Citrus Sinensis ID: 030503

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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------
Protein Sequence
MKFANTLTASISAVRFPNIHHSIRFPLKHSPLCCWGRRTRMSRSPSNSTIRNFSSSISNEESLVSPKPKQQQQHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLVRQNIFILFYRYSMT
Secondary Structure (PSIPRED)
ccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccccccccHHHHHHHHHHHHHccccccccEEEEEEEEEEccEEEEEEccccccccccHHHHHHHHHcccccccEEEEEEccccccccccc
Secondary Structure Prediction (SSPRO)
cccHcHHHHHHHHEcccccccEEEcccccccccccccccccccccccccEEEcccEEEEcccccccccccccccEEEEEEcccccccccccHHHHHHHHHHHHHHHcccccccHHEEEEEEEEEEcccEEEEEccccHccccHHHHHHHHHHccccHccEEEEEEccccccEEEEc
Coil and Loop (DISEMBL)
mkfantltasisavrfpnihhsirfplkhsplccwgrrtrmsrspsnstiRNFSSsisneeslvspkpkqqqqhpwlivglgnpgkqyngtrhnvgFEMVDAIAEAegisvssvnfkahfgkgfignvpvmlakpqtfmnasgqsvGSIVSYYKIPLKQVLVRQNIFILFYRYSMT
Flexible Loop (DISEMBL)
MKFANTltasisavrfpnihhsirfplkhsplccwgrrtrmsrspsnstIRNFSSSISNEESLVSPKPKQQQQHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLVRQNIFILFYRYSMT
Low Complexity Region (SEG)
MKFANTLTASISAVRFPNIHHSIRFPLKHSPLCCWGRRTRMSRSPSNSTIRNFsssisneeslvsPKPKQQQQHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLVRQNIFILFYRYSMT
Disordered region (IsUnstruct)
******LTASISAVRFPNIHHSIRFPLKHSPLCCWGR*************************************PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLVRQNIFILFYRY***
Disordered Region (DISOPRED)
********ASISAVRFPNIHHSIRFPLKHSPLC******************************************WLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLVRQNIFILFYRYSMT
Disordered Region (DISEMBL)
MKFANTLTASISAVRFPNIHHSIRFPLKHSPLCCWGRRTRM********************************HPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLVRQNIFILFYRYSMT
Disordered Region (DISPRO)
*K***TLTASISAVRFPNIHHSIRFPLKHSPLCCWGRRTRMSRSPSNSTIRNFSSSISNEESLVSPKPKQQQQHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLVRQNIFILFYRYSMT
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKFANTLTASISAVRFPNIHHSIRFPLKHSPLCCWGRRTRMSRSPSNSTIRNFSSSISNEESLVSPKPKQQQQHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLVRQNIFILFYRYSMT
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	176	2.2.26 [Sep-21-2011]
Q8GW64	288	Peptidyl-tRNA hydrolase,	yes	no	0.579	0.354	0.766	2e-40
Q5N9Q7	250	Peptidyl-tRNA hydrolase,	yes	no	0.5	0.352	0.784	8e-36
Q6NLS8	219	Peptidyl-tRNA hydrolase,	no	no	0.5	0.401	0.613	3e-29
Q5ZCL8	259	Chloroplastic group IIB i	no	no	0.75	0.509	0.443	2e-28
Q10LI6	186	CRS2-like protein, chloro	no	no	0.505	0.478	0.606	5e-28
Q9LF14	240	Chloroplastic group IIB i	no	no	0.5	0.366	0.590	1e-27
Q9M5P4	256	Chloroplastic group IIB i	N/A	no	0.573	0.394	0.504	2e-26
Q9FKN4	246	Chloroplastic group IIB i	no	no	0.5	0.357	0.579	5e-26
Q8R757	185	Peptidyl-tRNA hydrolase O	yes	no	0.494	0.470	0.528	2e-21
A6TJM7	185	Peptidyl-tRNA hydrolase O	yes	no	0.494	0.470	0.517	3e-21

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

 Score =  164 bits (415), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 79/103 (76%), Positives = 91/103 (88%), Gaps = 1/103 (0%)

Query: 61  ESLVSPKPKQQQ-QHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAH 119
           ++L S KPK    Q PWLIVGLGNPGK+Y GTRHNVGFEMVDA+A+AEGIS+++VNFKA 
Sbjct: 79  QALPSSKPKSPPLQLPWLIVGLGNPGKKYQGTRHNVGFEMVDALADAEGISMNTVNFKAL 138

Query: 120 FGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           FGKG IGN+P+MLAKPQTFMN SG+SVG IVS+YKIPLKQVLV
Sbjct: 139 FGKGVIGNIPIMLAKPQTFMNLSGESVGQIVSFYKIPLKQVLV 181

The natural substrate for this enzyme may be peptidyl-tRNAs which drop off the ribosome during protein synthesis.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: 1EC: .EC: 2EC: 9

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

 Score =  149 bits (376), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 69/88 (78%), Positives = 77/88 (87%)

Query: 75  PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAK 134
           PWL VGLGNPGK Y GTRHNVGFEM+D IAEAEGIS+SS+ FKA  GKG IG+ P+MLAK
Sbjct: 55  PWLFVGLGNPGKVYQGTRHNVGFEMIDVIAEAEGISLSSMQFKAMVGKGRIGDAPIMLAK 114

Query: 135 PQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           PQTFMNASG+SVG +VSY+KIPL QVLV
Sbjct: 115 PQTFMNASGESVGQLVSYFKIPLNQVLV 142

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

 Score =  127 bits (320), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 54/88 (61%), Positives = 72/88 (81%)

Query: 75  PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAK 134
           PWL +GLGNPG +Y GTRHN+GFEM+D  AE+ GI ++ VNFKA  G+GF+ ++PV+LAK
Sbjct: 18  PWLFLGLGNPGDKYKGTRHNIGFEMIDVFAESVGIQMNLVNFKAIMGQGFVADLPVILAK 77

Query: 135 PQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           PQT+MN SG+S G + +YYK+PL +VLV
Sbjct: 78  PQTYMNLSGESSGPLAAYYKLPLNRVLV 105

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: 3

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 2

EC: 9

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

 Score =  125 bits (313), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 59/133 (44%), Positives = 87/133 (65%), Gaps = 1/133 (0%)

Query: 30  SPLCCWGRRTRMSRSPSNSTIRNFSSSISNEESLVSPKPKQQQQHPWLIVGLGNPGKQYN 89
           SP  C  RR  +S + +          I+   S+  P  +  +  PWLI GLGNPG +Y+
Sbjct: 20  SPEPCRRRRLLLS-AAAPLRRTRLRRRIAVVASVPDPAARPAEYTPWLIAGLGNPGSKYH 78

Query: 90  GTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSI 149
           GTRHNVGFEMVD IA  EGI+++++  K+  G G IG VPV+L KPQ+++N SG+++G +
Sbjct: 79  GTRHNVGFEMVDRIARDEGITMNTIQSKSLLGIGSIGEVPVLLVKPQSYINYSGEAIGPL 138

Query: 150 VSYYKIPLKQVLV 162
            +YY++PL+ +LV
Sbjct: 139 AAYYQVPLRHILV 151

Required for the splicing of group IIB introns in chloroplasts.

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score =  123 bits (309), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 54/89 (60%), Positives = 73/89 (82%)

Query: 74  HPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLA 133
           +PWL VGLGNPG++Y  TRHNVGF+M+D  A+++GIS++   FKA FG+G +  VPV+LA
Sbjct: 59  NPWLFVGLGNPGEKYQCTRHNVGFDMIDMFAQSQGISLTRHPFKALFGEGMVEGVPVLLA 118

Query: 134 KPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           KPQT+MN SG+SVG + +YYK+PL +VLV
Sbjct: 119 KPQTYMNLSGESVGPLAAYYKLPLNRVLV 147

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score =  122 bits (307), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 52/88 (59%), Positives = 73/88 (82%)

Query: 75  PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAK 134
           PWLIVGLGNPG +Y+GTRHNVGFEM+D +A  EG+ ++++  KA  G G I +VP++LAK
Sbjct: 45  PWLIVGLGNPGNKYHGTRHNVGFEMIDVLARKEGVLMNTIQSKALIGIGAIEDVPILLAK 104

Query: 135 PQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           PQT+MN SG+SVGS+ S+Y++PL+ +L+
Sbjct: 105 PQTYMNFSGESVGSLASHYRVPLRHILM 132

Required for the splicing of group IIB introns in chloroplasts.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  118 bits (296), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 51/101 (50%), Positives = 74/101 (73%)

Query: 62  SLVSPKPKQQQQHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFG 121
           S+  P     +  PWLI GLGNPG +Y GTRHNVGFEMVD IA  EGI+++++  K+  G
Sbjct: 48  SVPDPAAGPVEYTPWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLG 107

Query: 122 KGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
            G IG VPV++ KPQ++MN SG+++G + +YY++PL+ +L+
Sbjct: 108 IGSIGEVPVLVVKPQSYMNYSGEAIGPLAAYYQVPLRHILL 148

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

 Score =  117 bits (292), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 51/88 (57%), Positives = 69/88 (78%)

Query: 75  PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAK 134
           PWLIVGLGNPG +Y GTRHN+GFEM+D IA A  IS++++  KA  G G +G VP++L K
Sbjct: 51  PWLIVGLGNPGLKYYGTRHNIGFEMIDHIARATDISMNTIQSKALVGIGSVGEVPILLVK 110

Query: 135 PQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           PQ +MN SG+SVG + +YY+IPL+ +L+
Sbjct: 111 PQGYMNFSGESVGPLAAYYQIPLRHILM 138

Required for the splicing of group IIB introns in chloroplasts.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8R757|PTH_THETN Peptidyl-tRNA hydrolase OS=Thermoanaerobacter tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4) GN=pth PE=3 SV=1

 Score =  102 bits (253), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 46/87 (52%), Positives = 65/87 (74%)

Query: 76  WLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKP 135
           ++I GLGNPGK+Y GTRHNVGF ++DA+++  GI VS + FK+  G+G      V+L KP
Sbjct: 2   YIIAGLGNPGKEYEGTRHNVGFMVIDALSKKLGIEVSRLKFKSLMGEGHFKGEKVILLKP 61

Query: 136 QTFMNASGQSVGSIVSYYKIPLKQVLV 162
           QTFMN SG+++   V++YKIPL+ V+V
Sbjct: 62  QTFMNLSGEALYDAVNFYKIPLENVIV 88

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

Thermoanaerobacter tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4) (taxid: 273068)

