L~~~~~~~------------------~v~v~d~gt----~~~~~~~~~~~~~--   53 (146)
T TIGR00142         2 VLLCVGNELMG----DDGAGPYLAEKCAAAPKEE------------------NWVVINAGT----VPENFTVAIRELR--   53 (146)
T ss_pred             EEEEeCccccc----cCcHHHHHHHHHHhccCCC------------------CEEEEECCC----ChHHHHHHHHhcC--
Confidence            79999999643    2349999999998653210                  011111111    1221212233222  


Q ss_pred             CCcEEEEeccC--CCCCceEEEecC-----CCCCCC-CchHHHHHhhCC
Q 028531          100 LNRVLVFHDDM--GLPCGVLRLRHN-----GGHGGH-NGLKSVMNNFRG  140 (208)
Q Consensus       100 ~~~ilVihDDl--dlp~G~irlk~~-----Gs~gGH-NGLkSI~~~LgG  140 (208)
                       .+.+||.|-+  +.++|+++.-..     .+..-| .|+..+++.+.+
T Consensus        54 -~d~viivDA~~~g~~PG~v~~~~~~~~~~~~~s~H~~~l~~ll~~~~~  101 (146)
T TIGR00142        54 -PTHILIVDATDMGLNPGEVRIIDDDIIEMYSMSTHNMPLSYLVDYLKE  101 (146)
T ss_pred             -CCEEEEEECcccCCCCCeEEEEChhhccccccCcCcCCHHHHHHHHHh
Confidence             3566666764  569999887432     122455 599998877653

Hydrogenase maturation protease is a protease that is involved in the C-terminal processing of HycE,the large subunit of hydrogenase 3 from E.Coli. This protein seems to be found in E.Coli and in Archaea.

>COG0680 HyaD Ni,Fe-hydrogenase maturation factor [Energy production and conversion]

Probab=80.48  E-value=31  Score=28.45  Aligned_cols=130  Identities=17%  Similarity=0.170  Sum_probs=72.5

Q ss_pred             CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeC-CchhcccchhHHHHHHh
Q 028531           17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKP-QTYMNLSGESTGPLAAY   95 (208)
Q Consensus        17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP-~TyMNlSG~aV~~~~~~   95 (208)
                      .+.+|+|+|||=.    .-==+|-.++++|.+++.-.-                 .+-++.= +--+|+.+         
T Consensus         2 ~~ilIlG~GN~L~----~DDG~Gv~vae~L~~~~~~~~-----------------~v~vid~Gt~~~~l~~---------   51 (160)
T COG0680           2 MRILILGVGNILM----GDDGFGVRVAEKLKKRYKPPE-----------------NVEVIDGGTAGPNLLG---------   51 (160)
T ss_pred             CeEEEEeeCCccc----ccCcccHHHHHHHHHhcCCCC-----------------CeEEEEcCCCcHHHHH---------
Confidence            4579999999943    334589999999988753211                 1111111 01122221         


Q ss_pred             cCCCCCcEEEEeccCCC--CCceEEEec------CCCCC---CC-CchHHHHHhhC---CC-------CCCCCCCCcccc
Q 028531           96 YKLPLNRVLVFHDDMGL--PCGVLRLRH------NGGHG---GH-NGLKSVMNNFR---GI-------GRPPGQMDPKAF  153 (208)
Q Consensus        96 ~ki~~~~ilVihDDldl--p~G~irlk~------~Gs~g---GH-NGLkSI~~~Lg---GI-------GrP~~~~~v~~y  153 (208)
                       .+...+-+||.|=++.  .+|++++-+      ...+.   .| .++..+++.+.   |+       .-|..  ...+ 
T Consensus        52 -~l~~~d~vIIVDav~~g~epG~v~~i~~e~i~~~~~~~~~s~H~~~~~~~L~~~~~~~~~~~~~~~~~v~~~--~~~~-  127 (160)
T COG0680          52 -LLAGYDPVIIVDAVLFGLEPGEVRIIDPEEIPAYSSASKDSAHELPLSELLALLKELGGLPVLILGVQVPIV--SLPE-  127 (160)
T ss_pred             -HhcCCCcEEEEEeeecCCCCceEEEechhhcccccccCCCccccCCHHHHHHHHHHhcCCceEEEEEeecee--cccc-
Confidence             2223344788886555  599998743      23343   57 57777777766   22       22111  1111 


Q ss_pred             ccccCCHHHHHHHHHHHHHHHHHHHHH
Q 028531          154 LLQKFNAIARERIDTALQEGVEVLKLL  180 (208)
Q Consensus       154 VLs~f~~~E~~~l~~~i~~a~~~l~~~  180 (208)
                      +-..+|++=++.++.+++.+.+.++.+
T Consensus       128 ~~~~lS~ev~~a~~~av~~i~~~l~~~  154 (160)
T COG0680         128 FGGGLSPEVEEAVDKAVERILEELREW  154 (160)
T ss_pred             cccccCHHHHHHHHHHHHHHHHHHHhh
Confidence            235677766666677777666666554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	208
1rym_A	212	Structure Of The Group Ii Intron Splicing Factor Cr		5e-52
1ryb_A	205	Crystal Structure Of The Chloroplast Group Ii Intro		1e-50
1ryn_A	202	Structure Of The Chloroplast Group Ii Intron Splici		3e-50
2lgj_A	191	Solution Structure Of Mspth Length = 191		1e-27
3kjz_A	191	Crystal Structure Of Native Peptidyl-Trna Hydrolase		2e-26
2jrc_A	204	Solution Structure Of Peptidyl-Trna Hydrolase From		2e-24
2z2i_A	191	Crystal Structure Of Peptidyl-Trna Hydrolase From M		2e-24
3v2i_A	222	Structure Of A Peptidyl-Trna Hydrolase (Pth) From B		3e-16
4fop_A	193	Crystal Structure Of Peptidyl-Trna Hydrolase From A		7e-16
2pth_A	193	Peptidyl-Trna Hydrolase From Escherichia Coli Lengt		2e-15
3vjr_A	197	Crystal Structure Of Peptidyl-Trna Hydrolase From E		2e-15
4dhw_A	194	Crystal Structure Of Peptidyl-Trna Hydrolase From P		3e-15
4fyj_A	199	Crystal Structure Of P. Aeruginosa Peptidyl-Trna Hy		3e-15
3ofv_A	211	Crystal Structure Of Peptidyl-Trna Hydrolase From E		4e-15
3nea_A	207	Crystal Structure Of Peptidyl-Trna Hydrolase From F		6e-11

>pdb|1RYM|A Chain A, Structure Of The Group Ii Intron Splicing Factor Crs2 Length = 212

Iteration: 1
 Score =  200 bits (508), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 96/196 (48%), Positives = 129/196 (65%), Gaps = 10/196 (5%)
Query: 18  PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
           PWL  GLGNPG+KY GTRHNVGFEM+D  A  +GI+MNT   K+  G G +G+ PVL+ K
Sbjct: 17  PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTEQSKSLLGIGSIGEVPVLVVK 76
Query: 78  PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVMNN 137
           PQ+YMN SGE+ GPLAAYY++PL  +L+ +DD  LP GV               ++V+ +
Sbjct: 77  PQSYMNYSGEAIGPLAAYYQVPLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEH 136
Query: 138 FR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
                       GIG PPG+MDP+AFLLQKF++  R +IDTAL++GV+ ++ L+ KG + 
Sbjct: 137 LDGRREFPRLSIGIGSPPGKMDPRAFLLQKFSSEERVQIDTALEQGVDAVRTLVLKGFSG 196
Query: 188 SARHFNTIQKYKHIRL 203
           S   FN +QKYK  R+
Sbjct: 197 STERFNLVQKYKFHRV 212

>pdb|1RYB|A Chain A, Crystal Structure Of The Chloroplast Group Ii Intron Splicing Factor Crs2 Length = 205

Iteration: 1
 Score =  195 bits (496), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 92/189 (48%), Positives = 125/189 (66%), Gaps = 10/189 (5%)
Query: 18  PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
           PWL  GLGNPG+KY GTRHNVGFEM+D  A  +GI+MNT+  K+  G G +G+ PVL+ K
Sbjct: 17  PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVK 76
Query: 78  PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVMNN 137
           PQ+YMN SGE+ GPLAAYY++PL  +L+ +DD  LP GV               ++V+ +
Sbjct: 77  PQSYMNYSGEAIGPLAAYYQVPLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEH 136
Query: 138 FR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
                       GIG PPG+MDP+AFLLQKF++  R +IDTAL++GV+ ++ L+ KG + 
Sbjct: 137 LDGRREFPRLSIGIGSPPGKMDPRAFLLQKFSSEERVQIDTALEQGVDAVRTLVLKGFSG 196
Query: 188 SARHFNTIQ 196
           S   FN +Q
Sbjct: 197 STERFNLVQ 205

>pdb|1RYN|A Chain A, Structure Of The Chloroplast Group Ii Intron Splicing Factor Crs2 Length = 202

