Citrus Sinensis ID: 023905

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-----
Protein Sequence
MPISSLSPIGHCPPSLSLKCNFPFRPTRKASILASPKQPLIFTTKRTTTHIVSMSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEEcccEEEEcccccEEEEEEEEEccccEEEEEEccccccccEEEEEcccccccccccccccHHHHcccccccEEEEEEcccccccccccEEEcccccccccEEEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccEEEEEEccccEEEEEcccccccccEEEEEEccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccEEEEEccccccccccccEEEcccccccccccccccccEcccHHHEEEEEEEEcccEEEEcccccEEEEEEEEEccccEEEEEEEccccccEEEEEEcccccHHHccccHccHHHHcccccccEEEEEEEccccccEcccEEEHHHHHccccEEEEEEcccccccHHHHHHcccccccccccccccccccccccccccccccccccccccccccEEEEEEEEEEEEcccccEEEEEcccccccccEEEEEEcEccccccccc
Coil and Loop (DISEMBL)
mpisslspighcppslslkcnfpfrptrkasilaspkqplifttkrttTHIVSMSYEAgigvmgtklgmmsyfepdgtvvpVTVVgfregnivtqvkteatdgydavqIGYRrvrdkkltkpelghlqksglipmrHLQEFRLQSIDGFEAGQKLAFEEIfnegdlvdvsgttigkgfqggikrhnfrrgamthgskshrqlgsigagttpgrvykgkkmpgrmggttrKIRKLKIVKIDNDLRVVMIkgavpgkpgnllrvapakivgknipkn
Flexible Loop (DISEMBL)
mpisslspighcppslsLKCNFPFRPTRkasilaspkqplifttkrttthiVSMSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREgnivtqvkteatdgydavqigyrrvrdkkltkpelghlqksglipmRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMThgskshrqlgsigagttpgrvykgkkmpgrmggttrkirklkivkidndlrVVMIKgavpgkpgnllrvapakivgknipkn
Low Complexity Region (SEG)
MPISSLSPIGHCPPSLSLKCNFPFRPTRKASILASPKQPLIFTTKRTTTHIVSMSYEAGIGVMGTKLGMMSYFEpdgtvvpvtvvgFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN
Disordered region (IsUnstruct)
****************SLKCNFPFRPTRKASILASPKQPLIFTTKRTTTHIVSMSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTT*******************************************************RKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIV*******
Disordered Region (DISOPRED)
**********************************************************GIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFR**************GSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAK*********
Disordered Region (DISEMBL)
********IGHCPPSLSLKCNFPFRPTRKASILASPKQPLIFTTKRTTTHIVSMSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRG***********LGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN
Disordered Region (DISPRO)
**********HCPPSLSLKCNFPFRPTRKASILASPKQPLIFTTKRTTTHIVSMSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRR***************IGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGK*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPISSLSPIGHCPPSLSLKCNFPFRPTRKASILASPKQPLIFTTKRTTTHIVSMSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN
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	275	2.2.26 [Sep-21-2011]
O80360	259	50S ribosomal protein L3,	N/A	no	0.847	0.899	0.827	1e-104
Q9SKX4	271	50S ribosomal protein L3-	yes	no	0.829	0.841	0.842	1e-101
B0C1D3	212	50S ribosomal protein L3	yes	no	0.76	0.985	0.568	5e-64
B1XJT9	213	50S ribosomal protein L3	yes	no	0.756	0.976	0.572	3e-63
B0JI03	212	50S ribosomal protein L3	yes	no	0.756	0.981	0.577	2e-62
B7KHY7	212	50S ribosomal protein L3	yes	no	0.756	0.981	0.572	3e-62
Q7XYP4	302	50S ribosomal protein L3,	N/A	no	0.774	0.705	0.509	5e-61
B1WQQ9	212	50S ribosomal protein L3	yes	no	0.76	0.985	0.556	8e-61
Q8DMN1	212	50S ribosomal protein L3	yes	no	0.756	0.981	0.542	1e-60
O24689	213	50S ribosomal protein L3	yes	no	0.76	0.981	0.553	9e-60

>sp|O80360|RK3_TOBAC 50S ribosomal protein L3, chloroplastic (Fragment) OS=Nicotiana tabacum GN=RPL3 PE=2 SV=1

 Score =  378 bits (971), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 196/237 (82%), Positives = 216/237 (91%), Gaps = 4/237 (1%)

Query: 43  TTKRTTTHI----VSMSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKT 98
           T K T+ HI    +S S EAG+GVM TKLGMMS+FE  GTVVPVTVVGFREGNIVTQ+KT
Sbjct: 23  THKPTSLHISKSSISASLEAGVGVMATKLGMMSFFEESGTVVPVTVVGFREGNIVTQIKT 82

Query: 99  EATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFE 158
           EATDGY+AVQ+GYRRVRD+KLTKPE+GHL+KSG+IP+RHLQEFRLQSIDGFE  QKL F 
Sbjct: 83  EATDGYNAVQVGYRRVRDRKLTKPEMGHLEKSGIIPLRHLQEFRLQSIDGFEVTQKLDFG 142

Query: 159 EIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGK 218
           E+F EGDLVDVSGTTIGKGFQGGIKRHNF+RG MTHGSKSHRQLGSIGAGTTPGRVYKGK
Sbjct: 143 ELFKEGDLVDVSGTTIGKGFQGGIKRHNFKRGQMTHGSKSHRQLGSIGAGTTPGRVYKGK 202

Query: 219 KMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN 275
           KMPGRMGGT RKIRKLKIVKID+ L ++MIKGA+PGKPGNLLR+APAKIVGKNIPK+
Sbjct: 203 KMPGRMGGTKRKIRKLKIVKIDDQLNIIMIKGALPGKPGNLLRIAPAKIVGKNIPKS 259

One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.
Nicotiana tabacum (taxid: 4097)

>sp|Q9SKX4|RK3A_ARATH 50S ribosomal protein L3-1, chloroplastic OS=Arabidopsis thaliana GN=RPL3A PE=1 SV=1

 Score =  368 bits (945), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 192/228 (84%), Positives = 207/228 (90%)

Query: 48  TTHIVSMSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAV 107
           T  +VS S EAGIGVMG+KLGMMS+FE DGTVVPVTVVGFREGNIVTQ+KT ATDGYDAV
Sbjct: 44  TRFVVSSSMEAGIGVMGSKLGMMSFFEEDGTVVPVTVVGFREGNIVTQIKTLATDGYDAV 103

Query: 108 QIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLV 167
           QIGYRRVRDKKLTKPE GHLQK+G IPMRHLQEFRL +I+GFE  QKL F+EIF EGDLV
Sbjct: 104 QIGYRRVRDKKLTKPETGHLQKAGTIPMRHLQEFRLTNIEGFEPNQKLVFDEIFKEGDLV 163

Query: 168 DVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGT 227
           DV+GTTIGKGFQGGIKRH+F+RG MTHGSKSHR LGSIGAGTTPGRVYKGKKMPGRMGGT
Sbjct: 164 DVAGTTIGKGFQGGIKRHHFKRGQMTHGSKSHRALGSIGAGTTPGRVYKGKKMPGRMGGT 223

Query: 228 TRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN 275
             KIRKLKIVK+D +L VVMIKGA+PGKPGNLLR+ PAKIVG NIPKN
Sbjct: 224 RTKIRKLKIVKVDKELNVVMIKGALPGKPGNLLRITPAKIVGVNIPKN 271

One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Arabidopsis thaliana (taxid: 3702)

>sp|B0C1D3|RL3_ACAM1 50S ribosomal protein L3 OS=Acaryochloris marina (strain MBIC 11017) GN=rplC PE=3 SV=1

 Score =  244 bits (623), Expect = 5e-64,   Method: Compositional matrix adjust.
 Identities = 121/213 (56%), Positives = 159/213 (74%), Gaps = 4/213 (1%)

Query: 60  IGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNI-VTQVKTEATDGYDAVQIGYRRVRDKK 118
           +G++GTKLGM   F+  G  +PVTVV  + G   VTQ+KT  TDGY A+QIGY    +K 
Sbjct: 3   VGILGTKLGMTQVFDEAGRAIPVTVV--QAGPCPVTQIKTAQTDGYTAIQIGYGSTTEKA 60

Query: 119 LTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGF 178
           LT+PELGHL+KSG  P+RHLQE+RL  +  +E GQ ++  ++F+EG LVD+SGT+IG+GF
Sbjct: 61  LTRPELGHLKKSGSTPVRHLQEYRLADVSEYELGQSIS-ADLFSEGQLVDISGTSIGRGF 119

Query: 179 QGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVK 238
            G  KRHNFRRG M HGSK+HR  GS GAGTTPGR+Y GK+M G+MG   + IRKL +V+
Sbjct: 120 AGYQKRHNFRRGPMGHGSKNHRAPGSTGAGTTPGRIYPGKRMAGQMGNVKKTIRKLTVVR 179

Query: 239 IDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKN 271
           +D +  V++IKG+VPGKPG LL + PA IVG++
Sbjct: 180 VDAERNVLLIKGSVPGKPGALLNIQPATIVGES 212

One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Acaryochloris marina (strain MBIC 11017) (taxid: 329726)

>sp|B1XJT9|RL3_SYNP2 50S ribosomal protein L3 OS=Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) GN=rplC PE=3 SV=1

 Score =  242 bits (617), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 122/213 (57%), Positives = 160/213 (75%), Gaps = 5/213 (2%)

Query: 60  IGVMGTKLGMMSYFEPD-GTVVPVTVVGFREG-NIVTQVKTEATDGYDAVQIGYRRVRDK 117
           +G++GTKLGM   F+ + GT +PVTVV  + G   VTQ+KT  TDGY +VQIGY  V++K
Sbjct: 3   LGILGTKLGMTQIFDNETGTAIPVTVV--QAGPCTVTQIKTSETDGYTSVQIGYGDVKEK 60

Query: 118 KLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKG 177
            LTKP+LGHL+K+   P+RHL+E+RL  + G+E GQ +    IF  G +VDVSG TIG+G
Sbjct: 61  NLTKPQLGHLKKADAAPLRHLKEYRLDDVSGYELGQAIT-ANIFEAGQVVDVSGNTIGRG 119

Query: 178 FQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIV 237
           F G  KRHNF+RG MTHGSK+HR  GS GAGTTPGRVY GK+M GR GGT   +RKL++V
Sbjct: 120 FAGYQKRHNFKRGNMTHGSKNHRLPGSTGAGTTPGRVYPGKRMAGRYGGTKITVRKLEVV 179