EC: 3

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 2

EC: 9

>sp|A6TJM7|PTH_ALKMQ Peptidyl-tRNA hydrolase OS=Alkaliphilus metalliredigens (strain QYMF) GN=pth PE=3 SV=1

 Score =  100 bits (250), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 45/87 (51%), Positives = 67/87 (77%)

Query: 76  WLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKP 135
           ++IVGLGNPGK+Y+GTRHNVGF+++D +A   GI+V+ +  KA +G+  IG   V+LAKP
Sbjct: 2   YIIVGLGNPGKKYSGTRHNVGFDVIDLLAHRLGITVNKLKHKALYGEARIGGEKVILAKP 61

Query: 136 QTFMNASGQSVGSIVSYYKIPLKQVLV 162
           QTFMN SG+S+  ++ +YKI  + ++V
Sbjct: 62  QTFMNLSGESIREMMQFYKIDPENLIV 88

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

Alkaliphilus metalliredigens (strain QYMF) (taxid: 293826)

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	176
297734182	307	unnamed protein product [Vitis vinifera]	0.755	0.433	0.617	6e-43
224118918	271	predicted protein [Populus trichocarpa]	0.585	0.380	0.761	1e-40
225455878	205	PREDICTED: peptidyl-tRNA hydrolase, chlo	0.534	0.458	0.836	2e-40
357521083	258	Peptidyl-tRNA hydrolase [Medicago trunca	0.545	0.372	0.836	7e-40
388522905	258	unknown [Medicago truncatula]	0.545	0.372	0.826	3e-39
30685853	288	Peptidyl-tRNA hydrolase [Arabidopsis tha	0.579	0.354	0.766	1e-38
26453108	288	unknown protein [Arabidopsis thaliana] g	0.579	0.354	0.757	3e-38
58743494	291	Putative Putative Pepidyl-tRNA hydrolase	0.494	0.298	0.850	1e-37
449486844	273	PREDICTED: peptidyl-tRNA hydrolase, chlo	0.494	0.318	0.862	1e-37
449439389	274	PREDICTED: peptidyl-tRNA hydrolase, chlo	0.494	0.317	0.862	2e-37

>gi|297734182|emb|CBI15429.3| unnamed protein product [Vitis vinifera]

 Score =  178 bits (452), Expect = 6e-43,   Method: Compositional matrix adjust.
 Identities = 97/157 (61%), Positives = 115/157 (73%), Gaps = 24/157 (15%)

Query: 6   TLTASISAVRFPNIHHSIRFPLKHSPLCCWGRRTRMSRSPSNSTIRNFSSSISNEESLVS 65
           +L++SI+A+RFPN   S+ F                    S+ T+  FSS  +      S
Sbjct: 67  SLSSSIAALRFPNWPRSLSF--------------------SSRTLIPFSSLSTPTPMDSS 106

Query: 66  PKPKQQQQHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFI 125
           P+P +    PWL+VGLGNPGK+YNGTRHNVGFEMVDAIAEAEGIS+SSV+FK+ FGKGFI
Sbjct: 107 PRPVK----PWLLVGLGNPGKKYNGTRHNVGFEMVDAIAEAEGISISSVSFKSLFGKGFI 162

Query: 126 GNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           GNVPVMLAKPQTFMN SG+SVG+IVSYYKIPLKQVLV
Sbjct: 163 GNVPVMLAKPQTFMNVSGESVGAIVSYYKIPLKQVLV 199

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224118918|ref|XP_002317938.1| predicted protein [Populus trichocarpa] gi|222858611|gb|EEE96158.1| predicted protein [Populus trichocarpa]

 Score =  171 bits (432), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 80/105 (76%), Positives = 95/105 (90%), Gaps = 2/105 (1%)

Query: 58  SNEESLVSPKPKQQQQHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFK 117
            + +++ + KPKQQ  HPWLIVGLGNPGK+Y+ TRHNVGF+MVDA+A+AEGIS+S V+FK
Sbjct: 62  DSSDAVAAAKPKQQ--HPWLIVGLGNPGKKYHSTRHNVGFQMVDALADAEGISISGVSFK 119

Query: 118 AHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           A FGKGFIGNVPVM AKPQTFMNASG+SVG+IVSYYKIPLKQVL+
Sbjct: 120 ALFGKGFIGNVPVMFAKPQTFMNASGESVGAIVSYYKIPLKQVLL 164

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225455878|ref|XP_002275254.1| PREDICTED: peptidyl-tRNA hydrolase, chloroplastic-like [Vitis vinifera]

 Score =  170 bits (431), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 82/98 (83%), Positives = 91/98 (92%), Gaps = 4/98 (4%)

Query: 65  SPKPKQQQQHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGF 124
           SP+P +    PWL+VGLGNPGK+YNGTRHNVGFEMVDAIAEAEGIS+SSV+FK+ FGKGF
Sbjct: 4   SPRPVK----PWLLVGLGNPGKKYNGTRHNVGFEMVDAIAEAEGISISSVSFKSLFGKGF 59

Query: 125 IGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           IGNVPVMLAKPQTFMN SG+SVG+IVSYYKIPLKQVLV
Sbjct: 60  IGNVPVMLAKPQTFMNVSGESVGAIVSYYKIPLKQVLV 97

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357521083|ref|XP_003630830.1| Peptidyl-tRNA hydrolase [Medicago truncatula] gi|355524852|gb|AET05306.1| Peptidyl-tRNA hydrolase [Medicago truncatula]

 Score =  168 bits (426), Expect = 7e-40,   Method: Compositional matrix adjust.
 Identities = 82/98 (83%), Positives = 92/98 (93%), Gaps = 2/98 (2%)

Query: 65  SPKPKQQQQHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGF 124
           S KPKQ +  PWLIVGLGNPGK++NGTRHNVGFEMVDAIAEAEGIS+SSV+FKA FGKG+
Sbjct: 56  STKPKQNE--PWLIVGLGNPGKKFNGTRHNVGFEMVDAIAEAEGISMSSVSFKALFGKGY 113

Query: 125 IGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           IG+VPV+LAKPQTFMN SG+SVG+IVSYYKIPLKQVLV
Sbjct: 114 IGDVPVILAKPQTFMNLSGESVGAIVSYYKIPLKQVLV 151

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388522905|gb|AFK49514.1| unknown [Medicago truncatula]

 Score =  166 bits (421), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 81/98 (82%), Positives = 91/98 (92%), Gaps = 2/98 (2%)

Query: 65  SPKPKQQQQHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGF 124
           S KPKQ +  PWLIVGLGNPGK++NGTRHNVGFEMVD IAEAEGIS+SSV+FKA FGKG+
Sbjct: 56  STKPKQNE--PWLIVGLGNPGKKFNGTRHNVGFEMVDTIAEAEGISMSSVSFKALFGKGY 113

Query: 125 IGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           IG+VPV+LAKPQTFMN SG+SVG+IVSYYKIPLKQVLV
Sbjct: 114 IGDVPVILAKPQTFMNLSGESVGAIVSYYKIPLKQVLV 151

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30685853|ref|NP_173279.2| Peptidyl-tRNA hydrolase [Arabidopsis thaliana] gi|134035412|sp|Q8GW64.2|PTHC_ARATH RecName: Full=Peptidyl-tRNA hydrolase, chloroplastic; AltName: Full=C-PTH; Flags: Precursor gi|332191593|gb|AEE29714.1| Peptidyl-tRNA hydrolase [Arabidopsis thaliana]

 Score =  164 bits (415), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 79/103 (76%), Positives = 91/103 (88%), Gaps = 1/103 (0%)

Query: 61  ESLVSPKPKQQQ-QHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAH 119
           ++L S KPK    Q PWLIVGLGNPGK+Y GTRHNVGFEMVDA+A+AEGIS+++VNFKA 
Sbjct: 79  QALPSSKPKSPPLQLPWLIVGLGNPGKKYQGTRHNVGFEMVDALADAEGISMNTVNFKAL 138

Query: 120 FGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           FGKG IGN+P+MLAKPQTFMN SG+SVG IVS+YKIPLKQVLV
Sbjct: 139 FGKGVIGNIPIMLAKPQTFMNLSGESVGQIVSFYKIPLKQVLV 181

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|26453108|dbj|BAC43630.1| unknown protein [Arabidopsis thaliana] gi|28950849|gb|AAO63348.1| At1g18440 [Arabidopsis thaliana]

 Score =  163 bits (412), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 78/103 (75%), Positives = 91/103 (88%), Gaps = 1/103 (0%)

Query: 61  ESLVSPKPKQQQ-QHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAH 119
           ++L S KPK    Q PWLIVGLGNPGK+Y GTRHNVGFEMVDA+A+AEGIS+++VNFKA 
Sbjct: 79  QALPSSKPKSPPLQLPWLIVGLGNPGKKYQGTRHNVGFEMVDALADAEGISMNTVNFKAL 138

Query: 120 FGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           FGKG IGN+P+MLAKPQTFM+ SG+SVG IVS+YKIPLKQVLV
Sbjct: 139 FGKGVIGNIPIMLAKPQTFMDLSGESVGQIVSFYKIPLKQVLV 181

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|58743494|gb|AAW81735.1| Putative Putative Pepidyl-tRNA hydrolase family protein [Brassica oleracea]

 Score =  160 bits (406), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 74/87 (85%), Positives = 83/87 (95%)

Query: 76  WLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKP 135
           WLIVGLGNPGK+Y GTRHNVGFEMVDA+AEAEGIS+++VNFKA FGKG IGN+P+MLAKP
Sbjct: 98  WLIVGLGNPGKKYQGTRHNVGFEMVDALAEAEGISMNTVNFKALFGKGVIGNIPIMLAKP 157

Query: 136 QTFMNASGQSVGSIVSYYKIPLKQVLV 162
           QTFMNASG+SVG IVS+YKIPLKQVLV
Sbjct: 158 QTFMNASGESVGQIVSFYKIPLKQVLV 184

Source: Brassica oleracea

Species: Brassica oleracea

Genus: Brassica

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449486844|ref|XP_004157420.1| PREDICTED: peptidyl-tRNA hydrolase, chloroplastic-like [Cucumis sativus]

 Score =  160 bits (406), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 75/87 (86%), Positives = 84/87 (96%)

Query: 76  WLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKP 135
           WLIVGLGNPGK+Y+ TRHNVGFEMVDA+AEAEGIS+S+V+FKA  GKGFIG+VPVMLAKP
Sbjct: 80  WLIVGLGNPGKKYDRTRHNVGFEMVDAVAEAEGISISNVSFKALIGKGFIGDVPVMLAKP 139

Query: 136 QTFMNASGQSVGSIVSYYKIPLKQVLV 162
           QTFMNASG+SVG+IVSYYKIPLKQVLV
Sbjct: 140 QTFMNASGESVGAIVSYYKIPLKQVLV 166