Iteration: 1
 Score =  194 bits (493), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 93/190 (48%), Positives = 125/190 (65%), Gaps = 10/190 (5%)
Query: 18  PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
           PWL  GLGNPG+KY GTRHNVGFEM+D  A  +GI+MNT   K+  G G +G+ PVL+ K
Sbjct: 5   PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTNQFKSLLGTGSIGEVPVLVVK 64
Query: 78  PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVMNN 137
           PQ+YMN SGE+ GPLAAYY++PL  +L+ +DD  LP GV               ++V+ +
Sbjct: 65  PQSYMNYSGEAIGPLAAYYQVPLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEH 124
Query: 138 FR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
                       GIG PPG+MDP+AFLLQKF++  R +IDTAL++GV+ ++ L+ KG + 
Sbjct: 125 LDGRREFPRLSIGIGSPPGKMDPRAFLLQKFSSEERVQIDTALEQGVDAVRTLVLKGFSG 184
Query: 188 SARHFNTIQK 197
           S   FN +QK
Sbjct: 185 STERFNLVQK 194

>pdb|2LGJ|A Chain A, Solution Structure Of Mspth Length = 191

Iteration: 1
 Score =  119 bits (297), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 73/195 (37%), Positives = 105/195 (53%), Gaps = 15/195 (7%)
Query: 15  VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCK--ATFGQGFVGDAP 72
           +A P L VGLGNPG  Y  TRHN+GF + D  A   G S   VH K  A    G +    
Sbjct: 1   MAEPLLVVGLGNPGPTYAKTRHNLGFMVADVLAGRIG-SAFKVHKKSGAEVVTGRLAGTS 59
Query: 73  VLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXK 132
           V+LAKP+ YMN SG   GPLA +Y +P  +++V HD++ +  G                +
Sbjct: 60  VVLAKPRCYMNESGRQVGPLAKFYSVPPQQIVVIHDELDIDFGRIRLKLGGGEGGHNGLR 119
Query: 133 SVMN-----NFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSK 183
           SV +     NF     G+GRPPG+ DP AF+L+ F A  R  + T +++  +  +LL+++
Sbjct: 120 SVASALGTKNFHRVRIGVGRPPGRKDPAAFVLENFTAAERAEVPTIVEQAADATELLIAQ 179
Query: 184 GLTESARHFNTIQKY 198
           GL E A+  NT+  +
Sbjct: 180 GL-EPAQ--NTVHAW 191

>pdb|3KJZ|A Chain A, Crystal Structure Of Native Peptidyl-Trna Hydrolase From Mycobacterium Smegmatis Length = 191

Iteration: 1
 Score =  115 bits (287), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 71/195 (36%), Positives = 104/195 (53%), Gaps = 15/195 (7%)
Query: 15  VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCK--ATFGQGFVGDAP 72
           +A P L VGLGNPG  Y  TRHN+GF + D  A   G S   VH K  A    G +    
Sbjct: 1   MAEPLLVVGLGNPGPTYAKTRHNLGFMVADVLAGRIG-SAFKVHKKSGAEVVTGRLAGTT 59
Query: 73  VLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXK 132
           V+LAKP+  MN SG   GPLA +Y +P  +++V HD++ +  G                +
Sbjct: 60  VVLAKPRISMNESGRQVGPLAKFYSVPPQQIVVIHDELDIDFGRIRLKLGGGEGGHNGLR 119
Query: 133 SVMN-----NFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSK 183
           SV +     NF     G+GRPPG+ DP AF+L+ F +  R  + T +++  +  +LL+++
Sbjct: 120 SVASALGTKNFHRVRIGVGRPPGRKDPAAFVLENFTSAERAEVPTIVEQAADATELLIAQ 179
Query: 184 GLTESARHFNTIQKY 198
           GL E A+  NT+  +
Sbjct: 180 GL-EPAQ--NTVHAW 191

>pdb|2JRC|A Chain A, Solution Structure Of Peptidyl-Trna Hydrolase From Mycobacterium Tuberculosis H37rv Length = 204

Iteration: 1
 Score =  108 bits (270), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 63/181 (34%), Positives = 89/181 (49%), Gaps = 10/181 (5%)
Query: 15  VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNT-VHCKATFGQGFVGDAPV 73
           +A P L VGLGNPG  Y  TRHN+GF + D  A   G          A    G      +
Sbjct: 1   MAEPLLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKAHKRSGAEVATGRSAGRSL 60
Query: 74  LLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKS 133
           +LAKP+ YMN SG   GPLA +Y +    ++V HDD+ L  G                +S
Sbjct: 61  VLAKPRCYMNESGRQIGPLAKFYSVAPANIIVIHDDLDLEFGRIRLKIGGGEGGHNGLRS 120
Query: 134 VM-----NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKG 184
           V+      +F+    GIGRPPG+ DP AF+L+ F    R  + T  ++  +  +LL+ +G
Sbjct: 121 VVAALGTKDFQRVRIGIGRPPGRKDPAAFVLENFTPAERAEVPTICEQAADATELLIEQG 180
Query: 185 L 185
           +
Sbjct: 181 M 181

>pdb|2Z2I|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From Mycobacterium Tuberculosis Length = 191

Iteration: 1
 Score =  108 bits (270), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 63/181 (34%), Positives = 89/181 (49%), Gaps = 10/181 (5%)
Query: 15  VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNT-VHCKATFGQGFVGDAPV 73
           +A P L VGLGNPG  Y  TRHN+GF + D  A   G          A    G      +
Sbjct: 1   MAEPLLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKAHKRSGAEVATGRSAGRSL 60
Query: 74  LLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKS 133
           +LAKP+ YMN SG   GPLA +Y +    ++V HDD+ L  G                +S
Sbjct: 61  VLAKPRCYMNESGRQIGPLAKFYSVAPANIIVIHDDLDLEFGRIRLKIGGGEGGHNGLRS 120
Query: 134 VM-----NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKG 184
           V+      +F+    GIGRPPG+ DP AF+L+ F    R  + T  ++  +  +LL+ +G
Sbjct: 121 VVAALGTKDFQRVRIGIGRPPGRKDPAAFVLENFTPAERAEVPTICEQAADATELLIEQG 180
Query: 185 L 185
           +
Sbjct: 181 M 181

>pdb|3V2I|A Chain A, Structure Of A Peptidyl-Trna Hydrolase (Pth) From Burkholderia Thailandensis Length = 222

Iteration: 1
 Score = 81.3 bits (199), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 57/190 (30%), Positives = 87/190 (45%), Gaps = 21/190 (11%)
Query: 20  LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISM-NTVHCKATFGQGFVGDAPVLLAKP 78
           L VGLGNPG +Y  TRHN GF ++D  A   G ++ +       + +  +    V L +P
Sbjct: 25  LIVGLGNPGAEYTATRHNAGFWLVDQLAREAGATLRDERRFHGFYAKARLYGEEVHLLEP 84
Query: 79  QTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVMNNF 138
           QTYMN SG+S   LA ++K+  N +LV HD++ LP G                K +  + 
Sbjct: 85  QTYMNRSGQSVVALAHFFKILPNEILVAHDELDLPPGAVKLKLGGGSGGHNGLKDISAHL 144
Query: 139 R---------GIGRPPGQM----------DPKAFLLQKFNAIARERIDTALQEGVEVLKL 179
                     GIG P   +          D   F+L+      ++ ID A++  + V+  
Sbjct: 145 SSQQYWRLRIGIGHPRDMIPESARAGAKPDVANFVLKPPRKEEQDVIDAAIERALAVMPA 204
Query: 180 LLSKGLTESA 189
           ++ KG TE A
Sbjct: 205 VV-KGETERA 213

>pdb|4FOP|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From Acinetobacter Baumannii At 1.86 A Resolution Length = 193

Iteration: 1
 Score = 80.5 bits (197), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 55/189 (29%), Positives = 88/189 (46%), Gaps = 12/189 (6%)
Query: 20  LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISM-NTVHCKATFGQGFVGDAPVLLAKP 78
           L VGLGNPG +Y  TRHN GF  ++  A+  GI++ N        G+G +    V L  P
Sbjct: 6   LIVGLGNPGSEYAQTRHNAGFWFVEQLADKYGITLKNDPKFHGISGRGNIEGHDVRLLLP 65
Query: 79  QTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVM--- 135
            TYMN SG+S  P + +Y++    +L+ HD++ +  GV               + ++   
Sbjct: 66  MTYMNRSGQSVVPFSKFYQIAPEAILIAHDELDMNPGVIRLKTGGGHGGHNGLRDIVPHI 125
Query: 136 -NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESAR 190
             NF     GIG P  +      +L K  +  +  +D A+   +  +KLL+   + ++  
Sbjct: 126 GPNFHRLRIGIGHPGSKERVSGHVLGKAPSNEQSLMDGAIDHALSKVKLLVQGQVPQA-- 183
Query: 191 HFNTIQKYK 199
             N I  YK
Sbjct: 184 -MNQINAYK 191

>pdb|2PTH|A Chain A, Peptidyl-Trna Hydrolase From Escherichia Coli Length = 193

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 54/191 (28%), Positives = 88/191 (46%), Gaps = 17/191 (8%)
Query: 20  LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATF----GQGFVGDAPVLL 75
           L VGL NPG +Y  TRHN G   +D  AE     +     +A F     +  +G   V L
Sbjct: 4   LIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLRE---EAKFFGYTSRVTLGGEDVRL 60
Query: 76  AKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVM 135
             P T+MNLSG++   +A+++++  + +LV HD++ LP GV               K ++
Sbjct: 61  LVPTTFMNLSGKAVAAMASFFRINPDEILVAHDELDLPPGVAKFKLGGGHGGHNGLKDII 120
Query: 136 N------NFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGL 185
           +      NF     GIG P  +     F+L K     ++ ID A+ E     ++  + GL
Sbjct: 121 SKLGNNPNFHRLRIGIGHPGDKNKVVGFVLGKPPVSEQKLIDEAIDEAARCTEMWFTDGL 180
Query: 186 TESARHFNTIQ 196
           T++    +  +
Sbjct: 181 TKATNRLHAFK 191