Query: 238 KIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGK 270
           ++D +  +++IKGA+PGK GNLL +AP+ IVG+
Sbjct: 180 RVDEEKNLLLIKGAIPGKAGNLLSIAPSNIVGQ 212

One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) (taxid: 32049)

>sp|B0JI03|RL3_MICAN 50S ribosomal protein L3 OS=Microcystis aeruginosa (strain NIES-843) GN=rplC PE=3 SV=1

 Score =  239 bits (609), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 123/213 (57%), Positives = 159/213 (74%), Gaps = 5/213 (2%)

Query: 60  IGVMGTKLGMMSYFE-PDGTVVPVTVVGFREGNI-VTQVKTEATDGYDAVQIGYRRVRDK 117
           IG++GTKLGM   F+   G  +PVTVV  + G   VTQVKT+ TDGY+++Q+GY+ V++K
Sbjct: 3   IGILGTKLGMTQIFDNKTGVAIPVTVV--QAGPCPVTQVKTKKTDGYESIQVGYKTVKEK 60

Query: 118 KLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKG 177
            L KP LGHL K+G+ P+RHL E+RL+    +  GQ++   +IF EGDLVDV+GTTIG+G
Sbjct: 61  ALNKPLLGHLAKAGVSPLRHLIEYRLEDASAYTLGQEIT-ADIFQEGDLVDVAGTTIGRG 119

Query: 178 FQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIV 237
           F G  KRHNF+RG MTHGSK+HR  GS GAGTTPGRV+ GK+M G+ G T   IRKL +V
Sbjct: 120 FSGYQKRHNFKRGNMTHGSKNHRLPGSTGAGTTPGRVFPGKRMAGQYGSTQVTIRKLSVV 179

Query: 238 KIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGK 270
           KID++  +++IKGAVPGKPG LL + PAK  GK
Sbjct: 180 KIDSERNLILIKGAVPGKPGTLLNITPAKKFGK 212

One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Microcystis aeruginosa (strain NIES-843) (taxid: 449447)

>sp|B7KHY7|RL3_CYAP7 50S ribosomal protein L3 OS=Cyanothece sp. (strain PCC 7424) GN=rplC PE=3 SV=1

 Score =  238 bits (607), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 122/213 (57%), Positives = 160/213 (75%), Gaps = 5/213 (2%)

Query: 60  IGVMGTKLGMMSYFEPD-GTVVPVTVVGFREGNI-VTQVKTEATDGYDAVQIGYRRVRDK 117
           +G++GTKLGM   F+ + G  +PVTV+    G   +TQVKT ATDGY+++QIGY  V++K
Sbjct: 3   VGILGTKLGMTQIFDKETGIAIPVTVI--HAGPCPITQVKTPATDGYNSIQIGYGEVKEK 60

Query: 118 KLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKG 177
            L KP+LGHL+KS   P+RHL+E+RL++   ++ G  +  + +F  GDLVDV+G TIG+G
Sbjct: 61  ALNKPKLGHLKKSASTPVRHLKEYRLENAADYQLGDGIKVD-LFKPGDLVDVAGKTIGRG 119

Query: 178 FQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIV 237
           F G  KRHNF+RG+MTHGSK+HR  GS GAGTTPGRVY GK+M GR GGT   IRKL +V
Sbjct: 120 FAGYQKRHNFKRGSMTHGSKNHRLPGSTGAGTTPGRVYPGKRMAGRYGGTQVTIRKLTVV 179

Query: 238 KIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGK 270
           +ID +  +++IKGAVPGKPGNLL + PAK VGK
Sbjct: 180 QIDTERNLILIKGAVPGKPGNLLSITPAKTVGK 212

One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Cyanothece sp. (strain PCC 7424) (taxid: 65393)

>sp|Q7XYP4|RK3_BIGNA 50S ribosomal protein L3, chloroplastic OS=Bigelowiella natans GN=RPL3 PE=2 SV=1

 Score =  234 bits (597), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 109/214 (50%), Positives = 154/214 (71%), Gaps = 1/214 (0%)

Query: 60  IGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKL 119
           +G+MGTK GM +Y++ +G   PVTV+    GN+VTQVKT+ TDGYDAVQ+ Y+  RD+ +
Sbjct: 89  MGLMGTKAGMTTYYDDEGIAHPVTVIALEAGNVVTQVKTKETDGYDAVQLAYKETRDRTI 148

Query: 120 TKPELGHLQKSGLI-PMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGF 178
             PE  HL+K G +  M+HL+EF++  +  F  GQ+L  EE+F  GDLVDVSGT+ GKGF
Sbjct: 149 PWPERQHLRKHGNVKAMKHLKEFKIADVSEFTPGQQLKAEELFEVGDLVDVSGTSSGKGF 208

Query: 179 QGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVK 238
           QG I+R   +RG M+HGSKSHRQ GSIG   TP RVYKG KM GRMG   + ++KL ++ 
Sbjct: 209 QGSIRRWGMKRGPMSHGSKSHRQHGSIGCSATPSRVYKGLKMAGRMGNERKTVKKLPVMM 268

Query: 239 IDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNI 272
           ++++ + ++++G+VPGK G ++ + P KIVGK+ 
Sbjct: 269 VNDEEKYIVVRGSVPGKKGTIVELRPTKIVGKHC 302

One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Bigelowiella natans (taxid: 227086)

>sp|B1WQQ9|RL3_CYAA5 50S ribosomal protein L3 OS=Cyanothece sp. (strain ATCC 51142) GN=rplC PE=3 SV=1

 Score =  233 bits (595), Expect = 8e-61,   Method: Compositional matrix adjust.
 Identities = 118/212 (55%), Positives = 154/212 (72%), Gaps = 3/212 (1%)

Query: 60  IGVMGTKLGMMSYFEPD-GTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKK 118
           +G++GTKLGM   FE + G  +PVTVV      I TQ+KT  TDGY A+QIGY  V++K 
Sbjct: 3   VGLLGTKLGMTQIFEEESGLAIPVTVVQAGPCTI-TQIKTAETDGYSAIQIGYLEVKEKA 61

Query: 119 LTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGF 178
           LTKPELGHL+K    P+RHL+E+R+     +  G+ +   +IFN GDLVD++GT++G+GF
Sbjct: 62  LTKPELGHLKKVEASPLRHLKEYRVDDTATYTLGEAVK-ADIFNAGDLVDIAGTSMGRGF 120

Query: 179 QGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVK 238
            G  KRHNF+RG+MTHGSK+HR  GS GAGTTPGRVY GKKM G+ G      R L++V+
Sbjct: 121 AGYQKRHNFKRGSMTHGSKNHRLPGSTGAGTTPGRVYPGKKMAGQYGAVKTTTRHLQVVR 180

Query: 239 IDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGK 270
           +D +  +++IKGAVPGKPG LL + PAKIVGK
Sbjct: 181 VDAERNLLLIKGAVPGKPGGLLNITPAKIVGK 212

One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Cyanothece sp. (strain ATCC 51142) (taxid: 43989)

>sp|Q8DMN1|RL3_THEEB 50S ribosomal protein L3 OS=Thermosynechococcus elongatus (strain BP-1) GN=rplC PE=3 SV=1

 Score =  233 bits (594), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 115/212 (54%), Positives = 156/212 (73%), Gaps = 4/212 (1%)

Query: 60  IGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNI-VTQVKTEATDGYDAVQIGYRRVRDKK 118
           +G++GTKLGM   F+  G  VP+TVV  + G   +TQ+KT  TDGY A+Q+ Y  VR+K 
Sbjct: 3   VGILGTKLGMTQIFDEAGRSVPITVV--QAGPCPITQIKTPQTDGYTAIQVAYGEVREKN 60

Query: 119 LTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGF 178
           L++PE GHL KS   PMRHL+EFRL+ +  ++ GQ +  + IF+ G LVDV GT+IG+GF
Sbjct: 61  LSRPERGHLNKSQTPPMRHLREFRLEDVSAYQLGQAITVD-IFSPGQLVDVRGTSIGRGF 119

Query: 179 QGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVK 238
            G  KRHNF+RG M HGSK+HR  GS GAGTTPGRV+ GK+M GRMG T   IRKL++++
Sbjct: 120 AGYQKRHNFKRGPMAHGSKNHRLPGSTGAGTTPGRVFPGKRMAGRMGNTAVTIRKLQVMR 179

Query: 239 IDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGK 270
           +D +  +++IKGA+PGKPG L+ + PAK+VG+
Sbjct: 180 VDPERNLILIKGALPGKPGALVSITPAKVVGR 211

One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Thermosynechococcus elongatus (strain BP-1) (taxid: 197221)

>sp|O24689|RL3_SYNP6 50S ribosomal protein L3 OS=Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) GN=rplC PE=3 SV=1

 Score =  230 bits (586), Expect = 9e-60,   Method: Compositional matrix adjust.
 Identities = 118/213 (55%), Positives = 151/213 (70%), Gaps = 4/213 (1%)

Query: 60  IGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNI-VTQVKTEATDGYDAVQIGYRRVRDKK 118
           IG++GTKLGM   F+  G  VPVTV+  + G   +TQ+KT ATDGY+A+QIG+  VR+K+
Sbjct: 3   IGILGTKLGMTQIFDESGKAVPVTVI--QAGPCPITQIKTVATDGYNAIQIGFLEVREKQ 60

Query: 119 LTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGF 178
           L+KPELGHL K+G  P+RHL E+R+ S DG E GQ L  +  F  G  VDV G TIG+GF
Sbjct: 61  LSKPELGHLSKAGAPPLRHLLEYRVPSTDGLELGQALTADR-FEAGQKVDVQGHTIGRGF 119

Query: 179 QGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVK 238
            G  KRH F RG M+HGSK+HR  GS GAGTTPGRVY GK+M GR G     IR L +V+
Sbjct: 120 TGYQKRHGFARGPMSHGSKNHRLPGSTGAGTTPGRVYPGKRMAGRSGNDKTTIRGLTVVR 179

Query: 239 IDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKN 271
           +D D  ++++KG+VPGKPG LL + PA +VG+ 
Sbjct: 180 VDADRNLLLVKGSVPGKPGALLNITPATVVGQQ 212

One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) (taxid: 269084)