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449439389|ref|XP_004137468.1| PREDICTED: peptidyl-tRNA hydrolase, chloroplastic-like [Cucumis sativus]

 Score =  160 bits (405), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 75/87 (86%), Positives = 84/87 (96%)

Query: 76  WLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKP 135
           WLIVGLGNPGK+Y+ TRHNVGFEMVDA+AEAEGIS+S+V+FKA  GKGFIG+VPVMLAKP
Sbjct: 81  WLIVGLGNPGKKYDRTRHNVGFEMVDAVAEAEGISISNVSFKALIGKGFIGDVPVMLAKP 140

Query: 136 QTFMNASGQSVGSIVSYYKIPLKQVLV 162
           QTFMNASG+SVG+IVSYYKIPLKQVLV
Sbjct: 141 QTFMNASGESVGAIVSYYKIPLKQVLV 167

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	176
TAIR|locus:2014134	288	AT1G18440 [Arabidopsis thalian	0.545	0.333	0.793	1.1e-37
TAIR|locus:2183234	219	AT5G19830 [Arabidopsis thalian	0.5	0.401	0.613	3.1e-28
TAIR|locus:2181412	240	AT5G16140 [Arabidopsis thalian	0.5	0.366	0.590	3.5e-27
TAIR|locus:2173298	250	AT5G38290 [Arabidopsis thalian	0.727	0.512	0.451	1.4e-25
TIGR_CMR|CHY_0196	187	CHY_0196 "peptidyl-tRNA hydrol	0.494	0.465	0.494	3.1e-19
TIGR_CMR|BA_0050	186	BA_0050 "peptidyl-tRNA hydrola	0.488	0.462	0.476	1.7e-18
TIGR_CMR|GSU_0663	193	GSU_0663 "peptidyl-tRNA hydrol	0.545	0.497	0.443	8.6e-17
TIGR_CMR|SPO_0811	239	SPO_0811 "peptidyl-tRNA hydrol	0.488	0.359	0.465	1.4e-16
TIGR_CMR|DET_0595	189	DET_0595 "peptidyl-tRNA hydrol	0.505	0.470	0.404	6.9e-15
TIGR_CMR|CPS_3559	194	CPS_3559 "peptidyl-tRNA hydrol	0.482	0.438	0.454	1.4e-14

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

 Score = 404 (147.3 bits), Expect = 1.1e-37, P = 1.1e-37
 Identities = 77/97 (79%), Positives = 87/97 (89%)

Query:    67 KPKQQQ-QHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFI 125
             KPK    Q PWLIVGLGNPGK+Y GTRHNVGFEMVDA+A+AEGIS+++VNFKA FGKG I
Sbjct:    85 KPKSPPLQLPWLIVGLGNPGKKYQGTRHNVGFEMVDALADAEGISMNTVNFKALFGKGVI 144

Query:   126 GNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
             GN+P+MLAKPQTFMN SG+SVG IVS+YKIPLKQVLV
Sbjct:   145 GNIPIMLAKPQTFMNLSGESVGQIVSFYKIPLKQVLV 181

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

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

 Score = 315 (115.9 bits), Expect = 3.1e-28, P = 3.1e-28
 Identities = 54/88 (61%), Positives = 72/88 (81%)

Query:    75 PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAK 134
             PWL +GLGNPG +Y GTRHN+GFEM+D  AE+ GI ++ VNFKA  G+GF+ ++PV+LAK
Sbjct:    18 PWLFLGLGNPGDKYKGTRHNIGFEMIDVFAESVGIQMNLVNFKAIMGQGFVADLPVILAK 77

Query:   135 PQTFMNASGQSVGSIVSYYKIPLKQVLV 162
             PQT+MN SG+S G + +YYK+PL +VLV
Sbjct:    78 PQTYMNLSGESSGPLAAYYKLPLNRVLV 105

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 = 305 (112.4 bits), Expect = 3.5e-27, P = 3.5e-27
 Identities = 52/88 (59%), Positives = 73/88 (82%)

Query:    75 PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAK 134
             PWLIVGLGNPG +Y+GTRHNVGFEM+D +A  EG+ ++++  KA  G G I +VP++LAK
Sbjct:    45 PWLIVGLGNPGNKYHGTRHNVGFEMIDVLARKEGVLMNTIQSKALIGIGAIEDVPILLAK 104

Query:   135 PQTFMNASGQSVGSIVSYYKIPLKQVLV 162
             PQT+MN SG+SVGS+ S+Y++PL+ +L+
Sbjct:   105 PQTYMNFSGESVGSLASHYRVPLRHILM 132

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 = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 60/133 (45%), Positives = 86/133 (64%)

Query:    30 SPLCCWGRRTRMSRSPSNSTIRNFXXXXXXXXXXXXPKPKQQQQHPWLIVGLGNPGKQYN 89
             SPL  + +  + S++ SNS  + F             K  + +  PWLIVGLGNPG +Y 
Sbjct:    15 SPL--YPKAYKFSQTKSNS--KRFSSLRASLPVSDN-KLLKFEYTPWLIVGLGNPGLKYY 69

Query:    90 GTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSI 149
             GTRHN+GFEM+D IA A  IS++++  KA  G G +G VP++L KPQ +MN SG+SVG +
Sbjct:    70 GTRHNIGFEMIDHIARATDISMNTIQSKALVGIGSVGEVPILLVKPQGYMNFSGESVGPL 129

Query:   150 VSYYKIPLKQVLV 162
              +YY+IPL+ +L+
Sbjct:   130 AAYYQIPLRHILM 142

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

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

 Score = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 43/87 (49%), Positives = 62/87 (71%)

Query:    76 WLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKP 135
             ++I GLGNPG++Y  TRHN GF +VD +A+  GI ++   FK+  G+G I  V V+L KP
Sbjct:     2 FIIAGLGNPGQEYENTRHNAGFMVVDELAKKHGILITKRKFKSLVGEGEILGVKVLLLKP 61

Query:   136 QTFMNASGQSVGSIVSYYKIPLKQVLV 162
             QT+MN SG +V   VS+YK+PL +++V
Sbjct:    62 QTYMNLSGTAVQEAVSFYKLPLSRLVV 88

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

GO:0006412 "translation" evidence=ISS

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

 Score = 223 (83.6 bits), Expect = 1.7e-18, P = 1.7e-18
 Identities = 41/86 (47%), Positives = 59/86 (68%)

Query:    77 LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQ 136
             LIVGLGNPG++Y  TRHN+GF  +D +A+   IS++   FK  FG GF+    V+L KP 
Sbjct:     3 LIVGLGNPGREYELTRHNIGFMAIDELAKRWNISLNEQKFKGLFGAGFVNGEKVILLKPL 62

Query:   137 TFMNASGQSVGSIVSYYKIPLKQVLV 162
             T+MN SG+S+  ++ YYKI ++  +V
Sbjct:    63 TYMNLSGESIRPLMDYYKIDVEDFVV 88

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 = 207 (77.9 bits), Expect = 8.6e-17, P = 8.6e-17
 Identities = 43/97 (44%), Positives = 63/97 (64%)

Query:    77 LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQ 136
             LIVGLGNPG +Y  TRHN GF ++D +A A G SV+  +F   FG+G      ++L KPQ
Sbjct:     5 LIVGLGNPGPKYLWTRHNAGFMVLDRLAHAIGASVTRKSFSGVFGEGAWHGERLLLLKPQ 64

Query:   137 TFMNASGQSVGSIVSYYKIPL-KQVLVRQNIFILFYR 172
             T+MN SG+SV   + ++K+PL   +++  ++ I F R
Sbjct:    65 TYMNLSGRSVAEALRFHKLPLCDTIVIHDDLDIPFGR 101

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 = 205 (77.2 bits), Expect = 1.4e-16, P = 1.4e-16
 Identities = 40/86 (46%), Positives = 52/86 (60%)

Query:    77 LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQ 136
             L VGLGNPG +Y   RHN+GF  +D IAE  G     V F+    +G +G   V+L KP+
Sbjct:     3 LFVGLGNPGAKYARNRHNIGFMALDRIAEDHGFGPWRVKFQGQIAEGRLGREKVLLLKPE 62

Query:   137 TFMNASGQSVGSIVSYYKIPLKQVLV 162
             TFMN SGQSVG  + +YK+    + V
Sbjct:    63 TFMNRSGQSVGEAMRFYKLDSTDITV 88

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 = 189 (71.6 bits), Expect = 6.9e-15, P = 6.9e-15
 Identities = 36/89 (40%), Positives = 55/89 (61%)

Query:    77 LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQ 136
             LI+GLGNPGK+Y+G RHNVGF+ +   A+   IS       +  G G I +  ++LAKPQ
Sbjct:     3 LIIGLGNPGKEYSGNRHNVGFQCLSRFAKDNHISFDKKCCLSRTGSGRINDEEIVLAKPQ 62

Query:   137 TFMNASGQSVGSIVSYYKIPLKQVLVRQN 165
             T+MN SG++   ++  Y +    ++V Q+
Sbjct:    63 TYMNLSGKAASQLLRRYNLKAADIIVVQD 91

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|CPS_3559 CPS_3559 "peptidyl-tRNA hydrolase" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 186 (70.5 bits), Expect = 1.4e-14, P = 1.4e-14
 Identities = 40/88 (45%), Positives = 56/88 (63%)

Query:    77 LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVS-SVNFKAHFGKGFI-GNVPVMLAK 134
             LI GLGNPG +Y+ TRHN G   V+ +A +  IS+     +   +GKG I GN+ V L  
Sbjct:     5 LIAGLGNPGPEYSKTRHNAGVWFVEELARSHNISLRPEKKYSGLYGKGLIAGNL-VHLLI 63

Query:   135 PQTFMNASGQSVGSIVSYYKIPLKQVLV 162
             P TFMN SGQ+V  + ++YKI + ++LV
Sbjct:    64 PTTFMNRSGQAVAPLANFYKISVDEILV 91

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)
Q5N9Q7	PTHM_ORYSJ	3, ., 1, ., 1, ., 2, 9	0.7840	0.5	0.352	yes	no
Q8GW64	PTHC_ARATH	3, ., 1, ., 1, ., 2, 9	0.7669	0.5795	0.3541	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	0.824
3rd Layer	3.1.1	0.766