>pdb|3VJR|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From Escherichia Coli In Complex With The Cca-Acceptor-T[psi]c Domain Of Trna Length = 197

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 54/191 (28%), Positives = 88/191 (46%), Gaps = 17/191 (8%)
Query: 20  LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATF----GQGFVGDAPVLL 75
           L VGL NPG +Y  TRHN G   +D  AE     +     +A F     +  +G   V L
Sbjct: 8   LIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLRE---EAKFFGYTSRVTLGGEDVRL 64
Query: 76  AKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVM 135
             P T+MNLSG++   +A+++++  + +LV HD++ LP GV               K ++
Sbjct: 65  LVPTTFMNLSGKAVAAMASFFRINPDEILVAHDELDLPPGVAKFKLGGGHGGHNGLKDII 124
Query: 136 N------NFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGL 185
           +      NF     GIG P  +     F+L K     ++ ID A+ E     ++  + GL
Sbjct: 125 SKLGNNPNFHRLRIGIGHPGDKNKVVGFVLGKPPVSEQKLIDEAIDEAARCTEMWFTDGL 184
Query: 186 TESARHFNTIQ 196
           T++    +  +
Sbjct: 185 TKATNRLHAFK 195

>pdb|4DHW|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From Pseudomonas Aeruginosa With Adipic Acid At 2.4 Angstrom Resolution Length = 194

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 56/190 (29%), Positives = 91/190 (47%), Gaps = 19/190 (10%)
Query: 20  LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGD-----APVL 74
           L VGLGNPG +Y  TRHN G   ++  A +QG+S+  V  +  F  G VG        V 
Sbjct: 6   LIVGLGNPGPEYDQTRHNAGALFVERLAHAQGVSL--VADRKYF--GLVGKFSHQGKDVR 61
Query: 75  LAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSV 134
           L  P TYMN SG+S   LA ++++  + +LV HD++ +P GV               + +
Sbjct: 62  LLIPTTYMNRSGQSVAALAGFFRIAPDAILVAHDELDMPPGVAKLKTGGGHGGHNGLRDI 121
Query: 135 M------NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKG 184
           +      N+F     GIG P        ++L +     +E +DT++   + VL  +L+  
Sbjct: 122 IAQLGNQNSFHRLRLGIGHPGHSSLVSGYVLGRAPRSEQELLDTSIDFALGVLPEMLAGD 181
Query: 185 LTESARHFNT 194
            T + +  ++
Sbjct: 182 WTRAMQKLHS 191

>pdb|4FYJ|A Chain A, Crystal Structure Of P. Aeruginosa Peptidyl-Trna Hydrolase Length = 199

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 56/190 (29%), Positives = 91/190 (47%), Gaps = 19/190 (10%)
Query: 20  LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGD-----APVL 74
           L VGLGNPG +Y  TRHN G   ++  A +QG+S+  V  +  F  G VG        V 
Sbjct: 12  LIVGLGNPGPEYDQTRHNAGALFVERLAHAQGVSL--VADRKYF--GLVGKFSHQGKDVR 67
Query: 75  LAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSV 134
           L  P TYMN SG+S   LA ++++  + +LV HD++ +P GV               + +
Sbjct: 68  LLIPTTYMNRSGQSVAALAGFFRIAPDAILVAHDELDMPPGVAKLKTGGGHGGHNGLRDI 127
Query: 135 M------NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKG 184
           +      N+F     GIG P        ++L +     +E +DT++   + VL  +L+  
Sbjct: 128 IAQLGNQNSFHRLRLGIGHPGHSSLVSGYVLGRAPRSEQELLDTSIDFALGVLPEMLAGD 187
Query: 185 LTESARHFNT 194
            T + +  ++
Sbjct: 188 WTRAMQKLHS 197

>pdb|3OFV|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From Escherichia Coli, I222 Crystal Form Length = 211

Iteration: 1
 Score = 77.8 bits (190), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 54/189 (28%), Positives = 87/189 (46%), Gaps = 17/189 (8%)
Query: 20  LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATF----GQGFVGDAPVLL 75
           L VGL NPG +Y  TRHN G   +D  AE     +     +A F     +  +G   V L
Sbjct: 25  LIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLRE---EAKFFGYTSRVTLGGEDVRL 81
Query: 76  AKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVM 135
             P T+MNLSG++   +A+++++  + +LV HD++ LP GV               K ++
Sbjct: 82  LVPTTFMNLSGKAVAAMASFFRINPDEILVAHDELDLPPGVAKFKLGGGHGGHNGLKDII 141
Query: 136 N------NFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGL 185
           +      NF     GIG P  +     F+L K     ++ ID A+ E     ++  + GL
Sbjct: 142 SKLGNNPNFHRLRIGIGHPGDKNKVVGFVLGKPPVSEQKLIDEAIDEAARCTEMWFTDGL 201
Query: 186 TESARHFNT 194
           T++    + 
Sbjct: 202 TKATNRLHA 210

>pdb|3NEA|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From Francisella Tularensis Length = 207

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 46/178 (25%), Positives = 82/178 (46%), Gaps = 14/178 (7%)
Query: 20  LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNT---VHCKATFGQGFVGDAPVLLA 76
           + +GLGN G +Y+ TRHNVG   I   A+    S ++   ++C     +  +    V+L 
Sbjct: 25  MIIGLGNIGKEYQDTRHNVGEWFIAKIAQDNNQSFSSNPKLNC--NLAKVSIDYNNVVLV 82
Query: 77  KPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSV-- 134
            P TYMN SG +   +A +YK+    +LV HD++ +  G                +S+  
Sbjct: 83  FPTTYMNNSGLAVSKVANFYKIAPAEILVVHDELDIDSGEIRLKKGGGHGGHNGLRSINQ 142
Query: 135 ---MNNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGL 185
               N++     GIG P  +     ++L   +   ++ ID+A+  G+  L  +++  L
Sbjct: 143 HLGTNDYLRLRIGIGHPGHKSKVANYVLSNPSIAQKKDIDSAIDNGICFLDDIINYKL 200

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	208
1ryb_A	205	CRS2; alpha-beta, hydrolase; 1.70A {Zea mays} SCOP	2e-86
2z2i_A	191	PTH, peptidyl-tRNA hydrolase; protein synthesis; 1	2e-81
4fno_A	194	PTH, peptidyl-tRNA hydrolase; 2.25A {Pseudomonas a	6e-79
2pth_A	193	Peptidyl-tRNA hydrolase; 1.20A {Escherichia coli}	9e-76
4fop_A	193	PTH, peptidyl-tRNA hydrolase; 1.86A {Acinetobacter	1e-74
3nea_A	207	PTH, peptidyl-tRNA hydrolase; 2.25A {Francisella t	2e-73
3v2i_A	222	PTH, peptidyl-tRNA hydrolase; ssgcid, seattle stru	9e-72

>1ryb_A CRS2; alpha-beta, hydrolase; 1.70A {Zea mays} SCOP: c.56.3.1 PDB: 1rym_A 1ryn_A Length = 205

 Score =  253 bits (648), Expect = 2e-86
 Identities = 103/189 (54%), Positives = 137/189 (72%), Gaps = 10/189 (5%)

Query: 18  PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
           PWL  GLGNPG+KY GTRHNVGFEM+D  A  +GI+MNT+  K+  G G +G+ PVL+ K
Sbjct: 17  PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVK 76

Query: 78  PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNN 137
           PQ+YMN SGE+ GPLAAYY++PL  +L+ +DD  LP GVLRL+  GGHG HNGL++V+ +
Sbjct: 77  PQSYMNYSGEAIGPLAAYYQVPLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEH 136

Query: 138 FR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
                       GIG PPG+MDP+AFLLQKF++  R +IDTAL++GV+ ++ L+ KG + 
Sbjct: 137 LDGRREFPRLSIGIGSPPGKMDPRAFLLQKFSSEERVQIDTALEQGVDAVRTLVLKGFSG 196

Query: 188 SARHFNTIQ 196
           S   FN +Q
Sbjct: 197 STERFNLVQ 205

>2z2i_A PTH, peptidyl-tRNA hydrolase; protein synthesis; 1.98A {Mycobacterium tuberculosis} PDB: 2z2j_A 2z2k_A 3tck_A 3tcn_A 3td2_A 3td6_A 2jrc_A 3p2j_A 3kk0_A 3kjz_A Length = 191

 Score =  239 bits (613), Expect = 2e-81
 Identities = 73/188 (38%), Positives = 102/188 (54%), Gaps = 10/188 (5%)

Query: 16  ARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTV-HCKATFGQGFVGDAPVL 74
           A P L VGLGNPG  Y  TRHN+GF + D  A   G          A    G      ++
Sbjct: 2   AEPLLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKAHKRSGAEVATGRSAGRSLV 61