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	275
356507166	263	PREDICTED: 50S ribosomal protein L3-1, c	0.909	0.950	0.815	1e-111
255565958	285	50S ribosomal protein L3, putative [Rici	0.992	0.957	0.756	1e-111
225436243	281	PREDICTED: 50S ribosomal protein L3-1, c	0.850	0.832	0.846	1e-111
224123986	222	predicted protein [Populus trichocarpa]	0.807	1.0	0.878	1e-110
357467579	272	50S ribosomal protein L3 [Medicago trunc	0.84	0.849	0.831	1e-110
449454648	291	PREDICTED: 50S ribosomal protein L3, chl	0.985	0.931	0.734	1e-109
356516348	264	PREDICTED: 50S ribosomal protein L3-1, c	0.814	0.848	0.866	1e-108
449473944	294	PREDICTED: 50S ribosomal protein L3, chl	0.883	0.826	0.765	1e-108
255639119	264	unknown [Glycine max]	0.814	0.848	0.861	1e-108
449498942	222	PREDICTED: 50S ribosomal protein L3, chl	0.807	1.0	0.855	1e-106

>gi|356507166|ref|XP_003522341.1| PREDICTED: 50S ribosomal protein L3-1, chloroplastic-like [Glycine max]

 Score =  407 bits (1047), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 208/255 (81%), Positives = 224/255 (87%), Gaps = 5/255 (1%)

Query: 26  PTRKASI-LASPKQPL--IFTT--KRTTTHIVSMSYEAGIGVMGTKLGMMSYFEPDGTVV 80
           PT + SI ++  +QPL   FT   +R     V MS EAGIGVMGTKLGMMSYFE DG VV
Sbjct: 9   PTYRCSISISISRQPLPCSFTAQVRRRGKGKVVMSMEAGIGVMGTKLGMMSYFESDGEVV 68

Query: 81  PVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQE 140
           PVTVVGF+EGNIVTQ+KTEATDGYDAVQ+GYRRVRD+KLTKPE+GHLQK G IPMRHLQE
Sbjct: 69  PVTVVGFKEGNIVTQIKTEATDGYDAVQVGYRRVRDRKLTKPEIGHLQKVGAIPMRHLQE 128

Query: 141 FRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHR 200
           FRLQ+IDGF+  Q+L F+EIF EGDLVDVSGTTIGKGFQGGIKRHNF+RG MTHGSKSHR
Sbjct: 129 FRLQAIDGFDLNQRLVFDEIFKEGDLVDVSGTTIGKGFQGGIKRHNFKRGPMTHGSKSHR 188

Query: 201 QLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLL 260
           QLGSIGAGTTPGRVYKGKKMPGRMGGT RKIRKLKIVKID DL VVMIKGAVPGKPGNLL
Sbjct: 189 QLGSIGAGTTPGRVYKGKKMPGRMGGTKRKIRKLKIVKIDKDLNVVMIKGAVPGKPGNLL 248

Query: 261 RVAPAKIVGKNIPKN 275
           R+ PAKIVGKNIPKN
Sbjct: 249 RITPAKIVGKNIPKN 263

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255565958|ref|XP_002523967.1| 50S ribosomal protein L3, putative [Ricinus communis] gi|223536694|gb|EEF38335.1| 50S ribosomal protein L3, putative [Ricinus communis]

 Score =  407 bits (1046), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 217/287 (75%), Positives = 238/287 (82%), Gaps = 14/287 (4%)

Query: 1   MPISSLSPIGHC------------PPSLSLKCNFPFRPTRKASILASPKQPLIFTTKRTT 48
           MPIS++SP+  C              ++SLK NF   P  K+  L +        TK + 
Sbjct: 1   MPISAISPVTQCYCTSSLVKTRTTSITISLKSNF-LSPISKSPFLKNV-TTCTNGTKTSG 58

Query: 49  THIVSMSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQ 108
             IV+MS EAGIGVMGTKLGMMSYFE DGTVVPVTVVGFREGNIVTQ+KTEATDGYD+VQ
Sbjct: 59  LSIVAMSMEAGIGVMGTKLGMMSYFESDGTVVPVTVVGFREGNIVTQIKTEATDGYDSVQ 118

Query: 109 IGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVD 168
           +GYRR+RD+KLTKPELGHL+K+G+IPMRHLQEFRLQ+IDGFE GQKL  EEIF EGDLVD
Sbjct: 119 VGYRRIRDRKLTKPELGHLEKAGVIPMRHLQEFRLQNIDGFEVGQKLVLEEIFKEGDLVD 178

Query: 169 VSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTT 228
           VSG TIGKGFQGGIKRHNF+RG MTHGSKSHR LGSIGAGTTPGRVYKGKKMPGRMGGT 
Sbjct: 179 VSGITIGKGFQGGIKRHNFKRGQMTHGSKSHRALGSIGAGTTPGRVYKGKKMPGRMGGTK 238

Query: 229 RKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN 275
            KIRKLKIVKIDNDLR VMIKGA+PGKPGNLLR+APAKIVGKNIPKN
Sbjct: 239 TKIRKLKIVKIDNDLRAVMIKGALPGKPGNLLRIAPAKIVGKNIPKN 285

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225436243|ref|XP_002271466.1| PREDICTED: 50S ribosomal protein L3-1, chloroplastic-like [Vitis vinifera]

 Score =  405 bits (1042), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 198/234 (84%), Positives = 212/234 (90%)

Query: 42  FTTKRTTTHIVSMSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEAT 101
           F + ++T  I+ MS EAG+GVM TKLGMMSYFEP+G VVPVTVVGFREGNIVTQVKTEAT
Sbjct: 48  FRSAKSTLPIIRMSMEAGVGVMATKLGMMSYFEPEGKVVPVTVVGFREGNIVTQVKTEAT 107

Query: 102 DGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIF 161
           DGY AVQ+GYRRVRD+KLTKPE+GHL+K+G IPMRHLQEFRL S+DGFE  QKL FEE+F
Sbjct: 108 DGYSAVQVGYRRVRDRKLTKPEMGHLEKAGTIPMRHLQEFRLVSVDGFEPNQKLVFEELF 167

Query: 162 NEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMP 221
            EGDLVDVSG TIGKGFQGGIKRHNFRRG MTHGSKSHR LGSIGAGTTPG VYKGKKMP
Sbjct: 168 KEGDLVDVSGITIGKGFQGGIKRHNFRRGPMTHGSKSHRALGSIGAGTTPGHVYKGKKMP 227

Query: 222 GRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN 275
           GRMGGT  KIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLR+ PAKIVGKNIPKN
Sbjct: 228 GRMGGTKTKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRITPAKIVGKNIPKN 281

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224123986|ref|XP_002319213.1| predicted protein [Populus trichocarpa] gi|222857589|gb|EEE95136.1| predicted protein [Populus trichocarpa]

 Score =  403 bits (1036), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 195/222 (87%), Positives = 212/222 (95%)

Query: 54  MSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRR 113
           MS EAG+GVMGTKLGMM+YFEP+G VVPVTVVGFREGNIVTQ+KT+ATDGYDAVQ+GYRR
Sbjct: 1   MSMEAGVGVMGTKLGMMTYFEPNGKVVPVTVVGFREGNIVTQIKTDATDGYDAVQVGYRR 60

Query: 114 VRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTT 173
           VRDKKLTKPE+GHL+K+G+IPMRHLQEFRLQ +DGFE GQKL FEE+F EGDLVDVSGTT
Sbjct: 61  VRDKKLTKPEMGHLEKAGVIPMRHLQEFRLQGLDGFEIGQKLLFEELFKEGDLVDVSGTT 120

Query: 174 IGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRK 233
           IGKGFQGGIKRHNF+RG M+HGSKSHR LGSIGAGTTPGRVYKGKKMPGRMGGT  KIRK
Sbjct: 121 IGKGFQGGIKRHNFKRGPMSHGSKSHRALGSIGAGTTPGRVYKGKKMPGRMGGTKTKIRK 180

Query: 234 LKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN 275
           LKIVKIDNDLRVVMIKGA+PGKPGNLLR+APAKIVGKNIPK+
Sbjct: 181 LKIVKIDNDLRVVMIKGALPGKPGNLLRIAPAKIVGKNIPKS 222

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357467579|ref|XP_003604074.1| 50S ribosomal protein L3 [Medicago truncatula] gi|355493122|gb|AES74325.1| 50S ribosomal protein L3 [Medicago truncatula]

 Score =  403 bits (1035), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 192/231 (83%), Positives = 215/231 (93%)

Query: 45  KRTTTHIVSMSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGY 104
           KR    +V MS EAG+GVMGTKLGMMS+F+P+G VVPVTVVGF+EGNIVTQ+KT+ATDGY
Sbjct: 42  KRGGAMVVKMSLEAGVGVMGTKLGMMSFFQPNGEVVPVTVVGFKEGNIVTQIKTDATDGY 101

Query: 105 DAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEG 164
           +AVQ+GYRRVRD+KLTKPE+GHL+K+G IPMRHLQEFRLQS+DGFE  Q+L F+E+FNEG
Sbjct: 102 NAVQVGYRRVRDRKLTKPEMGHLEKAGAIPMRHLQEFRLQSVDGFEPNQRLVFDELFNEG 161

Query: 165 DLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRM 224
           DLVDVSGTTIGKGFQGGIKRHNF+RG M+HGSKSHRQLGSIGAGTTPGRVYKGKKMPGRM
Sbjct: 162 DLVDVSGTTIGKGFQGGIKRHNFKRGPMSHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRM 221

Query: 225 GGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN 275
           GGT RK RKLKIVKID DL V+MIKGA+PGKPGNLLR+APAKIVGKNIPKN
Sbjct: 222 GGTNRKTRKLKIVKIDKDLNVIMIKGALPGKPGNLLRIAPAKIVGKNIPKN 272

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449454648|ref|XP_004145066.1| PREDICTED: 50S ribosomal protein L3, chloroplastic-like [Cucumis sativus]

 Score =  399 bits (1025), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 205/279 (73%), Positives = 233/279 (83%), Gaps = 8/279 (2%)

Query: 2   PISSLSPIGHCPPSLSLKCNF---PFRPTRKASI-LASPKQPLIFTTKRTTTHI-VSMSY 56
           PI + +P      SL+L+ +F   P +   K ++    P +P   TT+R +  + V MS 
Sbjct: 16  PIFTTNPSSSSSSSLTLRTSFLALPLKSHNKNNLRFHFPTRP---TTRRPSDGLSVCMSM 72

Query: 57  EAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRD 116
           EAGIGVM TKLGMMS+FEPDG VVPVTVVGF+EGNIVTQVKT+ATDGY AVQ+GYRRVRD
Sbjct: 73  EAGIGVMATKLGMMSFFEPDGKVVPVTVVGFKEGNIVTQVKTDATDGYSAVQVGYRRVRD 132

Query: 117 KKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGK 176
           +KLTKPELGHL+K+G IPMRHLQEFRL+S+D FE  Q+L F E+F EGDLVDVSGTTIGK
Sbjct: 133 RKLTKPELGHLEKAGAIPMRHLQEFRLESVDAFEPNQRLVFNELFKEGDLVDVSGTTIGK 192