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00017644001	SubName- Full=Chromosome chr17 scaffold_16, whole genome shotgun sequence; (252 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00018977001	RecName- Full=Ribose-phosphate pyrophosphokinase; EC=2.7.6.1; (322 aa)	•						•		0.809
	GSVIVG00015830001	RecName- Full=Ribose-phosphate pyrophosphokinase; EC=2.7.6.1; (321 aa)	•						•		0.806
	GSVIVG00025769001	SubName- Full=Chromosome chr19 scaffold_35, whole genome shotgun sequence; (365 aa)	•			•			•		0.718
	GSVIVG00020546001	SubName- Full=Chromosome chr14 scaffold_21, whole genome shotgun sequence; (258 aa)							•		0.665
	GSVIVG00009701001	SubName- Full=Chromosome undetermined scaffold_245, whole genome shotgun sequence; (251 aa)	•								0.659
	GSVIVG00017298001	SubName- Full=Chromosome chr6 scaffold_15, whole genome shotgun sequence; (339 aa)	•			•					0.636
	GSVIVG00017183001	RecName- Full=Translation initiation factor IF-3;; IF-3 binds to the 30S ribosomal subunit and [...] (272 aa)							•		0.624
	GSVIVG00007283001	SubName- Full=Chromosome chr2 scaffold_187, whole genome shotgun sequence; (682 aa)	•						•		0.593
	GSVIVG00002517001	SubName- Full=Chromosome chr2 scaffold_132, whole genome shotgun sequence; (258 aa)	•								0.586
	GSVIVG00022142001	SubName- Full=Chromosome chr6 scaffold_25, whole genome shotgun sequence; (195 aa)	•			•					0.585

---

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	176
cd02406	191	cd02406, CRS2, Chloroplast RNA splicing 2 (CRS2) i	2e-54
cd00462	171	cd00462, PTH, Peptidyl-tRNA hydrolase (PTH) is a m	6e-45
PRK05426	189	PRK05426, PRK05426, peptidyl-tRNA hydrolase; Provi	6e-43
pfam01195	183	pfam01195, Pept_tRNA_hydro, Peptidyl-tRNA hydrolas	1e-40
COG0193	190	COG0193, Pth, Peptidyl-tRNA hydrolase [Translation	3e-37
TIGR00447	188	TIGR00447, pth, peptidyl-tRNA hydrolase	1e-27

>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 =  170 bits (433), Expect = 2e-54
 Identities = 59/88 (67%), Positives = 75/88 (85%)

Query: 75  PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAK 134
           PWLI GLGNPG +Y GTRHNVGFEMVD IAEAEGI+++++ FK+  G G IG+VPV+LAK
Sbjct: 2   PWLIAGLGNPGNKYKGTRHNVGFEMVDRIAEAEGITMNTIQFKSLLGIGSIGDVPVLLAK 61

Query: 135 PQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           PQT+MN SG+SVG + +YYK+PL+ +LV
Sbjct: 62  PQTYMNYSGESVGPLAAYYKVPLRHILV 89

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 =  145 bits (368), Expect = 6e-45
 Identities = 45/86 (52%), Positives = 61/86 (70%)

Query: 77  LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQ 136
           LIVGLGNPG +Y  TRHNVGF ++DA+AE  G+S      K   G+G IG   V+L KPQ
Sbjct: 1   LIVGLGNPGPKYENTRHNVGFMVLDALAERYGVSFKKKKKKGLVGEGRIGGEKVLLLKPQ 60

Query: 137 TFMNASGQSVGSIVSYYKIPLKQVLV 162
           T+MN SG++V ++ ++YKIP + +LV
Sbjct: 61  TYMNLSGEAVAALANFYKIPPEDILV 86

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|235457 PRK05426, PRK05426, peptidyl-tRNA hydrolase; Provisional

 Score =  141 bits (357), Expect = 6e-43
 Identities = 42/89 (47%), Positives = 58/89 (65%), Gaps = 1/89 (1%)

Query: 75  PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVN-FKAHFGKGFIGNVPVMLA 133
             LIVGLGNPG +Y  TRHN+GF +VD +A   G S+     FK    +G I    V+L 
Sbjct: 2   MKLIVGLGNPGPEYANTRHNIGFMVVDELARRLGGSLKEKKKFKGLIAEGRINGEKVILL 61

Query: 134 KPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           KPQT+MN SG++V ++ ++YKIP + +LV
Sbjct: 62  KPQTYMNLSGKAVAALANFYKIPPEDILV 90

Length = 189

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

 Score =  134 bits (341), Expect = 1e-40
 Identities = 45/87 (51%), Positives = 59/87 (67%), Gaps = 1/87 (1%)

Query: 77  LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVS-SVNFKAHFGKGFIGNVPVMLAKP 135
           LIVGLGNPG +Y  TRHNVGF ++D +AE  G+S+     FK    KG I    V+L KP
Sbjct: 1   LIVGLGNPGPKYENTRHNVGFMVIDRLAERLGVSLKKKKKFKGLIAKGRIEGEKVILLKP 60

Query: 136 QTFMNASGQSVGSIVSYYKIPLKQVLV 162
           QT+MN SG++V +I  +YKIP + +LV
Sbjct: 61  QTYMNLSGEAVRAIARFYKIPPEDILV 87

Length = 183

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

 Score =  126 bits (320), Expect = 3e-37
 Identities = 43/89 (48%), Positives = 56/89 (62%), Gaps = 1/89 (1%)

Query: 75  PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVS-SVNFKAHFGKGFIGNVPVMLA 133
             LIVGLGNPGK+Y  TRHNVGF +VD +A    +S      F     KG I    V+L 
Sbjct: 2   MKLIVGLGNPGKKYAKTRHNVGFMVVDLLARRLNLSFKEEKKFNGLVAKGTIEGEKVILL 61

Query: 134 KPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           KP T+MN SG++VG++ S+YKI  + +LV
Sbjct: 62  KPTTYMNLSGKAVGALASFYKIKPEDILV 90

Length = 190

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

 Score =  102 bits (255), Expect = 1e-27
 Identities = 39/87 (44%), Positives = 59/87 (67%), Gaps = 1/87 (1%)

Query: 77  LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSS-VNFKAHFGKGFIGNVPVMLAKP 135
           LIVGLGNPGK+Y GTRHN GF ++D +A   G+S+ +   F  +  +G +    V+L KP
Sbjct: 3   LIVGLGNPGKKYAGTRHNAGFWVLDLLASRLGLSLRTEKKFFGYTERGLLSGKKVILLKP 62

Query: 136 QTFMNASGQSVGSIVSYYKIPLKQVLV 162
            T+MN SG++V ++ S+Y+I   ++LV
Sbjct: 63  LTYMNLSGEAVRALASFYRIKPAELLV 89

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	176
COG0193	190	Pth Peptidyl-tRNA hydrolase [Translation, ribosoma	100.0
cd02406	191	CRS2 Chloroplast RNA splicing 2 (CRS2) is a nuclea	100.0
cd00462	171	PTH Peptidyl-tRNA hydrolase (PTH) is a monomeric p	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
KOG2255	224	consensus Peptidyl-tRNA hydrolase [Translation, ri	99.97

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

Probab=100.00  E-value=2.6e-43  Score=291.44  Aligned_cols=100  Identities=44%  Similarity=0.666  Sum_probs=95.9

Q ss_pred             ceEEEEccCcccccCcCcchHHHHHHHHHHHHhCCCC-cccceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHHHc
Q 030503           75 PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISV-SSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYY  153 (176)
Q Consensus        75 ~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~-~~~k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~~y  153 (176)
                      ++|||||||||++|+.||||||||++|.||++++.++ .+++|.+.++++.+.+++|+|+||+||||+||++|.++++||
T Consensus         2 ~kLIVGLGNPG~~Y~~TRHNvGf~~vD~La~~~~~~~~~~~kf~~~~~~~~i~g~kv~l~kP~TyMNlSG~~V~~~~~fy   81 (190)
T COG0193           2 MKLIVGLGNPGKKYAKTRHNVGFMVVDLLARRLNLSFKEEKKFNGLVAKGTIEGEKVILLKPTTYMNLSGKAVGALASFY   81 (190)
T ss_pred             cEEEEECCCCchhhcccchhHHHHHHHHHHHHhCCCCccccccCceeEEEEeCCcEEEEecCccceeCcHHHHHHHHHHh
Confidence            6899999999999999999999999999999999998 456899999999999999999999999999999999999999


Q ss_pred             CCCCCcEEEEEecCCCCcccC
Q 030503          154 KIPLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       154 ki~pe~ILVIHDDLDLplGk~  174 (176)
                      ++++++|||||||||||+|+.
T Consensus        82 ~i~~~~ilVvhDdLdl~~G~v  102 (190)
T COG0193          82 KIKPEDILVVHDELDLPLGKV  102 (190)
T ss_pred             CCCHHHEEEEeeccCCCCceE
Confidence            999999999999999999974

>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=4.1e-43  Score=290.50  Aligned_cols=101  Identities=59%  Similarity=1.037  Sum_probs=96.0

Q ss_pred             CceEEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCcccceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHHHc
Q 030503           74 HPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYY  153 (176)
Q Consensus        74 ~~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~~~k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~~y  153 (176)
                      +++|||||||||++|++|||||||+++|.||++++.++++.++++.++++.+++++|+|+||+||||+||++|.++++||
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            46899999999999999999999999999999999887666788999999999999999999999999999999999999


Q ss_pred             CCCCCcEEEEEecCCCCcccC
Q 030503          154 KIPLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       154 ki~pe~ILVIHDDLDLplGk~  174 (176)
                      +++++++||||||||||+|+.
T Consensus        81 ki~~~~ilVihDdldl~~G~i  101 (191)
T cd02406          81 KVPLRHILVIYDDMSLPNGVL  101 (191)
T ss_pred             CCCHHHEEEEEECCCCCCCeE
Confidence            999999999999999999974

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).

>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=5.6e-42  Score=279.13  Aligned_cols=98  Identities=47%  Similarity=0.749  Sum_probs=93.8

Q ss_pred             EEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCcccceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHHHcCCC
Q 030503           77 LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKIP  156 (176)
Q Consensus        77 LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~~~k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~~yki~  156 (176)
                      |||||||||++|++|||||||+++|.||++++..+++.++++.++++.+.+++++|+||+||||+||++|.+++++|+++
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            69999999999999999999999999999999888776778999999999999999999999999999999999999999


Q ss_pred             CCcEEEEEecCCCCcccC
Q 030503          157 LKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       157 pe~ILVIHDDLDLplGk~  174 (176)
                      ++++||||||||||+|+.
T Consensus        81 ~~~ilVihDdldl~~G~v   98 (171)
T cd00462          81 PEDILVIHDDLDLPLGKI   98 (171)
T ss_pred             hhHEEEEEecCCCCCceE
Confidence            999999999999999974

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.