Query: 75  LAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSV 134
           LAKP+ YMN SG   GPLA +Y +    ++V HDD+ L  G +RL+  GG GGHNGL+SV
Sbjct: 62  LAKPRCYMNESGRQIGPLAKFYSVAPANIIVIHDDLDLEFGRIRLKIGGGEGGHNGLRSV 121

Query: 135 M-----NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGL 185
           +      +F+    GIGRPPG+ DP AF+L+ F    R  + T  ++  +  +LL+ +G+
Sbjct: 122 VAALGTKDFQRVRIGIGRPPGRKDPAAFVLENFTPAERAEVPTICEQAADATELLIEQGM 181

Query: 186 TESARHFN 193
             +    +
Sbjct: 182 EPAQNRVH 189

>4fno_A PTH, peptidyl-tRNA hydrolase; 2.25A {Pseudomonas aeruginosa} PDB: 4djj_A* 4erx_A 4dhw_A Length = 194

 Score =  233 bits (597), Expect = 6e-79
 Identities = 62/190 (32%), Positives = 99/190 (52%), Gaps = 11/190 (5%)

Query: 16  ARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVH-CKATFGQGFVGDAPVL 74
               L VGLGNPG +Y  TRHN G   ++  A +QG+S+          G+       V 
Sbjct: 2   TAVQLIVGLGNPGPEYDQTRHNAGALFVERLAHAQGVSLVADRKYFGLVGKFSHQGKDVR 61

Query: 75  LAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSV 134
           L  P TYMN SG+S   LA ++++  + +LV HD++ +P GV +L+  GGHGGHNGL+ +
Sbjct: 62  LLIPTTYMNRSGQSVAALAGFFRIAPDAILVAHDELDMPPGVAKLKTGGGHGGHNGLRDI 121

Query: 135 M------NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKG 184
           +      N+F     GIG P        ++L +     +E +DT++   + VL  +L+  
Sbjct: 122 IAQLGNQNSFHRLRLGIGHPGHSSLVSGYVLGRAPRSEQELLDTSIDFALGVLPEMLAGD 181

Query: 185 LTESARHFNT 194
            T + +  ++
Sbjct: 182 WTRAMQKLHS 191

>2pth_A Peptidyl-tRNA hydrolase; 1.20A {Escherichia coli} SCOP: c.56.3.1 PDB: 3ofv_A Length = 193

 Score =  225 bits (576), Expect = 9e-76
 Identities = 61/190 (32%), Positives = 95/190 (50%), Gaps = 11/190 (5%)

Query: 19  WLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVH-CKATFGQGFVGDAPVLLAK 77
            L VGL NPG +Y  TRHN G   +D  AE     +           +  +G   V L  
Sbjct: 3   KLIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLREEAKFFGYTSRVTLGGEDVRLLV 62

Query: 78  PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVM-- 135
           P T+MNLSG++   +A+++++  + +LV HD++ LP GV + +  GGHGGHNGLK ++  
Sbjct: 63  PTTFMNLSGKAVAAMASFFRINPDEILVAHDELDLPPGVAKFKLGGGHGGHNGLKDIISK 122

Query: 136 ----NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
                NF     GIG P  +     F+L K     ++ ID A+ E     ++  + GLT+
Sbjct: 123 LGNNPNFHRLRIGIGHPGDKNKVVGFVLGKPPVSEQKLIDEAIDEAARCTEMWFTDGLTK 182

Query: 188 SARHFNTIQK 197
           +    +  + 
Sbjct: 183 ATNRLHAFKA 192

>4fop_A PTH, peptidyl-tRNA hydrolase; 1.86A {Acinetobacter baumannii} Length = 193

 Score =  222 bits (569), Expect = 1e-74
 Identities = 62/188 (32%), Positives = 98/188 (52%), Gaps = 9/188 (4%)

Query: 19  WLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVH-CKATFGQGFVGDAPVLLAK 77
            L VGLGNPG +Y  TRHN GF  ++  A+  GI++          G+G +    V L  
Sbjct: 5   SLIVGLGNPGSEYAQTRHNAGFWFVEQLADKYGITLKNDPKFHGISGRGNIEGHDVRLLL 64

Query: 78  PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVM-- 135
           P TYMN SG+S  P + +Y++    +L+ HD++ +  GV+RL+  GGHGGHNGL+ ++  
Sbjct: 65  PMTYMNRSGQSVVPFSKFYQIAPEAILIAHDELDMNPGVIRLKTGGGHGGHNGLRDIVPH 124

Query: 136 --NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESA 189
              NF     GIG P  +      +L K  +  +  +D A+   +  +KLL+   + ++ 
Sbjct: 125 IGPNFHRLRIGIGHPGSKERVSGHVLGKAPSNEQSLMDGAIDHALSKVKLLVQGQVPQAM 184

Query: 190 RHFNTIQK 197
              N  + 
Sbjct: 185 NQINAYKP 192

>3nea_A PTH, peptidyl-tRNA hydrolase; 2.25A {Francisella tularensis subsp} Length = 207

 Score =  219 bits (561), Expect = 2e-73
 Identities = 56/182 (30%), Positives = 93/182 (51%), Gaps = 10/182 (5%)

Query: 16  ARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVH-CKATFGQGFVGDAPVL 74
            +  + +GLGN G +Y+ TRHNVG   I   A+    S ++         +  +    V+
Sbjct: 21  PKIKMIIGLGNIGKEYQDTRHNVGEWFIAKIAQDNNQSFSSNPKLNCNLAKVSIDYNNVV 80

Query: 75  LAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSV 134
           L  P TYMN SG +   +A +YK+    +LV HD++ +  G +RL+  GGHGGHNGL+S+
Sbjct: 81  LVFPTTYMNNSGLAVSKVANFYKIAPAEILVVHDELDIDSGEIRLKKGGGHGGHNGLRSI 140

Query: 135 M-----NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGL 185
                 N++     GIG P  +     ++L   +   ++ ID+A+  G+  L  +++  L
Sbjct: 141 NQHLGTNDYLRLRIGIGHPGHKSKVANYVLSNPSIAQKKDIDSAIDNGICFLDDIINYKL 200

Query: 186 TE 187
             
Sbjct: 201 EP 202

>3v2i_A PTH, peptidyl-tRNA hydrolase; ssgcid, seattle structural genomics center for infectious DI RNA; HET: CIT; 1.65A {Burkholderia thailandensis E264} Length = 222

 Score =  216 bits (552), Expect = 9e-72
 Identities = 61/196 (31%), Positives = 95/196 (48%), Gaps = 20/196 (10%)

Query: 19  WLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVH-CKATFGQGFVGDAPVLLAK 77
            L VGLGNPG +Y  TRHN GF ++D  A   G ++         + +  +    V L +
Sbjct: 24  KLIVGLGNPGAEYTATRHNAGFWLVDQLAREAGATLRDERRFHGFYAKARLYGEEVHLLE 83

Query: 78  PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVM-- 135
           PQTYMN SG+S   LA ++K+  N +LV HD++ LP G ++L+  GG GGHNGLK +   
Sbjct: 84  PQTYMNRSGQSVVALAHFFKILPNEILVAHDELDLPPGAVKLKLGGGSGGHNGLKDISAH 143

Query: 136 ---NNFR----GIGRPP----------GQMDPKAFLLQKFNAIARERIDTALQEGVEVLK 178
                +     GIG P            + D   F+L+      ++ ID A++  + V+ 
Sbjct: 144 LSSQQYWRLRIGIGHPRDMIPESARAGAKPDVANFVLKPPRKEEQDVIDAAIERALAVMP 203

Query: 179 LLLSKGLTESARHFNT 194
            ++      +    + 
Sbjct: 204 AVVKGETERAMMQLHR 219

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	208
2pth_A	193	Peptidyl-tRNA hydrolase; 1.20A {Escherichia coli}	100.0
1ryb_A	205	CRS2; alpha-beta, hydrolase; 1.70A {Zea mays} SCOP	100.0
4hoy_A	193	PTH, peptidyl-tRNA hydrolase; enzyme, molecular co	100.0
2z2i_A	191	PTH, peptidyl-tRNA hydrolase; protein synthesis; 1	100.0
4fyj_A	199	PTH, peptidyl-tRNA hydrolase; 1.77A {Pseudomonas a	100.0
3v2i_A	222	PTH, peptidyl-tRNA hydrolase; ssgcid, seattle stru	100.0
3nea_A	207	PTH, peptidyl-tRNA hydrolase; 2.25A {Francisella t	100.0
4fno_A	194	PTH, peptidyl-tRNA hydrolase; 2.25A {Pseudomonas a	100.0

>2pth_A Peptidyl-tRNA hydrolase; 1.20A {Escherichia coli} SCOP: c.56.3.1 PDB: 3ofv_A

Probab=100.00  E-value=1.9e-74  Score=486.66  Aligned_cols=178  Identities=33%  Similarity=0.605  Sum_probs=170.9