Query: 177 GFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKI 236
           GFQGGIKRHNF+RG M+HGSKSHR LGSIGAGTTPGRVYKGKKMPGRMGGT RKIRKLKI
Sbjct: 193 GFQGGIKRHNFKRGPMSHGSKSHRALGSIGAGTTPGRVYKGKKMPGRMGGTKRKIRKLKI 252

Query: 237 VKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN 275
           VKID DL VVMIKGAVPGKPGNLLR+APAKIVG+NIPK+
Sbjct: 253 VKIDEDLNVVMIKGAVPGKPGNLLRIAPAKIVGQNIPKS 291

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356516348|ref|XP_003526857.1| PREDICTED: 50S ribosomal protein L3-1, chloroplastic-like [Glycine max]

 Score =  398 bits (1023), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 194/224 (86%), Positives = 207/224 (92%)

Query: 52  VSMSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGY 111
           V MS EAGIGVMGTKLGMMSYFE DG VVPVTVVGF+EGNIVTQ+KTEATDGYDAVQ+GY
Sbjct: 41  VVMSMEAGIGVMGTKLGMMSYFESDGEVVPVTVVGFKEGNIVTQIKTEATDGYDAVQVGY 100

Query: 112 RRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSG 171
           RRVRD+KLTKPE+GHL K G IPMRHLQEFRLQ+IDGF+  Q+L F+E F EGDLVDVSG
Sbjct: 101 RRVRDRKLTKPEMGHLHKVGAIPMRHLQEFRLQAIDGFDLNQRLLFDETFKEGDLVDVSG 160

Query: 172 TTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKI 231
           TTIGKGFQGGIKRHNF+RG MTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGT RKI
Sbjct: 161 TTIGKGFQGGIKRHNFKRGPMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTKRKI 220

Query: 232 RKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN 275
           RKLKIVKID DL V+MIKGA+PGKPGNLLR+ PAKIVGKNIPKN
Sbjct: 221 RKLKIVKIDKDLNVLMIKGALPGKPGNLLRITPAKIVGKNIPKN 264

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449473944|ref|XP_004154027.1| PREDICTED: 50S ribosomal protein L3, chloroplastic-like [Cucumis sativus]

 Score =  396 bits (1018), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 199/260 (76%), Positives = 221/260 (85%), Gaps = 17/260 (6%)

Query: 17  SLKCNFPFRPTRKASILASPKQPLIFTTKRTTTHI-VSMSYEAGIGVMGTKLGMMSYFEP 75
           +L+ +FP RPT                T+R +  + V MS EAGIGVM TKLGMMS+FEP
Sbjct: 51  NLRFHFPTRPT----------------TRRPSDGLSVCMSMEAGIGVMATKLGMMSFFEP 94

Query: 76  DGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPM 135
           DG VVPVTVVGF+EGNIVTQVKT+ATDGY AVQ+GYRRVRD+KLTKPELGHL+K+G IPM
Sbjct: 95  DGKVVPVTVVGFKEGNIVTQVKTDATDGYSAVQVGYRRVRDRKLTKPELGHLEKAGAIPM 154

Query: 136 RHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHG 195
           RHLQEFRL+S+D FE  Q+L F E+F EGDLVDVSGTTIGKGFQGGIKRHNF+RG M+HG
Sbjct: 155 RHLQEFRLESVDAFEPNQRLVFNELFKEGDLVDVSGTTIGKGFQGGIKRHNFKRGPMSHG 214

Query: 196 SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGK 255
           SKSHR LGSIGAGTTPGRVYKGKKMPGRMGGT RKIRKLKIVKID DL VVMIKGAVPGK
Sbjct: 215 SKSHRALGSIGAGTTPGRVYKGKKMPGRMGGTKRKIRKLKIVKIDEDLNVVMIKGAVPGK 274

Query: 256 PGNLLRVAPAKIVGKNIPKN 275
           PGNLLR+APAKIVG+NIPK+
Sbjct: 275 PGNLLRIAPAKIVGQNIPKS 294

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255639119|gb|ACU19859.1| unknown [Glycine max]

 Score =  396 bits (1018), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 193/224 (86%), Positives = 206/224 (91%)

Query: 52  VSMSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGY 111
           V MS EAGIGVMGTKLGMMSYFE DG VVPVTVVGF+EGNIVTQ+KTEATDGYDAVQ+GY
Sbjct: 41  VVMSMEAGIGVMGTKLGMMSYFESDGEVVPVTVVGFKEGNIVTQIKTEATDGYDAVQVGY 100

Query: 112 RRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSG 171
           RRVRD+KLTKPE+GHL K G IPMRHLQEFRLQ+IDGF+  Q+L F+E F EGDLVDVSG
Sbjct: 101 RRVRDRKLTKPEMGHLHKVGAIPMRHLQEFRLQAIDGFDLNQRLLFDETFKEGDLVDVSG 160

Query: 172 TTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKI 231
           TTIGKGFQGGIKRHNF+RG MTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGT RKI
Sbjct: 161 TTIGKGFQGGIKRHNFKRGPMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTKRKI 220

Query: 232 RKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN 275
           RKLKIVKID DL V+MIKGA+PGKPGNLLR+ PAKIV KNIPKN
Sbjct: 221 RKLKIVKIDKDLNVLMIKGALPGKPGNLLRITPAKIVSKNIPKN 264

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449498942|ref|XP_004160677.1| PREDICTED: 50S ribosomal protein L3, chloroplastic-like [Cucumis sativus]

 Score =  391 bits (1005), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 190/222 (85%), Positives = 206/222 (92%)

Query: 54  MSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRR 113
           MS EAGIGVM TKLGMMS+FEPDG VVPVTVVGF+EGNIVTQVKT+ATDGY AVQ+GYRR
Sbjct: 1   MSMEAGIGVMATKLGMMSFFEPDGKVVPVTVVGFKEGNIVTQVKTDATDGYGAVQVGYRR 60

Query: 114 VRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTT 173
           VRD+KLTKPELGHL+K+G IPMRHLQEFRL+S+D FE  Q+L F E+F EGDLVDVSGTT
Sbjct: 61  VRDRKLTKPELGHLEKAGAIPMRHLQEFRLESVDAFEPNQRLVFNELFKEGDLVDVSGTT 120

Query: 174 IGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRK 233
           IGKGFQGGIKRHNF+RG M+HGSKSHR LGSIGAGTTPGRVYKGKKMPGRMGGT RKIRK
Sbjct: 121 IGKGFQGGIKRHNFKRGPMSHGSKSHRALGSIGAGTTPGRVYKGKKMPGRMGGTKRKIRK 180

Query: 234 LKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN 275
           LKIVKID DL VVMIKGAVPGKPGNLLR+APAKIVG+NIPK+
Sbjct: 181 LKIVKIDEDLNVVMIKGAVPGKPGNLLRIAPAKIVGQNIPKS 222

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	275
TAIR|locus:2053713	271	AT2G43030 [Arabidopsis thalian	0.901	0.915	0.738	2.6e-95
TIGR_CMR|CHY_2309	209	CHY_2309 "ribosomal protein L3	0.745	0.980	0.431	1.9e-42
TIGR_CMR|BA_0110	210	BA_0110 "ribosomal protein L3"	0.752	0.985	0.423	2e-40
UNIPROTKB|Q9KNY4	209	rplC "50S ribosomal protein L3	0.741	0.976	0.468	2.6e-40
TIGR_CMR|VC_2596	209	VC_2596 "ribosomal protein L3"	0.741	0.976	0.468	2.6e-40
UNIPROTKB|P42920	209	rplC "50S ribosomal protein L3	0.734	0.966	0.429	4.2e-40
TIGR_CMR|GSU_2857	210	GSU_2857 "ribosomal protein L3	0.723	0.947	0.408	9.9e-39
TIGR_CMR|CPS_0873	212	CPS_0873 "ribosomal protein L3	0.738	0.957	0.447	2.6e-38
UNIPROTKB|P60442	217	rplC "50S ribosomal protein L3	0.734	0.930	0.419	5.5e-38
UNIPROTKB|P60438	209	rplC "50S ribosomal subunit pr	0.741	0.976	0.439	1.1e-37

TAIR|locus:2053713 AT2G43030 [Arabidopsis thaliana (taxid:3702)]

 Score = 948 (338.8 bits), Expect = 2.6e-95, P = 2.6e-95
 Identities = 186/252 (73%), Positives = 204/252 (80%)

Query:    24 FRPTRKASILASPKQPLIFTTKRTTTHIVSMSYEAGIGVMGTKLGMMSYFEXXXXXXXXX 83
             F PT     L +    L+  +   T  +VS S EAGIGVMG+KLGMMS+FE         
Sbjct:    24 FTPT----FLPAKSSSLLIKSSPKTRFVVSSSMEAGIGVMGSKLGMMSFFEEDGTVVPVT 79

Query:    84 XXXFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRL 143
                FREGNIVTQ+KT ATDGYDAVQIGYRRVRDKKLTKPE GHLQK+G IPMRHLQEFRL
Sbjct:    80 VVGFREGNIVTQIKTLATDGYDAVQIGYRRVRDKKLTKPETGHLQKAGTIPMRHLQEFRL 139

Query:   144 QSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLG 203
              +I+GFE  QKL F+EIF EGDLVDV+GTTIGKGFQGGIKRH+F+RG MTHGSKSHR LG
Sbjct:   140 TNIEGFEPNQKLVFDEIFKEGDLVDVAGTTIGKGFQGGIKRHHFKRGQMTHGSKSHRALG 199

Query:   204 SIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVA 263
             SIGAGTTPGRVYKGKKMPGRMGGT  KIRKLKIVK+D +L VVMIKGA+PGKPGNLLR+ 
Sbjct:   200 SIGAGTTPGRVYKGKKMPGRMGGTRTKIRKLKIVKVDKELNVVMIKGALPGKPGNLLRIT 259

Query:   264 PAKIVGKNIPKN 275
             PAKIVG NIPKN
Sbjct:   260 PAKIVGVNIPKN 271

GO:0003735 "structural constituent of ribosome" evidence=IEA;ISS

GO:0005840 "ribosome" evidence=ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0006364 "rRNA processing" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0015995 "chlorophyll biosynthetic process" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0045036 "protein targeting to chloroplast" evidence=RCA

TIGR_CMR|CHY_2309 CHY_2309 "ribosomal protein L3" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 449 (163.1 bits), Expect = 1.9e-42, P = 1.9e-42
 Identities = 91/211 (43%), Positives = 136/211 (64%)