>TIGR00447 pth peptidyl-tRNA hydrolase

Probab=100.00  E-value=9e-42  Score=281.51  Aligned_cols=100  Identities=40%  Similarity=0.639  Sum_probs=94.1

Q ss_pred             ceEEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCc-ccceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHHHc
Q 030503           75 PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVS-SVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYY  153 (176)
Q Consensus        75 ~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~-~~k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~~y  153 (176)
                      ++|||||||||++|++|||||||+++|.||++++.+++ ..++.+.++++.+++++|+|+||+||||+||++|++++++|
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            58999999999999999999999999999999998876 34677888999999999999999999999999999999999


Q ss_pred             CCCCCcEEEEEecCCCCcccC
Q 030503          154 KIPLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       154 ki~pe~ILVIHDDLDLplGk~  174 (176)
                      +++++++||||||||||+|+.
T Consensus        81 ~i~~~~ilVihDdldl~~G~i  101 (188)
T TIGR00447        81 RIKPAELLVVHDELDLPLGKV  101 (188)
T ss_pred             CCChHHEEEEEecCCCCCceE
Confidence            999999999999999999974

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=7.6e-41  Score=276.07  Aligned_cols=100  Identities=43%  Similarity=0.662  Sum_probs=93.9

Q ss_pred             ceEEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCc-ccceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHHHc
Q 030503           75 PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVS-SVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYY  153 (176)
Q Consensus        75 ~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~-~~k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~~y  153 (176)
                      ++|||||||||++|++|||||||+++|.||++++..+. ..++++.++++.+++++++|+||+||||+||++|++++++|
T Consensus         2 ~~LivGLGNPG~~Y~~TRHNvGf~~ld~la~~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~~~   81 (189)
T PRK05426          2 MKLIVGLGNPGPEYANTRHNIGFMVVDELARRLGGSLKEKKKFKGLIAEGRINGEKVILLKPQTYMNLSGKAVAALANFY   81 (189)
T ss_pred             cEEEEEeCCCchhhCcCchHHHHHHHHHHHHHcCCCCcccccccEEEEEEEECCeEEEEEeCCcchhcCcHHHHHHHHHh
Confidence            68999999999999999999999999999999877654 45678999999998899999999999999999999999999


Q ss_pred             CCCCCcEEEEEecCCCCcccC
Q 030503          154 KIPLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       154 ki~pe~ILVIHDDLDLplGk~  174 (176)
                      ++++++++|||||||||+|+.
T Consensus        82 ~i~~~~ilVihDdldl~~G~~  102 (189)
T PRK05426         82 KIPPEDILVIHDDLDLPPGKI  102 (189)
T ss_pred             CCCHHHEEEEEecCCCCCceE
Confidence            999999999999999999974

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

Probab=100.00  E-value=2.5e-39  Score=265.07  Aligned_cols=98  Identities=46%  Similarity=0.715  Sum_probs=85.5

Q ss_pred             EEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCcccc-eeeEEEEEEECCeeEEEEecCcccccchHHHHHHHHHcCC
Q 030503           77 LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVN-FKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKI  155 (176)
Q Consensus        77 LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~~~k-~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~~yki  155 (176)
                      |||||||||++|++|||||||+++|.|+++++..+++.+ +++.++.+.+.+.+++|+||+||||+||++|++++++|++
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 7889999999999999999999999999999999999999


Q ss_pred             CCCcEEEEEecCCCCcccC
Q 030503          156 PLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       156 ~pe~ILVIHDDLDLplGk~  174 (176)
                      +++++||||||+|+|+|+.
T Consensus        81 ~~~~ilVihDdldl~~G~i   99 (184)
T PF01195_consen   81 PPENILVIHDDLDLPLGKI   99 (184)
T ss_dssp             -GGGEEEEEEETTSSTTEE
T ss_pred             CcceEEEEEeccCCCCCeE
Confidence            9999999999999999974

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 ....

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

Probab=99.97  E-value=1.8e-32  Score=228.71  Aligned_cols=101  Identities=49%  Similarity=0.907  Sum_probs=93.6

Q ss_pred             CceEEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCcccceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHHHc
Q 030503           74 HPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYY  153 (176)
Q Consensus        74 ~~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~~~k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~~y  153 (176)
                      ++|+|+||||||++|.+|||||||.|+|.||++.+++..+.+-++..+-+.+++..+++++|++|||.||++|.++|..|
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            47999999999999999999999999999999999886655545666777888999999999999999999999999999


Q ss_pred             CCCCCcEEEEEecCCCCcccC
Q 030503          154 KIPLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       154 ki~pe~ILVIHDDLDLplGk~  174 (176)
                      +++.++++||||||++|+|++
T Consensus       118 ~i~~~~ivvIhDEl~l~~Gkl  138 (224)
T KOG2255|consen  118 KIPLRHIVVIHDELELPLGKL  138 (224)
T ss_pred             cchheeEEEEeccccCcCceE
Confidence            999999999999999999985

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	176
1ryn_A	202	Structure Of The Chloroplast Group Ii Intron Splici		9e-28
1ryb_A	205	Crystal Structure Of The Chloroplast Group Ii Intro		4e-27
1rym_A	212	Structure Of The Group Ii Intron Splicing Factor Cr		1e-26
3v2i_A	222	Structure Of A Peptidyl-Trna Hydrolase (Pth) From B		9e-15
2lgj_A	191	Solution Structure Of Mspth Length = 191		1e-13
3kjz_A	191	Crystal Structure Of Native Peptidyl-Trna Hydrolase		5e-13
2jrc_A	204	Solution Structure Of Peptidyl-Trna Hydrolase From		2e-12
2z2i_A	191	Crystal Structure Of Peptidyl-Trna Hydrolase From M		2e-12
4fop_A	193	Crystal Structure Of Peptidyl-Trna Hydrolase From A		3e-12
4dhw_A	194	Crystal Structure Of Peptidyl-Trna Hydrolase From P		5e-12
4fyj_A	199	Crystal Structure Of P. Aeruginosa Peptidyl-Trna Hy		5e-12
2pth_A	193	Peptidyl-Trna Hydrolase From Escherichia Coli Lengt		6e-11
3vjr_A	197	Crystal Structure Of Peptidyl-Trna Hydrolase From E		7e-11
3ofv_A	211	Crystal Structure Of Peptidyl-Trna Hydrolase From E		9e-11
3nea_A	207	Crystal Structure Of Peptidyl-Trna Hydrolase From F		1e-09

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

Iteration: 1
 Score =  119 bits (298), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 50/88 (56%), Positives = 70/88 (79%)
Query: 75  PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAK 134
           PWLI GLGNPG +Y GTRHNVGFEMVD IA  EGI++++  FK+  G G IG VPV++ K
Sbjct: 5   PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTNQFKSLLGTGSIGEVPVLVVK 64
Query: 135 PQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           PQ++MN SG+++G + +YY++PL+ +L+
Sbjct: 65  PQSYMNYSGEAIGPLAAYYQVPLRHILL 92

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

Iteration: 1
 Score =  117 bits (293), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 49/88 (55%), Positives = 70/88 (79%)
Query: 75  PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAK 134
           PWLI GLGNPG +Y GTRHNVGFEMVD IA  EGI+++++  K+  G G IG VPV++ K
Sbjct: 17  PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVK 76
Query: 135 PQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           PQ++MN SG+++G + +YY++PL+ +L+
Sbjct: 77  PQSYMNYSGEAIGPLAAYYQVPLRHILL 104

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

Iteration: 1
 Score =  115 bits (288), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 49/88 (55%), Positives = 69/88 (78%)
Query: 75  PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAK 134
           PWLI GLGNPG +Y GTRHNVGFEMVD IA  EGI++++   K+  G G IG VPV++ K
Sbjct: 17  PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTEQSKSLLGIGSIGEVPVLVVK 76
Query: 135 PQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           PQ++MN SG+++G + +YY++PL+ +L+
Sbjct: 77  PQSYMNYSGEAIGPLAAYYQVPLRHILL 104

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

Iteration: 1
 Score = 76.3 bits (186), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 39/94 (41%), Positives = 55/94 (58%), Gaps = 1/94 (1%)
Query: 77  LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISV-SSVNFKAHFGKGFIGNVPVMLAKP 135
           LIVGLGNPG +Y  TRHN GF +VD +A   G ++     F   + K  +    V L +P
Sbjct: 25  LIVGLGNPGAEYTATRHNAGFWLVDQLAREAGATLRDERRFHGFYAKARLYGEEVHLLEP 84
Query: 136 QTFMNASGQSVGSIVSYYKIPLKQVLVRQNIFIL 169
           QT+MN SGQSV ++  ++KI   ++LV  +   L
Sbjct: 85  QTYMNRSGQSVVALAHFFKILPNEILVAHDELDL 118

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

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 42/105 (40%), Positives = 60/105 (57%), Gaps = 4/105 (3%)
Query: 74  HPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFK--AHFGKGFIGNVPVM 131
            P L+VGLGNPG  Y  TRHN+GF + D +A   G S   V+ K  A    G +    V+
Sbjct: 3   EPLLVVGLGNPGPTYAKTRHNLGFMVADVLAGRIG-SAFKVHKKSGAEVVTGRLAGTSVV 61
Query: 132 LAKPQTFMNASGQSVGSIVSYYKIPLKQ-VLVRQNIFILFYRYSM 175
           LAKP+ +MN SG+ VG +  +Y +P +Q V++   + I F R  +
Sbjct: 62  LAKPRCYMNESGRQVGPLAKFYSVPPQQIVVIHDELDIDFGRIRL 106

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

Iteration: 1
 Score = 70.5 bits (171), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 42/105 (40%), Positives = 59/105 (56%), Gaps = 4/105 (3%)
Query: 74  HPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFK--AHFGKGFIGNVPVM 131
            P L+VGLGNPG  Y  TRHN+GF + D +A   G S   V+ K  A    G +    V+
Sbjct: 3   EPLLVVGLGNPGPTYAKTRHNLGFMVADVLAGRIG-SAFKVHKKSGAEVVTGRLAGTTVV 61
Query: 132 LAKPQTFMNASGQSVGSIVSYYKIPLKQ-VLVRQNIFILFYRYSM 175
           LAKP+  MN SG+ VG +  +Y +P +Q V++   + I F R  +
Sbjct: 62  LAKPRISMNESGRQVGPLAKFYSVPPQQIVVIHDELDIDFGRIRL 106