Q ss_pred             CeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCC-ccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhc
Q 028531           18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMN-TVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYY   96 (208)
Q Consensus        18 ~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~-~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~   96 (208)
                      |+|||||||||++|++||||||||++|+||+++++++. +.++.+.++++.+.+++|+|+||+||||+||+||+++++||
T Consensus         2 m~LIvGLGNPG~~Y~~TRHNiGf~viD~La~~~~~~~~~~~k~~~~~~~~~~~g~~v~L~KP~TyMNlSG~sV~~~~~~y   81 (193)
T 2pth_A            2 IKLIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLREEAKFFGYTSRVTLGGEDVRLLVPTTFMNLSGKAVAAMASFF   81 (193)
T ss_dssp             CCEEEECCCCSTTTTTSGGGHHHHHHHHHHHHHTCCCEEEGGGTEEEEEEEETTEEEEEEEECSCGGGTHHHHHHHHHHH
T ss_pred             cEEEEEECCCCcccccCchHHHHHHHHHHHHHcCCCccccccccEEEEEEEECCeEEEEEcCCchHhcCcHHHHHHHHHh
Confidence            68999999999999999999999999999999999986 56788999999999999999999999999999999999999


Q ss_pred             CCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC----------CCCCCCCCCCccccccccCCHHHHHHH
Q 028531           97 KLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARERI  166 (208)
Q Consensus        97 ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg----------GIGrP~~~~~v~~yVLs~f~~~E~~~l  166 (208)
                      +|++++|||||||||||+|++|+|.+||+|||||||||+++||          |||||+++.++++|||++|+++|++.|
T Consensus        82 ki~~~~ilVihDdldlp~G~irlk~gGs~gGHNGlkSI~~~Lg~t~~f~RlRiGIGrP~~~~~v~~yVL~~f~~~E~~~l  161 (193)
T 2pth_A           82 RINPDEILVAHDELDLPPGVAKFKLGGGHGGHNGLKDIISKLGNNPNFHRLRIGIGHPGDKNKVVGFVLGKPPVSEQKLI  161 (193)
T ss_dssp             TCCGGGEEEEEEETTSCTTCEEEEESCCCTTCHHHHHHHHHTTSCCCSEEEEEECCCCSSHHHHHHHHTSCCCHHHHHHH
T ss_pred             CCCHHHEEEEecccCCCCceEEEecCCCCCCCCCHHHHHHHhCCCCCeEEEEEEeCCCCCCCchhHHhhCCCCHHHHHHH
Confidence            9999999999999999999999999999999999999999999          999996445689999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHhhch
Q 028531          167 DTALQEGVEVLKLLLSKGLTESARHFNTI  195 (208)
Q Consensus       167 ~~~i~~a~~~l~~~~~~~~~~amn~~n~~  195 (208)
                      +++++.|++|++.|+++++++|||+||.+
T Consensus       162 ~~~i~~a~~a~~~~~~~~~~~amn~~n~~  190 (193)
T 2pth_A          162 DEAIDEAARCTEMWFTDGLTKATNRLHAF  190 (193)
T ss_dssp             HHHHHHHHHHHHHHHHHCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHhCc
Confidence            99999999999999999999999999974

>1ryb_A CRS2; alpha-beta, hydrolase; 1.70A {Zea mays} SCOP: c.56.3.1 PDB: 1rym_A 1ryn_A

Probab=100.00  E-value=2e-74  Score=490.16  Aligned_cols=182  Identities=56%  Similarity=1.043  Sum_probs=168.7

Q ss_pred             CCCCCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHH
Q 028531           14 AVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLA   93 (208)
Q Consensus        14 ~~~~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~   93 (208)
                      .++.++|||||||||++|++||||||||++|+||+++++++.+.++.+.++++.+.+++|+|+||+||||+||+||++++
T Consensus        13 ~~~~~~LIVGLGNPG~~Y~~TRHNiGf~viD~La~~~~~~~~~~k~~~~~~~~~~~g~~v~LlKP~TyMNlSG~sV~~~~   92 (205)
T 1ryb_A           13 VEYTPWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVKPQSYMNYSGEAIGPLA   92 (205)
T ss_dssp             --CCCEEEEECCCCSGGGTTBGGGHHHHHHHHHHHHTTCCCCEEETTEEEEEEEETTEEEEEEEECSCGGGHHHHHHHHH
T ss_pred             CCCCCEEEEEECCCChhhccCchHHHHHHHHHHHHHcCCCcccccccEEEEEEEECCEEEEEEcCCchhhccCHHHHHHH
Confidence            35678999999999999999999999999999999999998877899999999999999999999999999999999999


Q ss_pred             HhcCCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhh-C---------CCCCCCCCCCccccccccCCHHHH
Q 028531           94 AYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNF-R---------GIGRPPGQMDPKAFLLQKFNAIAR  163 (208)
Q Consensus        94 ~~~ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~L-g---------GIGrP~~~~~v~~yVLs~f~~~E~  163 (208)
                      +||+|++++|||||||||||+|++|+|.+||+|||||||||+++| |         |||||+.+.++++|||++|+++|+
T Consensus        93 ~~yki~~~~ilVihDdLdLp~G~iRlk~gGs~gGHNGLkSI~~~L~gt~~f~RlRiGIGrP~~~~~v~~yVL~~f~~~E~  172 (205)
T 1ryb_A           93 AYYQVPLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEHLDGRREFPRLSIGIGSPPGKMDPRAFLLQKFSSEER  172 (205)
T ss_dssp             HHTTCCGGGEEEEEEETTSCTTCEEEESSCCCTTCHHHHHHHHHTTTCCCSCEEEEECCCCSTTCCHHHHHTSBCCHHHH
T ss_pred             HHhCCCHHHEEEEeecccCCCCeEEEeeCCCCCCCCCHHHHHHHhcCCCCeEEEEEecCCCCCCCchhhhhcCCCCHHHH
Confidence            999999999999999999999999999999999999999999999 8         999997556799999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhcCHHHHHHHhhch
Q 028531          164 ERIDTALQEGVEVLKLLLSKGLTESARHFNTI  195 (208)
Q Consensus       164 ~~l~~~i~~a~~~l~~~~~~~~~~amn~~n~~  195 (208)
                      +.|+++++.|++|++.|+++++++|||+||.+
T Consensus       173 ~~l~~~i~~a~~a~~~~~~~~~~~amn~~n~~  204 (205)
T 1ryb_A          173 VQIDTALEQGVDAVRTLVLKGFSGSTERFNLV  204 (205)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-----CCCCCC
T ss_pred             HHHHHHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence            99999999999999999999999999999963

>4hoy_A PTH, peptidyl-tRNA hydrolase; enzyme, molecular conformation, INH hydrolase; 1.78A {Acinetobacter baumannii} PDB: 4fot_A 4fop_A

Probab=100.00  E-value=3.2e-74  Score=485.28  Aligned_cols=181  Identities=33%  Similarity=0.626  Sum_probs=174.0

Q ss_pred             CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCc-cccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHh
Q 028531           17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNT-VHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAY   95 (208)
Q Consensus        17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~-~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~   95 (208)
                      .++|||||||||++|++|||||||+++|+||++++.++.. .++.+.++++.+.+++++|+||+||||+||+||+++++|
T Consensus         3 ~ikLIVGLGNPG~~Y~~TRHNiGf~~ld~La~~~~~~~~~~~k~~~~~~~~~~~~~~v~l~kP~TyMN~SG~aV~~~~~~   82 (193)
T 4hoy_A            3 NISLIVGLGNPGSEYAQTRHNAGFWFVEQLADKYGITLKNDPKFHGISGRGNIEGHDVRLLLPMTYMNRSGQSVVPFSKF   82 (193)
T ss_dssp             CCCEEEECCCCSTTTTTBGGGHHHHHHHHHHHHTTCCCEEEGGGTEEEEEEEETTEEEEEEEECSCGGGTHHHHHHHHHH
T ss_pred             CceEEEEcCCCchhhCcCcccHHHHHHHHHHHHcCCCccccccccEEEEEEEECCEEEEEEeCCCccccchhhHHHHHHH
Confidence            4689999999999999999999999999999999999854 578899999999999999999999999999999999999


Q ss_pred             cCCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC--------CCCCCCCCCCccccccccCCHHHHHHHH
Q 028531           96 YKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR--------GIGRPPGQMDPKAFLLQKFNAIARERID  167 (208)
Q Consensus        96 ~ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg--------GIGrP~~~~~v~~yVLs~f~~~E~~~l~  167 (208)
                      |+|+++++||||||||||+|++|+|++||+|||||||||+++||        |||||+++.++++|||++|+++|++.++
T Consensus        83 ~ki~~~~ilVihDdldL~~G~irlk~~G~~gGHNGlkSI~~~lgtdf~RlRiGIGrP~~~~~v~~yVL~~f~~~E~~~l~  162 (193)
T 4hoy_A           83 YQIAPEAILIAHDELDMNPGVIRLKTGGGHGGHNGLRDIVPHIGPNFHRLRIGIGHPGSKERVSGHVLGKAPSNEQSLMD  162 (193)
T ss_dssp             TTCCGGGEEEEEEETTSCTTCEEEEESCCCTTCHHHHTTHHHHCSCSEEEEEECCCCSSGGGHHHHHTSBCCHHHHHHHH
T ss_pred             cCCCchheEEeeeccccccCceeeccCCCCCCcCCccchhhHhccccceEEEeeCCCCCCCCcccccCCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999        9999998888999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHhhchhh
Q 028531          168 TALQEGVEVLKLLLSKGLTESARHFNTIQK  197 (208)
Q Consensus       168 ~~i~~a~~~l~~~~~~~~~~amn~~n~~~~  197 (208)
                      ++++.|+++++.|+++++++|||+||++++
T Consensus       163 ~~i~~a~~~i~~~~~~~~~~amn~~n~~kp  192 (193)
T 4hoy_A          163 GAIDHALSKVKLLVQGQVPQAMNQINAYKP  192 (193)
T ss_dssp             HHHHHHHHTHHHHHTTCHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHhCCCC
Confidence            999999999999999999999999998654