Query:    61 GVMGTKLGMMSYFEXXXXXXXXXXXXFREGN-IVTQVKTEATDGYDAVQIGYRRVRDKKL 119
             G++G K+GM   F                G  +V Q KT A DGY+A+Q+G+  +++ K+
Sbjct:     4 GILGRKVGMTQIF--TEDGRAIPVTVIEAGPCVVVQKKTIANDGYNAIQLGFGEIKESKV 61

Query:   120 TKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQ 179
              KP  GH  ++ + PMR+L+E R+++ID +E GQ++  + IF  G+ VDV+G + GKGF 
Sbjct:    62 NKPLKGHFNRANVKPMRYLREIRVENIDAYEVGQEIKVD-IFTVGEKVDVTGISKGKGFA 120

Query:   180 GGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI 239
             GGIKRH F RG M HGSK HR+ GS+GA   P RV+ G+K+PGR+G     I+ L++VK+
Sbjct:   121 GGIKRHGFHRGPMAHGSKYHRRPGSLGA-KGPARVFLGRKLPGRLGMERVTIQNLEVVKV 179

Query:   240 DNDLRVVMIKGAVPGKPGNLLRVAPAKIVGK 270
             D +  +++IKG+VPG  G+LL +  A + GK
Sbjct:   180 DPERNLLVIKGSVPGIRGSLLIIKEA-VKGK 209

GO:0003735 "structural constituent of ribosome" evidence=ISS

GO:0006412 "translation" evidence=ISS

TIGR_CMR|BA_0110 BA_0110 "ribosomal protein L3" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 430 (156.4 bits), Expect = 2.0e-40, P = 2.0e-40
 Identities = 89/210 (42%), Positives = 127/210 (60%)

Query:    61 GVMGTKLGMMSYFEXXXXXXXXXXXXFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLT 120
             G++G K+GM   F                 N+V Q KT  TDGY+A+Q+G+   R+K   
Sbjct:     4 GILGRKIGMTQVFAENGELIPVTVIAANP-NVVLQKKTTETDGYNAIQLGFEDKREKLTN 62

Query:   121 KPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQG 180
             KPE GH  K+   P R ++E R   +DG E GQ++  + +F  G++VDV+G + GKGFQG
Sbjct:    63 KPEQGHTAKASTTPKRFIREIRDADVDGLEVGQEVKVD-VFATGEIVDVTGISKGKGFQG 121

Query:   181 GIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKID 240
              IKRH   RG M+HGS+ HR+ GS+G    P RV+KGKK+ GRMGG    I+ L+IV++D
Sbjct:   122 VIKRHGQSRGPMSHGSRYHRRPGSMGP-VAPNRVFKGKKLAGRMGGDQVTIQNLEIVQVD 180

Query:   241 NDLRVVMIKGAVPGKPGNLLRVAPAKIVGK 270
              +  ++++KG VPG   +L+ V  A  V K
Sbjct:   181 TERNLLLVKGNVPGAKKSLVVVQGAVKVSK 210

GO:0003735 "structural constituent of ribosome" evidence=ISS

GO:0006412 "translation" evidence=ISS

UNIPROTKB|Q9KNY4 rplC "50S ribosomal protein L3" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 429 (156.1 bits), Expect = 2.6e-40, P = 2.6e-40
 Identities = 97/207 (46%), Positives = 126/207 (60%)

Query:    60 IGVMGTKLGMMSYFEXXXXXXXXXXXXFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKL 119
             IG++G K+GM   F               E N V+QVKT  TDGY A+Q+     +  ++
Sbjct:     2 IGLIGRKVGMTRVFTEDGVSIPVTVVEV-EANRVSQVKTLETDGYAAIQVTTGSKKANRV 60

Query:   120 TKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQ 179
             TKPE GH  K+G+   R L EFRL++ + F  G +L  E +FNE   VDV+GT+ GKGFQ
Sbjct:    61 TKPEAGHFAKAGVEAGRGLWEFRLENGEEFAVGSELTVE-LFNEVKKVDVTGTSKGKGFQ 119

Query:   180 GGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVK 238
             G +KR NFR   MTHG S SHR  GSIG   TPGRV+KGKKM G MG      + L+IV+
Sbjct:   120 GAVKRWNFRTQDMTHGNSLSHRAPGSIGQCQTPGRVFKGKKMAGHMGAERVTTQNLEIVR 179

Query:   239 IDNDLRVVMIKGAVPGKPGNLLRVAPA 265
             +D +  +++IKGAVPG  G  + V PA
Sbjct:   180 VDAERNLLLIKGAVPGATGGNVIVKPA 206

GO:0003735 "structural constituent of ribosome" evidence=ISS

GO:0006412 "translation" evidence=ISS

TIGR_CMR|VC_2596 VC_2596 "ribosomal protein L3" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 429 (156.1 bits), Expect = 2.6e-40, P = 2.6e-40
 Identities = 97/207 (46%), Positives = 126/207 (60%)

Query:    60 IGVMGTKLGMMSYFEXXXXXXXXXXXXFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKL 119
             IG++G K+GM   F               E N V+QVKT  TDGY A+Q+     +  ++
Sbjct:     2 IGLIGRKVGMTRVFTEDGVSIPVTVVEV-EANRVSQVKTLETDGYAAIQVTTGSKKANRV 60

Query:   120 TKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQ 179
             TKPE GH  K+G+   R L EFRL++ + F  G +L  E +FNE   VDV+GT+ GKGFQ
Sbjct:    61 TKPEAGHFAKAGVEAGRGLWEFRLENGEEFAVGSELTVE-LFNEVKKVDVTGTSKGKGFQ 119

Query:   180 GGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVK 238
             G +KR NFR   MTHG S SHR  GSIG   TPGRV+KGKKM G MG      + L+IV+
Sbjct:   120 GAVKRWNFRTQDMTHGNSLSHRAPGSIGQCQTPGRVFKGKKMAGHMGAERVTTQNLEIVR 179

Query:   239 IDNDLRVVMIKGAVPGKPGNLLRVAPA 265
             +D +  +++IKGAVPG  G  + V PA
Sbjct:   180 VDAERNLLLIKGAVPGATGGNVIVKPA 206

GO:0003735 "structural constituent of ribosome" evidence=ISS

GO:0006412 "translation" evidence=ISS

UNIPROTKB|P42920 rplC "50S ribosomal protein L3" [Bacillus subtilis subsp. subtilis str. 168 (taxid:224308)]

 Score = 427 (155.4 bits), Expect = 4.2e-40, P = 4.2e-40
 Identities = 88/205 (42%), Positives = 126/205 (61%)

Query:    61 GVMGTKLGMMSYFEXXXXXXXXXXXXFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLT 120
             G++G K+GM   F                 N+V Q KT   DGY+A+Q+G+   R+K   
Sbjct:     4 GILGRKIGMTQVFAENGDLIPVTVIEAAP-NVVLQKKTAENDGYEAIQLGFDDKREKLSN 62

Query:   121 KPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQG 180
             KPE GH+ K+   P R ++E R   +D +E GQ++  E IF+ G++VDV+G + GKGFQG
Sbjct:    63 KPEKGHVAKAETAPKRFVKELRGVEMDAYEVGQEVKVE-IFSAGEIVDVTGVSKGKGFQG 121

Query:   181 GIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKID 240
              IKRH   RG M+HGS+ HR+ GS+G    P RV+KGK +PGRMGG    ++ L+IVK+D
Sbjct:   122 AIKRHGQSRGPMSHGSRYHRRPGSMGP-VDPNRVFKGKLLPGRMGGEQITVQNLEIVKVD 180

Query:   241 NDLRVVMIKGAVPGKPGNLLRVAPA 265
              +  +++IKG VPG   +L+ V  A
Sbjct:   181 AERNLLLIKGNVPGAKKSLITVKSA 205

GO:2000234 "positive regulation of rRNA processing" evidence=IDA

TIGR_CMR|GSU_2857 GSU_2857 "ribosomal protein L3" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 414 (150.8 bits), Expect = 9.9e-39, P = 9.9e-39
 Identities = 83/203 (40%), Positives = 124/203 (61%)

Query:    61 GVMGTKLGMMSYFEXXXXXXXXXXXXFREGN-IVTQVKTEATDGYDAVQIGYRRVRDKKL 119
             G++  KLGM   F              + G  +V Q KT ATDGYDA+Q+G+     +K+
Sbjct:     4 GLIAKKLGMTQIF--AEDGKRIPVTVVQAGPCVVLQKKTSATDGYDAIQVGFLSQEARKV 61

Query:   120 TKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQ 179
             TKP LGH++ +G     H++EFRL  +D +  G  ++  + F  G+ +DV+GT+IGKGFQ
Sbjct:    62 TKPMLGHIKAAGQGAFAHIREFRLDDVDRYNVGDVIS-ADAFEVGEYIDVTGTSIGKGFQ 120

Query:   180 GGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI 239
             G IKR  FR G  +HGS  HR  GSIG+   P RV+K KKMPG++G     +++L++V++
Sbjct:   121 GVIKRWGFRGGRSSHGSCFHRAPGSIGSSAYPSRVFKNKKMPGQLGNERVTVQRLQVVRV 180

Query:   240 DNDLRVVMIKGAVPGKPGNLLRV 262
             D    +++IKGA+PG    ++ V
Sbjct:   181 DAADNILLIKGAIPGAKNGIVLV 203

GO:0003735 "structural constituent of ribosome" evidence=ISS

GO:0006412 "translation" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|CPS_0873 CPS_0873 "ribosomal protein L3" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 410 (149.4 bits), Expect = 2.6e-38, P = 2.6e-38
 Identities = 94/210 (44%), Positives = 126/210 (60%)

Query:    60 IGVMGTKLGMMSYFEXXXXXXXXXXXXFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKL 119
             IG++G K+GM   F               E N V QVKT   DGY A+Q+   + +  ++
Sbjct:     3 IGLVGRKVGMTRVFTEDGVSTPVTVIEV-EANRVAQVKTVDNDGYSALQVTTGKRKASRV 61

Query:   120 TKPELGHLQKSGLIPMRHLQEFRLQSIDG--FEAGQKLAFEEIFNEGDLVDVSGTTIGKG 177
             TKP  GH  K+G+   R L EFRL   +G   EAG ++  E +FN+  LVDV+GT+ GKG
Sbjct:    62 TKPAAGHFAKAGIEAGRGLWEFRLNENEGSDIEAGSEITVE-VFNDTKLVDVTGTSKGKG 120

Query:   178 FQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKI 236
             FQGGIKR NF     THG S SHR  GS+G   TPGRV+KGKKM G MG      + L++
Sbjct:   121 FQGGIKRWNFTMQHATHGVSLSHRSNGSLGQCQTPGRVFKGKKMSGHMGAVRCTTQNLEL 180