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

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 37/109 (33%), Positives = 57/109 (52%), Gaps = 12/109 (11%)
Query: 74  HPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAH------FGKGFIGN 127
            P L+VGLGNPG  Y  TRHN+GF + D +A   G       FKAH         G    
Sbjct: 3   EPLLVVGLGNPGANYARTRHNLGFVVADLLAARLG-----AKFKAHKRSGAEVATGRSAG 57
Query: 128 VPVMLAKPQTFMNASGQSVGSIVSYYKI-PLKQVLVRQNIFILFYRYSM 175
             ++LAKP+ +MN SG+ +G +  +Y + P   +++  ++ + F R  +
Sbjct: 58  RSLVLAKPRCYMNESGRQIGPLAKFYSVAPANIIVIHDDLDLEFGRIRL 106

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

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 37/109 (33%), Positives = 57/109 (52%), Gaps = 12/109 (11%)
Query: 74  HPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAH------FGKGFIGN 127
            P L+VGLGNPG  Y  TRHN+GF + D +A   G       FKAH         G    
Sbjct: 3   EPLLVVGLGNPGANYARTRHNLGFVVADLLAARLG-----AKFKAHKRSGAEVATGRSAG 57
Query: 128 VPVMLAKPQTFMNASGQSVGSIVSYYKI-PLKQVLVRQNIFILFYRYSM 175
             ++LAKP+ +MN SG+ +G +  +Y + P   +++  ++ + F R  +
Sbjct: 58  RSLVLAKPRCYMNESGRQIGPLAKFYSVAPANIIVIHDDLDLEFGRIRL 106

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

Iteration: 1
 Score = 67.8 bits (164), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 38/90 (42%), Positives = 53/90 (58%), Gaps = 1/90 (1%)
Query: 77  LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISV-SSVNFKAHFGKGFIGNVPVMLAKP 135
           LIVGLGNPG +Y  TRHN GF  V+ +A+  GI++ +   F    G+G I    V L  P
Sbjct: 6   LIVGLGNPGSEYAQTRHNAGFWFVEQLADKYGITLKNDPKFHGISGRGNIEGHDVRLLLP 65
Query: 136 QTFMNASGQSVGSIVSYYKIPLKQVLVRQN 165
            T+MN SGQSV     +Y+I  + +L+  +
Sbjct: 66  MTYMNRSGQSVVPFSKFYQIAPEAILIAHD 95

>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 = 67.0 bits (162), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 38/94 (40%), Positives = 56/94 (59%), Gaps = 9/94 (9%)
Query: 77  LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNV-----PVM 131
           LIVGLGNPG +Y+ TRHN G   V+ +A A+G+S+  V  + +F  G +G        V 
Sbjct: 6   LIVGLGNPGPEYDQTRHNAGALFVERLAHAQGVSL--VADRKYF--GLVGKFSHQGKDVR 61
Query: 132 LAKPQTFMNASGQSVGSIVSYYKIPLKQVLVRQN 165
           L  P T+MN SGQSV ++  +++I    +LV  +
Sbjct: 62  LLIPTTYMNRSGQSVAALAGFFRIAPDAILVAHD 95

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

Iteration: 1
 Score = 67.0 bits (162), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 38/94 (40%), Positives = 56/94 (59%), Gaps = 9/94 (9%)
Query: 77  LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNV-----PVM 131
           LIVGLGNPG +Y+ TRHN G   V+ +A A+G+S+  V  + +F  G +G        V 
Sbjct: 12  LIVGLGNPGPEYDQTRHNAGALFVERLAHAQGVSL--VADRKYF--GLVGKFSHQGKDVR 67
Query: 132 LAKPQTFMNASGQSVGSIVSYYKIPLKQVLVRQN 165
           L  P T+MN SGQSV ++  +++I    +LV  +
Sbjct: 68  LLIPTTYMNRSGQSVAALAGFFRIAPDAILVAHD 101

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

Iteration: 1
 Score = 63.5 bits (153), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 35/94 (37%), Positives = 51/94 (54%), Gaps = 1/94 (1%)
Query: 77  LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISV-SSVNFKAHFGKGFIGNVPVMLAKP 135
           LIVGL NPG +Y  TRHN G   VD +AE     +     F  +  +  +G   V L  P
Sbjct: 4   LIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLREEAKFFGYTSRVTLGGEDVRLLVP 63
Query: 136 QTFMNASGQSVGSIVSYYKIPLKQVLVRQNIFIL 169
            TFMN SG++V ++ S+++I   ++LV  +   L
Sbjct: 64  TTFMNLSGKAVAAMASFFRINPDEILVAHDELDL 97

>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 = 63.2 bits (152), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 35/94 (37%), Positives = 51/94 (54%), Gaps = 1/94 (1%)
Query: 77  LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISV-SSVNFKAHFGKGFIGNVPVMLAKP 135
           LIVGL NPG +Y  TRHN G   VD +AE     +     F  +  +  +G   V L  P
Sbjct: 8   LIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLREEAKFFGYTSRVTLGGEDVRLLVP 67
Query: 136 QTFMNASGQSVGSIVSYYKIPLKQVLVRQNIFIL 169
            TFMN SG++V ++ S+++I   ++LV  +   L
Sbjct: 68  TTFMNLSGKAVAAMASFFRINPDEILVAHDELDL 101

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

Iteration: 1
 Score = 62.8 bits (151), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 35/94 (37%), Positives = 51/94 (54%), Gaps = 1/94 (1%)
Query: 77  LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISV-SSVNFKAHFGKGFIGNVPVMLAKP 135
           LIVGL NPG +Y  TRHN G   VD +AE     +     F  +  +  +G   V L  P
Sbjct: 25  LIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLREEAKFFGYTSRVTLGGEDVRLLVP 84
Query: 136 QTFMNASGQSVGSIVSYYKIPLKQVLVRQNIFIL 169
            TFMN SG++V ++ S+++I   ++LV  +   L
Sbjct: 85  TTFMNLSGKAVAAMASFFRINPDEILVAHDELDL 118

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

Iteration: 1
 Score = 59.3 bits (142), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 35/87 (40%), Positives = 49/87 (56%), Gaps = 1/87 (1%)
Query: 77  LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSV-NFKAHFGKGFIGNVPVMLAKP 135
           +I+GLGN GK+Y  TRHNVG   +  IA+    S SS      +  K  I    V+L  P
Sbjct: 25  MIIGLGNIGKEYQDTRHNVGEWFIAKIAQDNNQSFSSNPKLNCNLAKVSIDYNNVVLVFP 84
Query: 136 QTFMNASGQSVGSIVSYYKIPLKQVLV 162
            T+MN SG +V  + ++YKI   ++LV
Sbjct: 85  TTYMNNSGLAVSKVANFYKIAPAEILV 111
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	176
1ryb_A	205	CRS2; alpha-beta, hydrolase; 1.70A {Zea mays} SCOP	4e-50
2z2i_A	191	PTH, peptidyl-tRNA hydrolase; protein synthesis; 1	2e-47
4fno_A	194	PTH, peptidyl-tRNA hydrolase; 2.25A {Pseudomonas a	5e-46
3v2i_A	222	PTH, peptidyl-tRNA hydrolase; ssgcid, seattle stru	8e-45
4fop_A	193	PTH, peptidyl-tRNA hydrolase; 1.86A {Acinetobacter	8e-45
2pth_A	193	Peptidyl-tRNA hydrolase; 1.20A {Escherichia coli}	1e-44
3nea_A	207	PTH, peptidyl-tRNA hydrolase; 2.25A {Francisella t	6e-44

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

 Score =  159 bits (404), Expect = 4e-50
 Identities = 49/88 (55%), Positives = 70/88 (79%)

Query: 75  PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAK 134
           PWLI GLGNPG +Y GTRHNVGFEMVD IA  EGI+++++  K+  G G IG VPV++ K
Sbjct: 17  PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVK 76

Query: 135 PQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           PQ++MN SG+++G + +YY++PL+ +L+
Sbjct: 77  PQSYMNYSGEAIGPLAAYYQVPLRHILL 104

>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 =  151 bits (385), Expect = 2e-47
 Identities = 32/89 (35%), Positives = 48/89 (53%), Gaps = 1/89 (1%)

Query: 75  PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVN-FKAHFGKGFIGNVPVMLA 133
           P L+VGLGNPG  Y  TRHN+GF + D +A   G    +     A    G      ++LA
Sbjct: 4   PLLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKAHKRSGAEVATGRSAGRSLVLA 63

Query: 134 KPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           KP+ +MN SG+ +G +  +Y +    ++V
Sbjct: 64  KPRCYMNESGRQIGPLAKFYSVAPANIIV 92

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

 Score =  148 bits (376), Expect = 5e-46
 Identities = 37/89 (41%), Positives = 52/89 (58%), Gaps = 1/89 (1%)

Query: 75  PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGIS-VSSVNFKAHFGKGFIGNVPVMLA 133
             LIVGLGNPG +Y+ TRHN G   V+ +A A+G+S V+   +    GK       V L 
Sbjct: 4   VQLIVGLGNPGPEYDQTRHNAGALFVERLAHAQGVSLVADRKYFGLVGKFSHQGKDVRLL 63

Query: 134 KPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
            P T+MN SGQSV ++  +++I    +LV
Sbjct: 64  IPTTYMNRSGQSVAALAGFFRIAPDAILV 92

>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 =  146 bits (370), Expect = 8e-45
 Identities = 38/100 (38%), Positives = 56/100 (56%), Gaps = 1/100 (1%)

Query: 64  VSPKPKQQQQHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVN-FKAHFGK 122
           +  + +       LIVGLGNPG +Y  TRHN GF +VD +A   G ++     F   + K
Sbjct: 12  LEAQTQGPGSMIKLIVGLGNPGAEYTATRHNAGFWLVDQLAREAGATLRDERRFHGFYAK 71

Query: 123 GFIGNVPVMLAKPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
             +    V L +PQT+MN SGQSV ++  ++KI   ++LV
Sbjct: 72  ARLYGEEVHLLEPQTYMNRSGQSVVALAHFFKILPNEILV 111

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

 Score =  145 bits (368), Expect = 8e-45
 Identities = 38/88 (43%), Positives = 52/88 (59%), Gaps = 1/88 (1%)

Query: 76  WLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSS-VNFKAHFGKGFIGNVPVMLAK 134
            LIVGLGNPG +Y  TRHN GF  V+ +A+  GI++ +   F    G+G I    V L  
Sbjct: 5   SLIVGLGNPGSEYAQTRHNAGFWFVEQLADKYGITLKNDPKFHGISGRGNIEGHDVRLLL 64

Query: 135 PQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           P T+MN SGQSV     +Y+I  + +L+
Sbjct: 65  PMTYMNRSGQSVVPFSKFYQIAPEAILI 92

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

 Score =  144 bits (367), Expect = 1e-44
 Identities = 34/88 (38%), Positives = 49/88 (55%), Gaps = 1/88 (1%)