>2z2i_A PTH, peptidyl-tRNA hydrolase; protein synthesis; 1.98A {Mycobacterium tuberculosis} PDB: 2z2j_A 2z2k_A 3tck_A 3tcn_A 3td2_A 3td6_A 2jrc_A 3p2j_A 3kk0_A 3kjz_A

Probab=100.00  E-value=1.4e-74  Score=486.88  Aligned_cols=178  Identities=40%  Similarity=0.766  Sum_probs=160.4

Q ss_pred             CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCc-cccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHh
Q 028531           17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNT-VHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAY   95 (208)
Q Consensus        17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~-~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~   95 (208)
                      .|+|||||||||++|++|||||||+++|+||++++.++.+ .++++.++++.+.+++|+|+||+||||+||+||+++++|
T Consensus         3 ~m~LIvGLGNPG~~Y~~TRHNiGf~viD~La~~~~~~~~~~~k~~~~~~~~~~~g~~v~L~KP~TyMNlSG~aV~~~~~~   82 (191)
T 2z2i_A            3 EPLLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKAHKRSGAEVATGRSAGRSLVLAKPRCYMNESGRQIGPLAKF   82 (191)
T ss_dssp             SCEEEEECCCCSHHHHTBGGGHHHHHHHHHHHHTTCCCEECTTTSSEEEEEEETTEEEEEEECSSCGGGTHHHHHHHHHH
T ss_pred             ccEEEEEECCCCchhccCchHHHHHHHHHHHHHcCCCccccccccEEEEEEEECCeEEEEEcCCchhhcccHHHHHHHHH
Confidence            4789999999999999999999999999999999998865 468899999999999999999999999999999999999


Q ss_pred             cCCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC---------CCCCCCCCCCccccccccCCHHHHHHH
Q 028531           96 YKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARERI  166 (208)
Q Consensus        96 ~ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg---------GIGrP~~~~~v~~yVLs~f~~~E~~~l  166 (208)
                      |+|++++|||||||||||+|++|+|.+||+|||||||||+++||         |||||+++.++++|||++|+++|++.+
T Consensus        83 yki~~~~ilVihDdldlp~G~irlk~gGs~gGHNGlkSI~~~Lgt~~f~RlRiGIGrP~~~~~v~~yVL~~f~~~E~~~l  162 (191)
T 2z2i_A           83 YSVAPANIIVIHDDLDLEFGRIRLKIGGGEGGHNGLRSVVAALGTKDFQRVRIGIGRPPGRKDPAAFVLENFTPAERAEV  162 (191)
T ss_dssp             TTCCGGGEEEEEEETTSCTTCEEEEESCCCTTCHHHHHHHHHHTCSCSEEEEEECCCCCTTSCHHHHHTSBCCHHHHTTH
T ss_pred             hCCCHHHEEEEecccCCCCceEEEecCCCCCCcCCHHHHHHHhCCCCeEEEEEeeCCCCCCCchhhHhcCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999         999996556799999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHhhc
Q 028531          167 DTALQEGVEVLKLLLSKGLTESARHFNT  194 (208)
Q Consensus       167 ~~~i~~a~~~l~~~~~~~~~~amn~~n~  194 (208)
                      +++++.|++|++.|+++++++|||+||+
T Consensus       163 ~~~i~~a~~a~~~~~~~~~~~amn~~n~  190 (191)
T 2z2i_A          163 PTICEQAADATELLIEQGMEPAQNRVHA  190 (191)
T ss_dssp             HHHHHHHHHHHHHHHHC-----------
T ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHhC
Confidence            9999999999999999999999999995

>4fyj_A PTH, peptidyl-tRNA hydrolase; 1.77A {Pseudomonas aeruginosa} PDB: 4fno_A 4djj_A* 4erx_A 4dhw_A

Probab=100.00  E-value=1.1e-73  Score=483.92  Aligned_cols=179  Identities=34%  Similarity=0.587  Sum_probs=171.9

Q ss_pred             CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCc-cccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHh
Q 028531           17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNT-VHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAY   95 (208)
Q Consensus        17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~-~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~   95 (208)
                      ...|||||||||++|++||||||||++|+||++++.++.+ .+|.++++++.+++++++|+||+||||+||+||+++++|
T Consensus         9 ~~~lIvGLGNPG~~Y~~TRHNvGf~vlD~La~~~~~~~~~~~k~~~~~~~~~~~g~~v~LlKP~TyMNlSG~aV~~~~~~   88 (199)
T 4fyj_A            9 AVQLIVGLGNPGPEYDQTRHNAGALFVERLAHAQGVSLVADRKYFGLVGKFSHQGKDVRLLIPTTYMNRSGQSVAALAGF   88 (199)
T ss_dssp             CCCEEEECCCCSGGGTTCGGGHHHHHHHHHHHHTTCCCEEEGGGTEEEEEEEETTEEEEEEEECSCGGGHHHHHHHHHHH
T ss_pred             eeeEEEEeCCCchhhCcCchHHHHHHHHHHHHHcCCCcccccccceEEEEEEECCeEEEEEeCCcchhCChHHHHHHHHH
Confidence            3569999999999999999999999999999999998764 478899999999999999999999999999999999999


Q ss_pred             cCCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC----------CCCCCCCCCCccccccccCCHHHHHH
Q 028531           96 YKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARER  165 (208)
Q Consensus        96 ~ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg----------GIGrP~~~~~v~~yVLs~f~~~E~~~  165 (208)
                      |+|++++|||||||||||+|++|+|++||+|||||||||+++||          |||||+.+.++++|||++|+++|++.
T Consensus        89 yki~~~~ilVihDdldLp~G~irlk~gGs~gGHNGLkSI~~~Lgt~~~f~RlRiGIGrP~~~~~v~~yVL~~f~~~E~~~  168 (199)
T 4fyj_A           89 FRIAPDAILVAHDELDMPPGVAKLKTGGGHGGHNGLRDIIAQLGNQNSFHRLRLGIGHPGHSSLVSGYVLGRAPRSEQEL  168 (199)
T ss_dssp             TTCCGGGEEEEEEETTSCTTCEEEEESCCCTTCHHHHHHHHHHCSSSCCEEEEEECCCCSSGGGHHHHHTSCCCHHHHHH
T ss_pred             hCCCHHHEEEEEecCCCCCceEEEecCCCCCCCCCHHHHHHHhCCccceEEEEEEeCCCCCCCchhhhhccCCCHHHHHH
Confidence            99999999999999999999999999999999999999999999          99999877789999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHhhch
Q 028531          166 IDTALQEGVEVLKLLLSKGLTESARHFNTI  195 (208)
Q Consensus       166 l~~~i~~a~~~l~~~~~~~~~~amn~~n~~  195 (208)
                      |+++++.|++|++.|+++++++|||+||+.
T Consensus       169 l~~~i~~a~~a~~~~~~~~~~~amn~~n~~  198 (199)
T 4fyj_A          169 LDTSIDFALGVLPEMLAGDWTRAMQKLHSQ  198 (199)
T ss_dssp             HHHHHHHHHHTHHHHHHTCHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHCCHHHHHHHHhCC
Confidence            999999999999999999999999999974

>3v2i_A PTH, peptidyl-tRNA hydrolase; ssgcid, seattle structural genomics center for infectious DI RNA; HET: CIT; 1.65A {Burkholderia thailandensis E264}

Probab=100.00  E-value=6.7e-73  Score=485.65  Aligned_cols=179  Identities=34%  Similarity=0.600  Sum_probs=167.0

Q ss_pred             CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCcc-ccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHh
Q 028531           17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTV-HCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAY   95 (208)
Q Consensus        17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~-k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~   95 (208)
                      .+||||||||||++|++|||||||+++|+||++++.++.+. +|.++++++.+.+++|+|+||+||||+||++|+++++|
T Consensus        22 ~~~LIVGLGNPG~~Y~~TRHNiGf~vvD~La~~~~~~~~~~~kf~~~~~~~~~~g~~v~LlKP~TyMNlSG~aV~~~~~~  101 (222)
T 3v2i_A           22 MIKLIVGLGNPGAEYTATRHNAGFWLVDQLAREAGATLRDERRFHGFYAKARLYGEEVHLLEPQTYMNRSGQSVVALAHF  101 (222)
T ss_dssp             CCCEEEECCCCSGGGTTSGGGHHHHHHHHHHHHHTCCCEEEGGGTEEEEEEEETTEEEEEEEECSCGGGHHHHHHHHHHH
T ss_pred             eEEEEEEeCCCchhhCcCchHHHHHHHHHHHHHcCCCcccccccceEEEEEEECCeEEEEEeCCcchhcccHHHHHHHHH
Confidence            46899999999999999999999999999999999997654 68899999999999999999999999999999999999