Query:   237 VKIDNDLRVVMIKGAVPGK-PGNLLRVAPA 265
             V++D +  +++IKGAVPG   GN++ + PA
Sbjct:   181 VRVDAERNLLLIKGAVPGAINGNVI-IKPA 209

GO:0042254 "ribosome biogenesis" evidence=ISS

UNIPROTKB|P60442 rplC "50S ribosomal protein L3" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 407 (148.3 bits), Expect = 5.5e-38, P = 5.5e-38
 Identities = 88/210 (41%), Positives = 125/210 (59%)

Query:    61 GVMGTKLGMMSYFEXXXXXXXXXXXXFREG-NIVTQVKTEATDGYDAVQIGYRRVRDKKL 119
             G++GTKLGM   F+             + G N+VT+++T   DGY AVQ+ Y  +  +K+
Sbjct:     5 GILGTKLGMTQVFDESNRVVPVTVV--KAGPNVVTRIRTPERDGYSAVQLAYGEISPRKV 62

Query:   120 TKPELGHLQKSGLIPMRHLQEFRLQSIDG---FEAGQKLAFEEIFNEGDLVDVSGTTIGK 176
              KP  G    +G+ P R+L E RL   D    ++ GQ+L   EIF +G  VDV+GT+ GK
Sbjct:    63 NKPLTGQYTAAGVNPRRYLAELRLDDSDAATEYQVGQELT-AEIFADGSYVDVTGTSKGK 121

Query:   177 GFQGGIKRHNFRRGAMTHGSKS-HRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLK 235
             GF G +KRH FR    +HG+++ HR+ GSIG   TP RV+KG +M GRMG     +  L 
Sbjct:   122 GFAGTMKRHGFRGQGASHGAQAVHRRPGSIGGCATPARVFKGTRMAGRMGNDRVTVLNLL 181

Query:   236 IVKIDNDLRVVMIKGAVPGKPGNLLRVAPA 265
             + K+D +  V++IKGAVPG+ G L+ V  A
Sbjct:   182 VHKVDAENGVLLIKGAVPGRTGGLVMVRSA 211

GO:0005829 "cytosol" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0040007 "growth" evidence=IMP

UNIPROTKB|P60438 rplC "50S ribosomal subunit protein L3" [Escherichia coli K-12 (taxid:83333)]

 Score = 404 (147.3 bits), Expect = 1.1e-37, P = 1.1e-37
 Identities = 91/207 (43%), Positives = 123/207 (59%)

Query:    60 IGVMGTKLGMMSYFEXXXXXXXXXXXXFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKL 119
             IG++G K+GM   F               E N VTQVK  A DGY A+Q+     +  ++
Sbjct:     2 IGLVGKKVGMTRIFTEDGVSIPVTVIEV-EANRVTQVKDLANDGYRAIQVTTGAKKANRV 60

Query:   120 TKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQ 179
             TKPE GH  K+G+   R L EFRL   + F  GQ ++ E +F +   VDV+GT+ GKGF 
Sbjct:    61 TKPEAGHFAKAGVEAGRGLWEFRLAEGEEFTVGQSISVE-LFADVKKVDVTGTSKGKGFA 119

Query:   180 GGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVK 238
             G +KR NFR    THG S SHR  GSIG   TPG+V+KGKKM G+MG     ++ L +V+
Sbjct:   120 GTVKRWNFRTQDATHGNSLSHRVPGSIGQNQTPGKVFKGKKMAGQMGNERVTVQSLDVVR 179

Query:   239 IDNDLRVVMIKGAVPGKPGNLLRVAPA 265
             +D +  ++++KGAVPG  G+ L V PA
Sbjct:   180 VDAERNLLLVKGAVPGATGSDLIVKPA 206

GO:0006412 "translation" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0019843 "rRNA binding" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q2JIM7	RL3_SYNJB	No assigned EC number	0.5093	0.76	0.9766	yes	no
A5GVW0	RL3_SYNR3	No assigned EC number	0.5190	0.7563	0.9674	yes	no
B2ITQ5	RL3_NOSP7	No assigned EC number	0.5402	0.7527	0.9857	yes	no
A5GIU5	RL3_SYNPW	No assigned EC number	0.5238	0.7563	0.9541	yes	no
B8I7X9	RL3_CLOCE	No assigned EC number	0.5148	0.7236	0.9386	yes	no
Q3AUW3	RL3_SYNS9	No assigned EC number	0.5285	0.7563	0.9541	yes	no
Q7V9W2	RL3_PROMA	No assigned EC number	0.5069	0.7745	0.9726	yes	no
Q7NPH0	RL3_GLOVI	No assigned EC number	0.5399	0.7563	0.9674	yes	no
B8HMQ4	RL3_CYAP4	No assigned EC number	0.5330	0.7563	0.9811	yes	no
B1WQQ9	RL3_CYAA5	No assigned EC number	0.5566	0.76	0.9858	yes	no
B7KHY7	RL3_CYAP7	No assigned EC number	0.5727	0.7563	0.9811	yes	no
Q7V542	RL3_PROMM	No assigned EC number	0.5047	0.7563	0.9541	yes	no
A2C4Z9	RL3_PROM1	No assigned EC number	0.5162	0.7745	0.9770	yes	no
Q0ID05	RL3_SYNS3	No assigned EC number	0.5238	0.7563	0.9541	yes	no
Q110A7	RL3_TRIEI	No assigned EC number	0.5131	0.7527	0.9118	yes	no
Q7U4K0	RL3_SYNPX	No assigned EC number	0.5190	0.7563	0.9541	yes	no
O46894	RK3_GUITH	No assigned EC number	0.5024	0.7309	0.9852	yes	no
B1XJT9	RL3_SYNP2	No assigned EC number	0.5727	0.7563	0.9765	yes	no
Q3MFC1	RL3_ANAVT	No assigned EC number	0.5450	0.76	0.9905	yes	no
A0T0H8	RK3_PHATC	No assigned EC number	0.5145	0.7418	0.9855	yes	no
Q3AMN0	RL3_SYNSC	No assigned EC number	0.5142	0.7563	0.9541	yes	no
Q8DMN1	RL3_THEEB	No assigned EC number	0.5424	0.7563	0.9811	yes	no
B0JI03	RL3_MICAN	No assigned EC number	0.5774	0.7563	0.9811	yes	no
Q8YPH9	RL3_NOSS1	No assigned EC number	0.5402	0.76	0.9905	yes	no
O24689	RL3_SYNP6	No assigned EC number	0.5539	0.76	0.9812	yes	no
B0C1D3	RL3_ACAM1	No assigned EC number	0.5680	0.76	0.9858	yes	no
Q9SKX4	RK3A_ARATH	No assigned EC number	0.8421	0.8290	0.8413	yes	no
Q2JV81	RL3_SYNJA	No assigned EC number	0.5235	0.7527	0.9672	yes	no
Q46IQ9	RL3_PROMT	No assigned EC number	0.5190	0.7563	0.9541	yes	no
A2CC27	RL3_PROM3	No assigned EC number	0.5047	0.7563	0.9541	yes	no
O80360	RK3_TOBAC	No assigned EC number	0.8270	0.8472	0.8996	N/A	no
B7K335	RL3_CYAP8	No assigned EC number	0.5492	0.7563	0.9811	yes	no
Q31L07	RL3_SYNE7	No assigned EC number	0.5539	0.76	0.9812	yes	no
A9BCP7	RL3_PROM4	No assigned EC number	0.5238	0.7563	0.9497	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

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	fgenesh4_pm.C_LG_XIII000297	hypothetical protein (222 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	eugene3.00141000	hypothetical protein (227 aa)	•			•	•		•		0.990
	gw1.II.2942.1	SubName- Full=Putative uncharacterized protein; (218 aa)	•		•	•	•		•		0.989
	fgenesh4_pm.C_LG_VI000651	hypothetical protein (279 aa)	•		•	•	•		•		0.986
	rpl22	50S ribosomal protein L22 ; This protein binds specifically to 23S rRNA (By similarity) (129 aa)	•			•	•		•		0.986
	gw1.IV.3048.1	SubName- Full=Putative uncharacterized protein; (227 aa)	•		•	•	•		•		0.985
	fgenesh4_pg.C_scaffold_166000032	hypothetical protein (285 aa)	•			•	•		•		0.983
	estExt_fgenesh4_pm.C_LG_XIV0141	hypothetical protein (262 aa)	•		•	•	•		•		0.981
	gw1.16155.2.1	Predicted protein (206 aa)	•			•			•		0.978
	eugene3.15590001	hypothetical protein (142 aa)	•			•	•		•		0.977
	gw1.8701.6.1	Predicted protein (100 aa)	•		•	•			•		0.976

---

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	275
PRK00001	210	PRK00001, rplC, 50S ribosomal protein L3; Validate	4e-98
TIGR03625	202	TIGR03625, L3_bact, 50S ribosomal protein L3, bact	7e-95
CHL00143	207	CHL00143, rpl3, ribosomal protein L3; Validated	5e-91
COG0087	218	COG0087, RplC, Ribosomal protein L3 [Translation,	1e-80
pfam00297	199	pfam00297, Ribosomal_L3, Ribosomal protein L3	7e-69
TIGR03626	330	TIGR03626, L3_arch, archaeal ribosomal protein L3	7e-17
PRK04231	337	PRK04231, rpl3p, 50S ribosomal protein L3P; Review	1e-13

>gnl|CDD|234564 PRK00001, rplC, 50S ribosomal protein L3; Validated

 Score =  285 bits (733), Expect = 4e-98
 Identities = 103/212 (48%), Positives = 144/212 (67%), Gaps = 5/212 (2%)

Query: 60  IGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKL 119
            G++G K+GM   F  DG  +PVTV+     N+VTQVKT   DGY+AVQ+G+   ++K++
Sbjct: 3   KGILGKKVGMTQIFTEDGESIPVTVIEA-GPNVVTQVKTVEKDGYNAVQLGFGDKKEKRV 61

Query: 120 TKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQ 179
            KPE GH  K+G+ P RHL+EFR+  ++ +E GQ++   +IF  G  VDV+GT+ GKGF 
Sbjct: 62  NKPEAGHFAKAGVEPKRHLREFRV--VEEYEVGQEIT-VDIFEAGQKVDVTGTSKGKGFA 118

Query: 180 GGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVK 238
           G IKRHNF  G  +HG S+SHR+ GSIGA  TPGRV+KGKKM G MG     ++ L++VK
Sbjct: 119 GVIKRHNFSGGPASHGNSRSHRRPGSIGARQTPGRVFKGKKMAGHMGNERVTVQNLEVVK 178