Query: 76  WLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSS-VNFKAHFGKGFIGNVPVMLAK 134
            LIVGL NPG +Y  TRHN G   VD +AE     +     F  +  +  +G   V L  
Sbjct: 3   KLIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLREEAKFFGYTSRVTLGGEDVRLLV 62

Query: 135 PQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           P TFMN SG++V ++ S+++I   ++LV
Sbjct: 63  PTTFMNLSGKAVAAMASFFRINPDEILV 90

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

 Score =  143 bits (363), Expect = 6e-44
 Identities = 35/89 (39%), Positives = 49/89 (55%), Gaps = 1/89 (1%)

Query: 75  PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSS-VNFKAHFGKGFIGNVPVMLA 133
             +I+GLGN GK+Y  TRHNVG   +  IA+    S SS      +  K  I    V+L 
Sbjct: 23  IKMIIGLGNIGKEYQDTRHNVGEWFIAKIAQDNNQSFSSNPKLNCNLAKVSIDYNNVVLV 82

Query: 134 KPQTFMNASGQSVGSIVSYYKIPLKQVLV 162
            P T+MN SG +V  + ++YKI   ++LV
Sbjct: 83  FPTTYMNNSGLAVSKVANFYKIAPAEILV 111

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	176
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
2z2i_A	191	PTH, peptidyl-tRNA hydrolase; protein synthesis; 1	100.0
3nea_A	207	PTH, peptidyl-tRNA hydrolase; 2.25A {Francisella t	100.0
3v2i_A	222	PTH, peptidyl-tRNA hydrolase; ssgcid, seattle stru	100.0
4fyj_A	199	PTH, peptidyl-tRNA hydrolase; 1.77A {Pseudomonas a	100.0
4hoy_A	193	PTH, peptidyl-tRNA hydrolase; enzyme, molecular co	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=4.7e-44  Score=295.12  Aligned_cols=100  Identities=35%  Similarity=0.499  Sum_probs=95.6

Q ss_pred             ceEEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCc-ccceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHHHc
Q 030503           75 PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVS-SVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYY  153 (176)
Q Consensus        75 ~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~-~~k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~~y  153 (176)
                      ++|||||||||++|++|||||||+++|+||++++.+++ +.++++.++++.+++++|+|+||+||||+||++|+++++||
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            57999999999999999999999999999999999887 55789999999999999999999999999999999999999


Q ss_pred             CCCCCcEEEEEecCCCCcccC
Q 030503          154 KIPLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       154 ki~pe~ILVIHDDLDLplGk~  174 (176)
                      +|++++|||||||||||+|+.
T Consensus        82 ki~~~~ilVihDdldlp~G~i  102 (193)
T 2pth_A           82 RINPDEILVAHDELDLPPGVA  102 (193)
T ss_dssp             TCCGGGEEEEEEETTSCTTCE
T ss_pred             CCCHHHEEEEecccCCCCceE
Confidence            999999999999999999974

>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=5.7e-44  Score=297.22  Aligned_cols=103  Identities=49%  Similarity=0.909  Sum_probs=98.1

Q ss_pred             CCCceEEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCcccceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHH
Q 030503           72 QQHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVS  151 (176)
Q Consensus        72 ~~~~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~~~k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~  151 (176)
                      ++.++|||||||||++|++|||||||+++|+||++++.++++.++++.++++.+++++|+|+||+||||+||++|+++++
T Consensus        14 ~~~~~LIVGLGNPG~~Y~~TRHNiGf~viD~La~~~~~~~~~~k~~~~~~~~~~~g~~v~LlKP~TyMNlSG~sV~~~~~   93 (205)
T 1ryb_A           14 EYTPWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVKPQSYMNYSGEAIGPLAA   93 (205)
T ss_dssp             -CCCEEEEECCCCSGGGTTBGGGHHHHHHHHHHHHTTCCCCEEETTEEEEEEEETTEEEEEEEECSCGGGHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCChhhccCchHHHHHHHHHHHHHcCCCcccccccEEEEEEEECCEEEEEEcCCchhhccCHHHHHHHH
Confidence            35789999999999999999999999999999999999988778899999999999999999999999999999999999


Q ss_pred             HcCCCCCcEEEEEecCCCCcccC
Q 030503          152 YYKIPLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       152 ~yki~pe~ILVIHDDLDLplGk~  174 (176)
                      ||+|++++|||||||||||+|+.
T Consensus        94 ~yki~~~~ilVihDdLdLp~G~i  116 (205)
T 1ryb_A           94 YYQVPLRHILLIYDDTSLPNGVL  116 (205)
T ss_dssp             HTTCCGGGEEEEEEETTSCTTCE
T ss_pred             HhCCCHHHEEEEeecccCCCCeE
Confidence            99999999999999999999974

>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=8.6e-44  Score=293.27  Aligned_cols=101  Identities=33%  Similarity=0.600  Sum_probs=95.9

Q ss_pred             CceEEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCcc-cceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHHH
Q 030503           74 HPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSS-VNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSY  152 (176)
Q Consensus        74 ~~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~~-~k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~~  152 (176)
                      .++|||||||||++|++|||||||+++|+||++++.++.+ .++++.++++.+++++|+|+||+||||+||++|+++++|
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            4689999999999999999999999999999999998865 468899999999999999999999999999999999999


Q ss_pred             cCCCCCcEEEEEecCCCCcccC
Q 030503          153 YKIPLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       153 yki~pe~ILVIHDDLDLplGk~  174 (176)
                      |+|++++|||||||||||+|+.
T Consensus        83 yki~~~~ilVihDdldlp~G~i  104 (191)
T 2z2i_A           83 YSVAPANIIVIHDDLDLEFGRI  104 (191)
T ss_dssp             TTCCGGGEEEEEEETTSCTTCE
T ss_pred             hCCCHHHEEEEecccCCCCceE
Confidence            9999999999999999999974

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

Probab=100.00  E-value=1.3e-43  Score=295.50  Aligned_cols=101  Identities=35%  Similarity=0.479  Sum_probs=96.5

Q ss_pred             CceEEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCccc-ceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHHH
Q 030503           74 HPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSV-NFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSY  152 (176)
Q Consensus        74 ~~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~~~-k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~~  152 (176)
                      .++|||||||||++|++|||||||+++|+||++++.++++. +|++.++++.+++++|+|+||+||||+||++|+++++|
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            47899999999999999999999999999999999998765 68899999999999999999999999999999999999


Q ss_pred             cCCCCCcEEEEEecCCCCcccC
Q 030503          153 YKIPLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       153 yki~pe~ILVIHDDLDLplGk~  174 (176)
                      |++++++|||||||||||+|+.
T Consensus       102 yki~~e~ilVihDdLDLp~G~i  123 (207)
T 3nea_A          102 YKIAPAEILVVHDELDIDSGEI  123 (207)
T ss_dssp             HTCCGGGEEEEEEETTSCTTCE
T ss_pred             hCCCHHHEEEEEEcCCCCCceE
Confidence            9999999999999999999974

>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=6.4e-43  Score=293.91  Aligned_cols=102  Identities=38%  Similarity=0.579  Sum_probs=96.4

Q ss_pred             CCceEEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCccc-ceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHH
Q 030503           73 QHPWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSV-NFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVS  151 (176)
Q Consensus        73 ~~~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~~~-k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~  151 (176)
                      +.++|||||||||++|++|||||||+++|+||++++.++.+. +|++.++++.+++++|+|+||+||||+||++|+++++
T Consensus        21 m~~~LIVGLGNPG~~Y~~TRHNiGf~vvD~La~~~~~~~~~~~kf~~~~~~~~~~g~~v~LlKP~TyMNlSG~aV~~~~~  100 (222)
T 3v2i_A           21 SMIKLIVGLGNPGAEYTATRHNAGFWLVDQLAREAGATLRDERRFHGFYAKARLYGEEVHLLEPQTYMNRSGQSVVALAH  100 (222)
T ss_dssp             -CCCEEEECCCCSGGGTTSGGGHHHHHHHHHHHHHTCCCEEEGGGTEEEEEEEETTEEEEEEEECSCGGGHHHHHHHHHH
T ss_pred             ceEEEEEEeCCCchhhCcCchHHHHHHHHHHHHHcCCCcccccccceEEEEEEECCeEEEEEeCCcchhcccHHHHHHHH
Confidence            567999999999999999999999999999999999988654 6889999999999999999999999999999999999


Q ss_pred             HcCCCCCcEEEEEecCCCCcccC
Q 030503          152 YYKIPLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       152 ~yki~pe~ILVIHDDLDLplGk~  174 (176)
                      ||+|++++|||||||||||+|+.
T Consensus       101 ~yki~~e~ilVihDdLDLp~G~i  123 (222)
T 3v2i_A          101 FFKILPNEILVAHDELDLPPGAV  123 (222)
T ss_dssp             HHTCCGGGEEEEEEETTSCTTCE
T ss_pred             HhCCCHHHEEEEEecCCCCCceE
Confidence            99999999999999999999974

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

Probab=100.00  E-value=7.4e-43  Score=289.36  Aligned_cols=100  Identities=36%  Similarity=0.545  Sum_probs=95.0

Q ss_pred             ceEEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCcc-cceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHHHc
Q 030503           75 PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSS-VNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYY  153 (176)
Q Consensus        75 ~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~~-~k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~~y  153 (176)
                      .-|||||||||++|++|||||||+++|+||++++.++.+ .+|++.++++.+++++|+|+||+||||+||++|+++++||
T Consensus        10 ~~lIvGLGNPG~~Y~~TRHNvGf~vlD~La~~~~~~~~~~~k~~~~~~~~~~~g~~v~LlKP~TyMNlSG~aV~~~~~~y   89 (199)
T 4fyj_A           10 VQLIVGLGNPGPEYDQTRHNAGALFVERLAHAQGVSLVADRKYFGLVGKFSHQGKDVRLLIPTTYMNRSGQSVAALAGFF   89 (199)
T ss_dssp             CCEEEECCCCSGGGTTCGGGHHHHHHHHHHHHTTCCCEEEGGGTEEEEEEEETTEEEEEEEECSCGGGHHHHHHHHHHHT
T ss_pred             eeEEEEeCCCchhhCcCchHHHHHHHHHHHHHcCCCcccccccceEEEEEEECCeEEEEEeCCcchhCChHHHHHHHHHh
Confidence            459999999999999999999999999999999998764 4688999999999999999999999999999999999999