Q ss_pred             cCCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC---------CCCCC----------CCCCCccccccc
Q 028531           96 YKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRP----------PGQMDPKAFLLQ  156 (208)
Q Consensus        96 ~ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg---------GIGrP----------~~~~~v~~yVLs  156 (208)
                      |+|++++|||||||||||+|++|+|.+||+|||||||||+++||         |||||          +.+.++++|||+
T Consensus       102 yki~~e~ilVihDdLDLp~G~iRlk~gGs~gGHNGLKSI~~~Lgt~~f~RlRIGIGrP~~~~p~~~~~~~~~~v~~yVL~  181 (222)
T 3v2i_A          102 FKILPNEILVAHDELDLPPGAVKLKLGGGSGGHNGLKDISAHLSSQQYWRLRIGIGHPRDMIPESARAGAKPDVANFVLK  181 (222)
T ss_dssp             HTCCGGGEEEEEEETTSCTTCEEEEECCCCTTCHHHHHHHHHHTCCCSEEEEEECCCTTTTCC---------CHHHHTTS
T ss_pred             hCCCHHHEEEEEecCCCCCceEEEeCCCCCCCCCCHHHHHHHhCCCCeEEEEEEcCCCcccccccccCCCCCcHHHHhcc
Confidence            99999999999999999999999999999999999999999999         99999          555689999999


Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHhhch
Q 028531          157 KFNAIARERIDTALQEGVEVLKLLLSKGLTESARHFNTI  195 (208)
Q Consensus       157 ~f~~~E~~~l~~~i~~a~~~l~~~~~~~~~~amn~~n~~  195 (208)
                      +|+++|++.|+++++.|+++++.|+++++++|||+||+.
T Consensus       182 ~fs~~E~~~l~~~i~~a~~av~~~~~~~~~~amn~~n~~  220 (222)
T 3v2i_A          182 PPRKEEQDVIDAAIERALAVMPAVVKGETERAMMQLHRN  220 (222)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHC---
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHhCC
Confidence            999999999999999999999999999999999999975

>3nea_A PTH, peptidyl-tRNA hydrolase; 2.25A {Francisella tularensis subsp}

Probab=100.00  E-value=2.3e-73  Score=484.19  Aligned_cols=176  Identities=31%  Similarity=0.573  Sum_probs=170.0

Q ss_pred             CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCcc-ccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHh
Q 028531           17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTV-HCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAY   95 (208)
Q Consensus        17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~-k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~   95 (208)
                      .|+|||||||||++|++|||||||+++|+||++++.++.+. +|.++++++.+.+++++|+||+||||+||+||+++++|
T Consensus        22 ~~~LIVGLGNPG~~Y~~TRHNvGf~vvD~La~~~~~~~~~~~k~~~~~~~~~~~g~~v~LlKP~TyMNlSG~aV~~~~~~  101 (207)
T 3nea_A           22 KIKMIIGLGNIGKEYQDTRHNVGEWFIAKIAQDNNQSFSSNPKLNCNLAKVSIDYNNVVLVFPTTYMNNSGLAVSKVANF  101 (207)
T ss_dssp             CCCEEEECCCCSTTTTTSGGGHHHHHHHHHHHHTTCCCEEEGGGTEEEEEEEETTEEEEEEEESSCGGGHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCchhhCcCchHHHHHHHHHHHHHcCCCccccccccEEEEEEEECCeEEEEEeCCcchhCCcHHHHHHHHH
Confidence            58999999999999999999999999999999999998765 78899999999999999999999999999999999999


Q ss_pred             cCCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC---------CCCCCCCCCCccccccccCCHHHHHHH
Q 028531           96 YKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARERI  166 (208)
Q Consensus        96 ~ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg---------GIGrP~~~~~v~~yVLs~f~~~E~~~l  166 (208)
                      |+|++++|||||||||||+|++|+|++||+|||||||||+++||         |||||+.+.++++|||++|+++|++.|
T Consensus       102 yki~~e~ilVihDdLDLp~G~iRlk~gGs~gGHNGLkSIi~~Lgt~~f~RlRiGIGrP~~~~~v~~yVL~~fs~~E~~~l  181 (207)
T 3nea_A          102 YKIAPAEILVVHDELDIDSGEIRLKKGGGHGGHNGLRSINQHLGTNDYLRLRIGIGHPGHKSKVANYVLSNPSIAQKKDI  181 (207)
T ss_dssp             HTCCGGGEEEEEEETTSCTTCEEEEESCCCTTCHHHHHHHHHHTCCCSEEEEEECCCCSSGGGHHHHHTSCCCHHHHHHH
T ss_pred             hCCCHHHEEEEEEcCCCCCceEEEecCCCCCCCCCHHHHHHHhCCCCeeEEEEEeCCCCCCCchHHHhccCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999         999998777899999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHh
Q 028531          167 DTALQEGVEVLKLLLSKGLTESARHF  192 (208)
Q Consensus       167 ~~~i~~a~~~l~~~~~~~~~~amn~~  192 (208)
                      +++++.|++|++.|+++++++|||++
T Consensus       182 ~~~i~~a~~a~~~~~~~~~~~amn~~  207 (207)
T 3nea_A          182 DSAIDNGICFLDDIINYKLEPVMQKL  207 (207)
T ss_dssp             HHHHHHHHHTHHHHHTTCCCSCSTTC
T ss_pred             HHHHHHHHHHHHHHHHCCHHHHHhcC
Confidence            99999999999999999999999874

>4fno_A PTH, peptidyl-tRNA hydrolase; 2.25A {Pseudomonas aeruginosa} PDB: 4djj_A* 4erx_A 4dhw_A

Probab=100.00  E-value=1.9e-74  Score=486.94  Aligned_cols=179  Identities=34%  Similarity=0.586  Sum_probs=170.1

Q ss_pred             CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCC-ccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHh
Q 028531           17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMN-TVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAY   95 (208)
Q Consensus        17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~-~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~   95 (208)
                      +|+|||||||||++|++|||||||+++|+||++++.++. +.+|.+.++++.+.+++|+|+||+||||+||+||+++++|
T Consensus         3 mm~LIvGLGNPG~~Y~~TRHNiGf~viD~La~~~~~~~~~~~k~~~~~~~~~~~g~~v~LlKP~TyMNlSG~aV~~~~~f   82 (194)
T 4fno_A            3 AVQLIVGLGNPGPEYDQTRHNAGALFVERLAHAQGVSLVADRKYFGLVGKFSHQGKDVRLLIPTTYMNRSGQSVAALAGF   82 (194)
Confidence            368999999999999999999999999999999999876 4578889998888899999999999999999999999999


Q ss_pred             cCCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC----------CCCCCCCCCCccccccccCCHHHHHH
Q 028531           96 YKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARER  165 (208)
Q Consensus        96 ~ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg----------GIGrP~~~~~v~~yVLs~f~~~E~~~  165 (208)
                      |+|++++|||||||||||+|++|+|.+||+|||||||||+++||          |||||+++.++++|||++|+++|++.
T Consensus        83 yki~~~~ilVihDdldLp~G~irlk~gGs~gGHNGLkSI~~~Lgt~~~f~RlRiGIGrP~~~~~v~~yVL~~f~~~E~~~  162 (194)
T 4fno_A           83 FRIAPDAILVAHDELDMPPGVAKLKTGGGHGGHNGLRDIIAQLGNQNSFHRLRLGIGHPGHSSLVSGYVLGRAPRSEQEL  162 (194)
Confidence            99999999999999999999999999999999999999999998          99999655579999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHhhch
Q 028531          166 IDTALQEGVEVLKLLLSKGLTESARHFNTI  195 (208)
Q Consensus       166 l~~~i~~a~~~l~~~~~~~~~~amn~~n~~  195 (208)
                      |+++++.|++|++.|+++++++|||+||..
T Consensus       163 l~~~i~~a~~a~~~~~~~~~~~amn~~n~~  192 (194)
T 4fno_A          163 LDTSIDFALGVLPEMLAGDWTRAMQKLHSQ  192 (194)
Confidence            999999999999999999999999999973

---

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	208
d1ryba_	191	c.56.3.1 (A:) Chloroplast group II intron splicing	3e-52
d2ptha_	193	c.56.3.1 (A:) Peptidyl-tRNA hydrolase {Escherichia	3e-44

>d1ryba_ c.56.3.1 (A:) Chloroplast group II intron splicing factor Crs2 {Maize (Zea mays) [TaxId: 4577]} Length = 191

class: Alpha and beta proteins (a/b)
fold: Phosphorylase/hydrolase-like
superfamily: Peptidyl-tRNA hydrolase-like
family: Peptidyl-tRNA hydrolase-like
domain: Chloroplast group II intron splicing factor Crs2
species: Maize (Zea mays) [TaxId: 4577]

 Score =  164 bits (416), Expect = 3e-52
 Identities = 103/189 (54%), Positives = 137/189 (72%), Gaps = 10/189 (5%)

Query: 18  PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
           PWL  GLGNPG+KY GTRHNVGFEM+D  A  +GI+MNT+  K+  G G +G+ PVL+ K
Sbjct: 3   PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVK 62

Query: 78  PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNN 137
           PQ+YMN SGE+ GPLAAYY++PL  +L+ +DD  LP GVLRL+  GGHG HNGL++V+ +
Sbjct: 63  PQSYMNYSGEAIGPLAAYYQVPLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEH 122