Query: 239 IDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGK 270
           +D +  ++++KGAVPG  G L+ + PA    K
Sbjct: 179 VDAERNLLLVKGAVPGAKGGLVIIKPAVKAKK 210

Length = 210

>gnl|CDD|234285 TIGR03625, L3_bact, 50S ribosomal protein L3, bacterial

 Score =  277 bits (711), Expect = 7e-95
 Identities = 100/203 (49%), Positives = 139/203 (68%), Gaps = 3/203 (1%)

Query: 61  GVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLT 120
           G++G K+GM   F  DG  VPVTV+     N+VTQVKT   DGY AVQ+G+   ++K++ 
Sbjct: 1   GLLGKKVGMTQIFTEDGKAVPVTVIEV-GPNVVTQVKTVEKDGYSAVQLGFGEKKEKRVN 59

Query: 121 KPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQG 180
           KPE GH  K+G+ P RHL+EFR+  ++G+E G ++   +IF  G  VDV+GT+ GKGF G
Sbjct: 60  KPEAGHFAKAGVEPKRHLREFRVDDLEGYEVGDEIT-VDIFEAGQKVDVTGTSKGKGFAG 118

Query: 181 GIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI 239
            +KRHNF  G  +HG SKSHR  GSIG   TPGRV+KGKKM G MG     ++ L++VK+
Sbjct: 119 VMKRHNFSGGPASHGNSKSHRAPGSIGQRQTPGRVFKGKKMAGHMGNERVTVQNLEVVKV 178

Query: 240 DNDLRVVMIKGAVPGKPGNLLRV 262
           D +  ++++KGAVPG  G+L+ +
Sbjct: 179 DAERNLLLVKGAVPGAKGSLVLI 201

This model describes bacterial (and mitochondrial and chloroplast) class of ribosomal protein L3. A separate model describes the archaeal form, where both belong to Pfam family pfam00297. The name is phrased to meet the needs of bacterial genome annotation. Organellar forms typically will have transit peptides, N-terminal to the region modeled here. Length = 202

>gnl|CDD|177065 CHL00143, rpl3, ribosomal protein L3; Validated

 Score =  268 bits (686), Expect = 5e-91
 Identities = 118/208 (56%), Positives = 161/208 (77%), Gaps = 4/208 (1%)

Query: 60  IGVMGTKLGMMSYFEPDGTVVPVTVVGFREG-NIVTQVKTEATDGYDAVQIGYRRVRDKK 118
           IG++GTK+GM   F+  G  +PVT++  + G  ++TQ+KT  TDGY+A+QIGY++V  KK
Sbjct: 3   IGLLGTKIGMTQIFDETGNAIPVTIL--KVGPCVITQIKTLTTDGYNAIQIGYKQVSTKK 60

Query: 119 LTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGF 178
           LTKP+LGHLQKS + P+++L+EFR++S + FE GQ L   + F+ G LV+VSG +IGKGF
Sbjct: 61  LTKPQLGHLQKSNVPPLKYLKEFRVKSSEEFEVGQPLT-VDAFSVGQLVNVSGKSIGKGF 119

Query: 179 QGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVK 238
            G  KRHNF RG MTHGSK+HR  GSIGAGTTPGRVY GKKM GR+G     I+ LKI+K
Sbjct: 120 AGLQKRHNFSRGPMTHGSKNHRAPGSIGAGTTPGRVYPGKKMAGRLGNKKVTIKNLKILK 179

Query: 239 IDNDLRVVMIKGAVPGKPGNLLRVAPAK 266
           +D++  ++++KG+VPGKPGNLL ++P+K
Sbjct: 180 VDSENNLLVLKGSVPGKPGNLLSISPSK 207

Length = 207

>gnl|CDD|223165 COG0087, RplC, Ribosomal protein L3 [Translation, ribosomal structure and biogenesis]

 Score =  241 bits (618), Expect = 1e-80
 Identities = 102/219 (46%), Positives = 138/219 (63%), Gaps = 6/219 (2%)

Query: 60  IGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKL 119
           +G +G K+GM   F+  G  VPVTV+     N+V QVKT  TDGY AVQ+G    + K++
Sbjct: 2   LGFLGYKVGMTHVFDERGISVPVTVIEV-PPNVVVQVKTYETDGYRAVQVGAGDRKAKRV 60

Query: 120 TKPELGHLQKSGLIPMRHLQEFRLQSIDG---FEAGQKLAFEEIFNEGDLVDVSGTTIGK 176
            KP +GH  K+G+ P RHL EFR+   D    FE GQ++   ++F EG+LVDV+G T GK
Sbjct: 61  NKPLVGHFAKAGVKPKRHLAEFRVGGGDVAEKFEVGQEI-TVDVFKEGELVDVTGVTKGK 119

Query: 177 GFQGGIKRHNFRRGAMTHGSK-SHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLK 235
           GFQG +KR  F+ G  +HGS  SHR+ GSIG   TPGRV+KGKKM G MG     ++ L+
Sbjct: 120 GFQGVMKRWGFKGGPASHGSSLSHRRPGSIGQRQTPGRVFKGKKMAGHMGNERVTVQNLE 179

Query: 236 IVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPK 274
           +VK+D +  ++++KGAVPG    L+ V PA    K    
Sbjct: 180 VVKVDVENNLILVKGAVPGAKKRLVVVRPAVKAKKKTSA 218

Length = 218

>gnl|CDD|144036 pfam00297, Ribosomal_L3, Ribosomal protein L3

 Score =  211 bits (539), Expect = 7e-69
 Identities = 88/200 (44%), Positives = 120/200 (60%), Gaps = 5/200 (2%)

Query: 66  KLGMMSYF-EPDGTVVPVTVVGFREGNIVTQVKT--EATDGYDAVQIGYRRVRDKKLTKP 122
           K GM   F E  G + PVTV+      +V QVKT  E  DGY A+Q+G   ++  ++ K 
Sbjct: 1   KAGMTHIFTEKKGVLEPVTVIEV-PPMVVVQVKTYEETNDGYKAIQVGLESIKKYRVVKR 59

Query: 123 ELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGI 182
            LGH QK G  P  H+ EFR+   + FE GQ +A  ++F EG+ VDV+G T GKGFQG +
Sbjct: 60  VLGHTQKRGTPPKAHVMEFRVNGGEEFEPGQTIAVSDVFREGEYVDVTGVTKGKGFQGVM 119

Query: 183 KRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDND 242
           KR  F+R    HG   HR+ GSIGA   PGRV+ G KM G+MG   R  + LKI +ID +
Sbjct: 120 KRWGFKRLPRKHGRGYHRKPGSIGAW-HPGRVFPGVKMAGQMGNHHRTEQNLKIYRIDQE 178

Query: 243 LRVVMIKGAVPGKPGNLLRV 262
             ++++KG+VPG    L+ +
Sbjct: 179 NNLLLVKGSVPGPKKRLVTI 198

Length = 199

>gnl|CDD|234286 TIGR03626, L3_arch, archaeal ribosomal protein L3

 Score = 78.5 bits (194), Expect = 7e-17
 Identities = 44/134 (32%), Positives = 61/134 (45%), Gaps = 23/134 (17%)

Query: 152 GQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKR---HNFRRGAMTHGSKSHRQLGSIGAG 208
           G++++  ++F EG LVDV   T GKGFQG +KR       R       K  R +G++G  
Sbjct: 179 GKEISVSDVFKEGQLVDVIAVTKGKGFQGVVKRWGVKLLPRKHKRR--KGGRHIGTLGP- 235

Query: 209 TTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDL-----------------RVVMIKGA 251
            TP RV       G+MG   R     +I+KI  D                    V+IKG+
Sbjct: 236 WTPSRVRWTVPQAGQMGYHQRTEYNKRILKIGEDGDEITPKGGFVNYGLVRNDYVLIKGS 295

Query: 252 VPGKPGNLLRVAPA 265
           VPG    L+R+  A
Sbjct: 296 VPGPSKRLIRLRDA 309

This model describes exclusively the archaeal class of ribosomal protein L3. A separate model (TIGR03625) describes the bacterial/organelle form, and both belong to Pfam family pfam00297. Eukaryotic proteins are excluded from this model [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 330

>gnl|CDD|235260 PRK04231, rpl3p, 50S ribosomal protein L3P; Reviewed

 Score = 69.1 bits (170), Expect = 1e-13
 Identities = 42/133 (31%), Positives = 61/133 (45%), Gaps = 21/133 (15%)

Query: 152 GQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHN--FRRGAMTHGSKSHRQLGSIGAGT 209
           G++++  ++F EG LVDV   T GKGFQG +KR                 R +G++G   
Sbjct: 184 GKEISISDVFKEGQLVDVIAVTKGKGFQGVVKRWGVKLLPRKHKR-RGGSRHIGTLG-PW 241

Query: 210 TPGRVYKGKKMPGRMGGTTRKIRKLKIVKI-DNDLRV----------------VMIKGAV 252
            P RV       G+MG   R     +I+KI D+   +                V+IKG+V
Sbjct: 242 NPSRVMWTVPQAGQMGFHQRTEYNKRILKIGDDGDEITPKGGFLHYGLVRNDYVLIKGSV 301

Query: 253 PGKPGNLLRVAPA 265
           PG    L+R+ PA
Sbjct: 302 PGPAKRLIRLRPA 314

Length = 337

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	275
CHL00143	207	rpl3 ribosomal protein L3; Validated	100.0
PRK00001	210	rplC 50S ribosomal protein L3; Validated	100.0
TIGR03625	202	L3_bact 50S ribosomal protein L3, bacterial. This	100.0
KOG3141	310	consensus Mitochondrial/chloroplast ribosomal prot	100.0
COG0087	218	RplC Ribosomal protein L3 [Translation, ribosomal	100.0
PF00297	263	Ribosomal_L3: Ribosomal protein L3; InterPro: IPR0	100.0
PRK04231	337	rpl3p 50S ribosomal protein L3P; Reviewed	100.0
TIGR03626	330	L3_arch archaeal ribosomal protein L3. This model	100.0
PTZ00103	390	60S ribosomal protein L3; Provisional	100.0
KOG0746	384	consensus 60S ribosomal protein L3 and related pro	99.91

>CHL00143 rpl3 ribosomal protein L3; Validated

Probab=100.00  E-value=1.2e-90  Score=618.80  Aligned_cols=207  Identities=57%  Similarity=0.987  Sum_probs=201.8