Q ss_pred             CCCCCcEEEEEecCCCCcccC
Q 030503          154 KIPLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       154 ki~pe~ILVIHDDLDLplGk~  174 (176)
                      +|++++|||||||||||+|+.
T Consensus        90 ki~~~~ilVihDdldLp~G~i  110 (199)
T 4fyj_A           90 RIAPDAILVAHDELDMPPGVA  110 (199)
T ss_dssp             TCCGGGEEEEEEETTSCTTCE
T ss_pred             CCCHHHEEEEEecCCCCCceE
Confidence            999999999999999999974

>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=1.9e-42  Score=285.56  Aligned_cols=100  Identities=38%  Similarity=0.585  Sum_probs=95.3

Q ss_pred             ceEEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCcc-cceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHHHc
Q 030503           75 PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSS-VNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYY  153 (176)
Q Consensus        75 ~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~~-~k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~~y  153 (176)
                      .+|||||||||++|++|||||||+++|.||++++.+++. +++.+.++++.+++++++|+||+||||+||++|+++++||
T Consensus         4 ikLIVGLGNPG~~Y~~TRHNiGf~~ld~La~~~~~~~~~~~k~~~~~~~~~~~~~~v~l~kP~TyMN~SG~aV~~~~~~~   83 (193)
T 4hoy_A            4 ISLIVGLGNPGSEYAQTRHNAGFWFVEQLADKYGITLKNDPKFHGISGRGNIEGHDVRLLLPMTYMNRSGQSVVPFSKFY   83 (193)
T ss_dssp             CCEEEECCCCSTTTTTBGGGHHHHHHHHHHHHTTCCCEEEGGGTEEEEEEEETTEEEEEEEECSCGGGTHHHHHHHHHHT
T ss_pred             ceEEEEcCCCchhhCcCcccHHHHHHHHHHHHcCCCccccccccEEEEEEEECCEEEEEEeCCCccccchhhHHHHHHHc
Confidence            579999999999999999999999999999999999865 4788999999999999999999999999999999999999


Q ss_pred             CCCCCcEEEEEecCCCCcccC
Q 030503          154 KIPLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       154 ki~pe~ILVIHDDLDLplGk~  174 (176)
                      ++++++|||||||||||+|+.
T Consensus        84 ki~~~~ilVihDdldL~~G~i  104 (193)
T 4hoy_A           84 QIAPEAILIAHDELDMNPGVI  104 (193)
T ss_dssp             TCCGGGEEEEEEETTSCTTCE
T ss_pred             CCCchheEEeeeccccccCce
Confidence            999999999999999999974

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

Probab=100.00  E-value=5.3e-44  Score=295.18  Aligned_cols=100  Identities=36%  Similarity=0.543  Sum_probs=94.8

Q ss_pred             ceEEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCc-ccceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHHHc
Q 030503           75 PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVS-SVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYY  153 (176)
Q Consensus        75 ~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~-~~k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~~y  153 (176)
                      ++|||||||||++|++|||||||+++|+||++++.++. +.++++.++++.+++++|+|+||+||||+||++|+++++||
T Consensus         4 m~LIvGLGNPG~~Y~~TRHNiGf~viD~La~~~~~~~~~~~k~~~~~~~~~~~g~~v~LlKP~TyMNlSG~aV~~~~~fy   83 (194)
T 4fno_A            4 VQLIVGLGNPGPEYDQTRHNAGALFVERLAHAQGVSLVADRKYFGLVGKFSHQGKDVRLLIPTTYMNRSGQSVAALAGFF   83 (194)
Confidence            57999999999999999999999999999999998876 45688999998898999999999999999999999999999


Q ss_pred             CCCCCcEEEEEecCCCCcccC
Q 030503          154 KIPLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       154 ki~pe~ILVIHDDLDLplGk~  174 (176)
                      +|++++|||||||||||+|+.
T Consensus        84 ki~~~~ilVihDdldLp~G~i  104 (194)
T 4fno_A           84 RIAPDAILVAHDELDMPPGVA  104 (194)
Confidence            999999999999999999974

---

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	176
d1ryba_	191	c.56.3.1 (A:) Chloroplast group II intron splicing	5e-26
d2ptha_	193	c.56.3.1 (A:) Peptidyl-tRNA hydrolase {Escherichia	3e-23

>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 = 96.3 bits (239), Expect = 5e-26
 Identities = 49/88 (55%), Positives = 70/88 (79%)

Query: 75  PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAK 134
           PWLI GLGNPG +Y GTRHNVGFEMVD IA  EGI+++++  K+  G G IG VPV++ K
Sbjct: 3   PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVK 62

Query: 135 PQTFMNASGQSVGSIVSYYKIPLKQVLV 162
           PQ++MN SG+++G + +YY++PL+ +L+
Sbjct: 63  PQSYMNYSGEAIGPLAAYYQVPLRHILL 90

>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 = 88.9 bits (220), Expect = 3e-23
 Identities = 34/87 (39%), Positives = 49/87 (56%), Gaps = 1/87 (1%)

Query: 77  LIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVS-SVNFKAHFGKGFIGNVPVMLAKP 135
           LIVGL NPG +Y  TRHN G   VD +AE     +     F  +  +  +G   V L  P
Sbjct: 4   LIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLREEAKFFGYTSRVTLGGEDVRLLVP 63

Query: 136 QTFMNASGQSVGSIVSYYKIPLKQVLV 162
            TFMN SG++V ++ S+++I   ++LV
Sbjct: 64  TTFMNLSGKAVAAMASFFRINPDEILV 90

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	176
d1ryba_	191	Chloroplast group II intron splicing factor Crs2 {	100.0
d2ptha_	193	Peptidyl-tRNA hydrolase {Escherichia coli [TaxId:	100.0
d1cfza_	162	Hydrogenase maturating endopeptidase HybD {Escheri	84.83

>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=5e-41  Score=274.42  Aligned_cols=100  Identities=50%  Similarity=0.937  Sum_probs=95.9

Q ss_pred             ceEEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCcccceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHHHcC
Q 030503           75 PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSSVNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYYK  154 (176)
Q Consensus        75 ~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~~~k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~~yk  154 (176)
                      +||||||||||++|++|||||||+++|.||++++..++..++++.++.+.+++.+|+|+||+||||+||++|++++++|+
T Consensus         3 p~LIvGLGNPG~~Y~~TRHNiG~~~ld~la~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~tyMN~SG~av~~~~~~~~   82 (191)
T d1ryba_           3 PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVKPQSYMNYSGEAIGPLAAYYQ   82 (191)
T ss_dssp             CEEEEECCCCSGGGTTBGGGHHHHHHHHHHHHTTCCCCEEETTEEEEEEEETTEEEEEEEECSCGGGHHHHHHHHHHHTT
T ss_pred             ceEEEEcCCCCccccCCccHHHHHHHHHHHHHcCCCcccccccceEEEEeccCceEEEEecCcccccccHHHHHHHHhhc
Confidence            58999999999999999999999999999999999988778888999999999999999999999999999999999999


Q ss_pred             CCCCcEEEEEecCCCCcccC
Q 030503          155 IPLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       155 i~pe~ILVIHDDLDLplGk~  174 (176)
                      +++++|||||||||||+|+.
T Consensus        83 i~~~~ilVihDDldl~~G~i  102 (191)
T d1ryba_          83 VPLRHILLIYDDTSLPNGVL  102 (191)
T ss_dssp             CCGGGEEEEEEETTSCTTCE
T ss_pred             cCcceeEEEEcccccccCce
Confidence            99999999999999999973

>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=2.9e-40  Score=269.93  Aligned_cols=100  Identities=35%  Similarity=0.499  Sum_probs=94.5

Q ss_pred             ceEEEEccCcccccCcCcchHHHHHHHHHHHHhCCCCcc-cceeeEEEEEEECCeeEEEEecCcccccchHHHHHHHHHc
Q 030503           75 PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEGISVSS-VNFKAHFGKGFIGNVPVMLAKPQTFMNASGQSVGSIVSYY  153 (176)
Q Consensus        75 ~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~~~~~~-~k~~g~~a~~~i~~~~ViLlKP~TYMNlSG~aV~~l~~~y  153 (176)
                      ++|||||||||++|++|||||||+++|.|+++++.+++. .++.+.++...+.+.+++|+||+||||+||++|++++++|
T Consensus         2 mklivGLGNPG~~Y~~TRHNiG~~~ld~la~~~~~~~~~~~~~~~~~~~~~~~~~~v~l~kP~tyMN~SG~~v~~~~~~~   81 (193)
T d2ptha_           2 IKLIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLREEAKFFGYTSRVTLGGEDVRLLVPTTFMNLSGKAVAAMASFF   81 (193)
T ss_dssp             CCEEEECCCCSTTTTTSGGGHHHHHHHHHHHHHTCCCEEEGGGTEEEEEEEETTEEEEEEEECSCGGGTHHHHHHHHHHH
T ss_pred             EEEEEECCCCchhhCcCchHHHHHHHHHHHHHcCCCcccccccceeeeeeeecCceEEEEecceeccccchhHHHHHHHh
Confidence            679999999999999999999999999999999998764 3577888999999999999999999999999999999999


Q ss_pred             CCCCCcEEEEEecCCCCcccC
Q 030503          154 KIPLKQVLVRQNIFILFYRYS  174 (176)
Q Consensus       154 ki~pe~ILVIHDDLDLplGk~  174 (176)
                      ++++++|+|||||||||+|+.
T Consensus        82 ~i~~~~ilVihDDldl~~G~i  102 (193)
T d2ptha_          82 RINPDEILVAHDELDLPPGVA  102 (193)
T ss_dssp             TCCGGGEEEEEEETTSCTTCE
T ss_pred             CCCHHHeEEEecchhccCCCc
Confidence            999999999999999999974

>d1cfza_ c.56.1.1 (A:) Hydrogenase maturating endopeptidase HybD {Escherichia coli [TaxId: 562]}

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

Probab=84.83  E-value=0.4  Score=35.23  Aligned_cols=30  Identities=27%  Similarity=0.377  Sum_probs=24.7

Q ss_pred             ceEEEEccCcccccCcCcchHHHHHHHHHHHHhC
Q 030503           75 PWLIVGLGNPGKQYNGTRHNVGFEMVDAIAEAEG  108 (176)
Q Consensus        75 ~~LIVGLGNPG~kY~~TRHNVGf~vLD~La~~~~  108 (176)
                      +.+|+|+|||-    ..-==+|..+++.|++++.
T Consensus         2 rilVlGiGN~l----~gDDgvG~~v~~~L~~~~~   31 (162)
T d1cfza_           2 RILVLGVGNIL----LTDEAIGVRIVEALEQRYI   31 (162)
T ss_dssp             CEEEEEESCTT----BGGGGHHHHHHHHHHHHEE
T ss_pred             eEEEEEECCcc----cccCcHHHHHHHHHHHhcC
Confidence            37899999993    4555699999999999864