Query: 138 FR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
                       GIG PPG+MDP+AFLLQKF++  R +IDTAL++GV+ ++ L+ KG + 
Sbjct: 123 LDGRREFPRLSIGIGSPPGKMDPRAFLLQKFSSEERVQIDTALEQGVDAVRTLVLKGFSG 182

Query: 188 SARHFNTIQ 196
           S   FN +Q
Sbjct: 183 STERFNLVQ 191

>d2ptha_ c.56.3.1 (A:) Peptidyl-tRNA hydrolase {Escherichia coli [TaxId: 562]} Length = 193

class: Alpha and beta proteins (a/b)
fold: Phosphorylase/hydrolase-like
superfamily: Peptidyl-tRNA hydrolase-like
family: Peptidyl-tRNA hydrolase-like
domain: Peptidyl-tRNA hydrolase
species: Escherichia coli [TaxId: 562]

 Score =  143 bits (363), Expect = 3e-44
 Identities = 59/185 (31%), Positives = 93/185 (50%), Gaps = 11/185 (5%)

Query: 20  LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVH-CKATFGQGFVGDAPVLLAKP 78
           L VGL NPG +Y  TRHN G   +D  AE     +           +  +G   V L  P
Sbjct: 4   LIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLREEAKFFGYTSRVTLGGEDVRLLVP 63

Query: 79  QTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNF 138
            T+MNLSG++   +A+++++  + +LV HD++ LP GV + +  GGHGGHNGLK +++  
Sbjct: 64  TTFMNLSGKAVAAMASFFRINPDEILVAHDELDLPPGVAKFKLGGGHGGHNGLKDIISKL 123

Query: 139 R----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTES 188
                      GIG P  +     F+L K     ++ ID A+ E     ++  + GLT++
Sbjct: 124 GNNPNFHRLRIGIGHPGDKNKVVGFVLGKPPVSEQKLIDEAIDEAARCTEMWFTDGLTKA 183

Query: 189 ARHFN 193
               +
Sbjct: 184 TNRLH 188

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	208
d1ryba_	191	Chloroplast group II intron splicing factor Crs2 {	100.0
d2ptha_	193	Peptidyl-tRNA hydrolase {Escherichia coli [TaxId:	100.0

>d1ryba_ c.56.3.1 (A:) Chloroplast group II intron splicing factor Crs2 {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: Phosphorylase/hydrolase-like
superfamily: Peptidyl-tRNA hydrolase-like
family: Peptidyl-tRNA hydrolase-like
domain: Chloroplast group II intron splicing factor Crs2
species: Maize (Zea mays) [TaxId: 4577]

Probab=100.00  E-value=4.6e-71  Score=463.37  Aligned_cols=179  Identities=57%  Similarity=1.069  Sum_probs=167.8

Q ss_pred             CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhc
Q 028531           17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYY   96 (208)
Q Consensus        17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~   96 (208)
                      .+||||||||||++|++|||||||+++|.||++++.+++..++.+.++...+++++++|+||+||||+||++|++++++|
T Consensus         2 ~p~LIvGLGNPG~~Y~~TRHNiG~~~ld~la~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~tyMN~SG~av~~~~~~~   81 (191)
T d1ryba_           2 TPWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVKPQSYMNYSGEAIGPLAAYY   81 (191)
T ss_dssp             CCEEEEECCCCSGGGTTBGGGHHHHHHHHHHHHTTCCCCEEETTEEEEEEEETTEEEEEEEECSCGGGHHHHHHHHHHHT
T ss_pred             CceEEEEcCCCCccccCCccHHHHHHHHHHHHHcCCCcccccccceEEEEeccCceEEEEecCcccccccHHHHHHHHhh
Confidence            36999999999999999999999999999999999998888888999999999999999999999999999999999999


Q ss_pred             CCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC----------CCCCCCCCCCccccccccCCHHHHHHH
Q 028531           97 KLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARERI  166 (208)
Q Consensus        97 ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg----------GIGrP~~~~~v~~yVLs~f~~~E~~~l  166 (208)
                      ++++++|||||||+|||+|++|+|.+||+|||||||||+++|+          |||||+++.++++|||++|+++|++.+
T Consensus        82 ~i~~~~ilVihDDldl~~G~irlk~~Gs~gGHNGlkSIi~~L~gt~~f~RlriGIg~p~~~~~~~~~VL~~f~~~E~~~l  161 (191)
T d1ryba_          82 QVPLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEHLDGRREFPRLSIGIGSPPGKMDPRAFLLQKFSSEERVQI  161 (191)
T ss_dssp             TCCGGGEEEEEEETTSCTTCEEEESSCCCTTCHHHHHHHHHTTTCCCSCEEEEECCCCSTTCCHHHHHTSBCCHHHHHHH
T ss_pred             ccCcceeEEEEcccccccCceeeccCCCCCcCcchhhHHHHhCCchheEEEeecCCCCcccCCcccccCCCCCHHHHHHH
Confidence            9999999999999999999999999999999999999999994          999998878999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHhhch
Q 028531          167 DTALQEGVEVLKLLLSKGLTESARHFNTI  195 (208)
Q Consensus       167 ~~~i~~a~~~l~~~~~~~~~~amn~~n~~  195 (208)
                      +++++.++++++.|+++++++|||+||..
T Consensus       162 ~~~~~~~~~~~~~~i~~~~~~~mn~~N~~  190 (191)
T d1ryba_         162 DTALEQGVDAVRTLVLKGFSGSTERFNLV  190 (191)
T ss_dssp             HHHHHHHHHHHHHHHHHC-----CCCCCC
T ss_pred             HHHHHHHHHHHHHHHHcCHHHHHHHhhCC
Confidence            99999999999999999999999999973

>d2ptha_ c.56.3.1 (A:) Peptidyl-tRNA hydrolase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Phosphorylase/hydrolase-like
superfamily: Peptidyl-tRNA hydrolase-like
family: Peptidyl-tRNA hydrolase-like
domain: Peptidyl-tRNA hydrolase
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.6e-70  Score=460.55  Aligned_cols=181  Identities=33%  Similarity=0.596  Sum_probs=172.4

Q ss_pred             CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCc-cccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHh
Q 028531           17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNT-VHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAY   95 (208)
Q Consensus        17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~-~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~   95 (208)
                      .|+|||||||||++|++|||||||+++|.||++++.++.. .++.+.++...+.+.+++|+||+||||+||++|++++++
T Consensus         1 ~mklivGLGNPG~~Y~~TRHNiG~~~ld~la~~~~~~~~~~~~~~~~~~~~~~~~~~v~l~kP~tyMN~SG~~v~~~~~~   80 (193)
T d2ptha_           1 TIKLIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLREEAKFFGYTSRVTLGGEDVRLLVPTTFMNLSGKAVAAMASF   80 (193)
T ss_dssp             CCCEEEECCCCSTTTTTSGGGHHHHHHHHHHHHHTCCCEEEGGGTEEEEEEEETTEEEEEEEECSCGGGTHHHHHHHHHH
T ss_pred             CEEEEEECCCCchhhCcCchHHHHHHHHHHHHHcCCCcccccccceeeeeeeecCceEEEEecceeccccchhHHHHHHH
Confidence            3789999999999999999999999999999999998764 457788888889999999999999999999999999999


Q ss_pred             cCCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC----------CCCCCCCCCCccccccccCCHHHHHH
Q 028531           96 YKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARER  165 (208)
Q Consensus        96 ~ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg----------GIGrP~~~~~v~~yVLs~f~~~E~~~  165 (208)
                      |++++++++|||||+|+|+|++|+|++||+|||||||||+++||          |||||+.+.++++|||++|+++|++.
T Consensus        81 ~~i~~~~ilVihDDldl~~G~irlk~~Gs~gGHNGlkSI~~~LG~~~~f~RlriGIG~P~~~~~v~~yVL~~fs~~E~~~  160 (193)
T d2ptha_          81 FRINPDEILVAHDELDLPPGVAKFKLGGGHGGHNGLKDIISKLGNNPNFHRLRIGIGHPGDKNKVVGFVLGKPPVSEQKL  160 (193)
T ss_dssp             HTCCGGGEEEEEEETTSCTTCEEEEESCCCTTCHHHHHHHHHTTSCCCSEEEEEECCCCSSHHHHHHHHTSCCCHHHHHH
T ss_pred             hCCCHHHeEEEecchhccCCCcccccCCCccccccHHHHHHHhhcccchheeeeeccCCcccCCccceeCCCCCHHHHHH
Confidence            99999999999999999999999999999999999999999998          99999877789999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHhhchhh
Q 028531          166 IDTALQEGVEVLKLLLSKGLTESARHFNTIQK  197 (208)
Q Consensus       166 l~~~i~~a~~~l~~~~~~~~~~amn~~n~~~~  197 (208)
                      ++++++.++++++.|+++++++|||+||+.+.
T Consensus       161 l~~~i~~~~~~i~~~i~~g~~~amn~~N~~k~  192 (193)
T d2ptha_         161 IDEAIDEAARCTEMWFTDGLTKATNRLHAFKA  192 (193)
T ss_dssp             HHHHHHHHHHHHHHHHHHCHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHCCHHHHHHHHhCcCC
Confidence            99999999999999999999999999998654