Q ss_pred             ceeeeeEEEeeeeeEECCCCcEEEEEEEEeCCCeEEEEeeccCCCCeeEEEEeeeeeccccCChhhcchhhhcCCCCCce
Q 023905           58 AGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRH  137 (275)
Q Consensus        58 ~r~Glig~KiGMt~if~~~G~~vpvTVl~~~~~~vV~~vkt~e~dGY~AvqvG~g~~~~k~~~Kp~~G~f~kagv~pkr~  137 (275)
                      |++||||+|+||||+|||+|+++||||||++ +|+|+|+||.|+|||+|+||||++.++++++||++|||+|+|++|+++
T Consensus         1 m~~glig~KiGMt~~f~~~G~~vpvTvl~~~-~~~V~~~kt~e~dGY~avqvg~~~~~~k~~~K~~~G~f~ka~v~p~r~   79 (207)
T CHL00143          1 MSIGLLGTKIGMTQIFDETGNAIPVTILKVG-PCVITQIKTLTTDGYNAIQIGYKQVSTKKLTKPQLGHLQKSNVPPLKY   79 (207)
T ss_pred             CcceEEEEEccceEEECCCCCEEEEEEEEEC-CeEEEEEecCCCCCcEEEEEeeeecccccCChhhcchhHHcCCCcceE
Confidence            4789999999999999999999999999996 699999999999999999999999999999999999999999999999


Q ss_pred             EEEEEecCCCCcCCCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCCCCCCCCCCCCCCCCCCCCCCCcccCC
Q 023905          138 LQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKG  217 (275)
Q Consensus       138 l~Efrv~~~~~~~~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHGSk~HR~~GSiG~~~~PgRV~kG  217 (275)
                      |+|||++++++|++|++|++ ++|++||+|||+|+|||||||||||||||+++|+||||++||++||||++++|||||||
T Consensus        80 l~Efrv~~~~~~~vG~~l~v-~~F~~Gq~VDV~g~sKGKGF~GvmKR~gF~g~pasHGs~~HR~~GSiG~~~~PgRV~kG  158 (207)
T CHL00143         80 LKEFRVKSSEEFEVGQPLTV-DAFSVGQLVNVSGKSIGKGFAGLQKRHNFSRGPMTHGSKNHRAPGSIGAGTTPGRVYPG  158 (207)
T ss_pred             EEEEEcCCcccCCCCCEEEh-hhccCCCEEEEEEEecCCcceeeeEeeccCCCCCccCCCCCCCCcccCCCCCCCeEcCC
Confidence            99999988778999999998 69999999999999999999999999999999999998899999999999999999999


Q ss_pred             CCCCCCCCCeeEEEEceEEEEEeCCCCEEEEeccCCCCCCCeEEEEece
Q 023905          218 KKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAK  266 (275)
Q Consensus       218 kkMaG~mG~~~~Tv~Nl~V~kId~e~nli~VKGsVPG~k~~~V~I~~a~  266 (275)
                      ||||||||++++|++||+|++||+|+|||||||||||+++++|.|+|++
T Consensus       159 kKMpG~mG~~~~Tv~nl~Vv~vd~e~nli~VkGsVPG~~g~~v~i~~~~  207 (207)
T CHL00143        159 KKMAGRLGNKKVTIKNLKILKVDSENNLLVLKGSVPGKPGNLLSISPSK  207 (207)
T ss_pred             CccCCCCCCeeEEEeccEEEEEeCCCCEEEEEecCcCCCCCEEEEEECC
Confidence            9999999999999999999999999999999999999999999999974

>PRK00001 rplC 50S ribosomal protein L3; Validated

Probab=100.00  E-value=1.8e-87  Score=599.17  Aligned_cols=208  Identities=49%  Similarity=0.881  Sum_probs=201.5

Q ss_pred             ceeeeeEEEeeeeeEECCCCcEEEEEEEEeCCCeEEEEeeccCCCCeeEEEEeeeeeccccCChhhcchhhhcCCCCCce
Q 023905           58 AGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRH  137 (275)
Q Consensus        58 ~r~Glig~KiGMt~if~~~G~~vpvTVl~~~~~~vV~~vkt~e~dGY~AvqvG~g~~~~k~~~Kp~~G~f~kagv~pkr~  137 (275)
                      ||+||||+|+||||+|||+|+++||||||++ +|+|+|+||.|+|||+|+||||++.++++++||++|||+|+|++|+++
T Consensus         1 m~~Glig~KiGMt~ifd~~G~~vpvTvl~v~-~~~V~~~kt~e~dGY~avqvG~~~~~~~~~~Kp~~G~f~kag~~pkr~   79 (210)
T PRK00001          1 MMKGILGKKVGMTQIFTEDGESIPVTVIEAG-PNVVTQVKTVEKDGYNAVQLGFGDKKEKRVNKPEAGHFAKAGVEPKRH   79 (210)
T ss_pred             CccEEEEEEecceEEECCCCCEEEEEEEEec-CcEEEEEeCCCCCCcEEEEEeccccCcccCCHHHhHHHHHcCCCcceE
Confidence            5899999999999999999999999999996 699999999999999999999999999999999999999999999999


Q ss_pred             EEEEEecCCCCcCCCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCCCCCC-CCCCCCCCCCCCCCCCCcccC
Q 023905          138 LQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYK  216 (275)
Q Consensus       138 l~Efrv~~~~~~~~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHG-Sk~HR~~GSiG~~~~PgRV~k  216 (275)
                      |+|||.  ++.+++|++|++ ++|++||+|||+|+|||||||||||||||+++|+||| |++||++||||++++|+||||
T Consensus        80 l~Efr~--~~~~~~G~~l~v-~~F~~G~~VDV~g~tKGKGFqGvmKR~gf~g~p~sHG~s~~hR~~GSiG~~~~PgrV~k  156 (210)
T PRK00001         80 LREFRV--VEEYEVGQEITV-DIFEAGQKVDVTGTSKGKGFAGVIKRHNFSGGPASHGNSRSHRRPGSIGARQTPGRVFK  156 (210)
T ss_pred             EEEEcc--CCCCCCCCEEee-hhccCCCEEEEEEEEcCCcceeceEecccCCCCCcCCcCcCCcCCcccCCCCCCCeECC
Confidence            999993  457999999998 7999999999999999999999999999999999999 899999999999999999999


Q ss_pred             CCCCCCCCCCeeEEEEceEEEEEeCCCCEEEEeccCCCCCCCeEEEEeceecC
Q 023905          217 GKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVG  269 (275)
Q Consensus       217 GkkMaG~mG~~~~Tv~Nl~V~kId~e~nli~VKGsVPG~k~~~V~I~~a~~~~  269 (275)
                      |+|||||||++++|++||+|++||+|+|||||||||||+++++|+|+||++..
T Consensus       157 gkkmaG~mG~~~~T~~nl~V~~i~~~~nli~vkGsVPG~~~~~v~ir~a~k~~  209 (210)
T PRK00001        157 GKKMAGHMGNERVTVQNLEVVKVDAERNLLLVKGAVPGAKGGLVIIKPAVKAK  209 (210)
T ss_pred             CcccCCCCCCeEEEEeCCEEEEEcCCCCEEEEEecCcCCCCCEEEEEeeeecC
Confidence            99999999999999999999999999999999999999999999999998753

>TIGR03625 L3_bact 50S ribosomal protein L3, bacterial

Probab=100.00  E-value=4.6e-87  Score=593.50  Aligned_cols=201  Identities=50%  Similarity=0.920  Sum_probs=196.8

Q ss_pred             eeeEEEeeeeeEECCCCcEEEEEEEEeCCCeEEEEeeccCCCCeeEEEEeeeeeccccCChhhcchhhhcCCCCCceEEE
Q 023905           61 GVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQE  140 (275)
Q Consensus        61 Glig~KiGMt~if~~~G~~vpvTVl~~~~~~vV~~vkt~e~dGY~AvqvG~g~~~~k~~~Kp~~G~f~kagv~pkr~l~E  140 (275)
                      ||||+|+||||+|||+|+++||||||++ +|+|+|+||.|+|||+||||||++.++++++||++|||+|+|++|+++|+|
T Consensus         1 Glig~KiGMt~if~~~G~~ipvTVl~v~-~~~V~q~kt~e~dGY~AvqvG~~~~~~~~~~Kp~~G~f~Kag~~pkr~l~E   79 (202)
T TIGR03625         1 GLLGKKVGMTQIFTEDGKAVPVTVIEVG-PNVVTQVKTVEKDGYSAVQLGFGEKKEKRVNKPEAGHFAKAGVEPKRHLRE   79 (202)
T ss_pred             CccEEecceeEEECCCCcEEEEEEEEeC-CcEEEEEeCCCCCCcEEEEEeccccccccCChhhhhHHHHcCCCcCcEEEE
Confidence            7999999999999999999999999996 589999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCCcCCCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCCCCCC-CCCCCCCCCCCCCCCCCcccCCCC
Q 023905          141 FRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKK  219 (275)
Q Consensus       141 frv~~~~~~~~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHG-Sk~HR~~GSiG~~~~PgRV~kGkk  219 (275)
                      ||+++++++++|++|++ |+|++||+|||+|+|||||||||||||||+++|+||| |++||++||||+++||+|||||+|
T Consensus        80 frv~~~~~~~~G~~l~v-~~F~~G~~VDV~g~skGKGFqGvmKR~gf~g~~~sHG~s~~hR~~GSiG~~~~PgrV~kgkk  158 (202)
T TIGR03625        80 FRVDDLEGYEVGDEITV-DIFEAGQKVDVTGTSKGKGFAGVMKRHNFSGGPASHGNSKSHRAPGSIGQRQTPGRVFKGKK  158 (202)
T ss_pred             EEcCCcccCCCCCEEEe-eeecCCCEEEEEEEEcCCcceeceEecccCCCCcccCCCCCCCCCCccCCCCCCCeEcCCCc
Confidence            99988778999999998 7999999999999999999999999999999999999 899999999999999999999999


Q ss_pred             CCCCCCCeeEEEEceEEEEEeCCCCEEEEeccCCCCCCCeEEEE
Q 023905          220 MPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVA  263 (275)
Q Consensus       220 MaG~mG~~~~Tv~Nl~V~kId~e~nli~VKGsVPG~k~~~V~I~  263 (275)
                      ||||||++++|++||+|++||+|+|||||||||||+++++|+|+
T Consensus       159 m~G~mG~~~~T~~Nl~V~~id~e~n~i~vkGsVPG~~~~~v~ir  202 (202)
T TIGR03625       159 MAGHMGNERVTVQNLEVVKVDAERNLLLVKGAVPGAKGSLVLIK  202 (202)
T ss_pred             cCCCcCCeeEEEeccEEEEEcCCCCEEEEEecCcCCCCCEEEeC
Confidence            99999999999999999999999999999999999999999985

This model describes bacterial (and mitochondrial and chloroplast) class of ribosomal protein L3. A separate model describes the archaeal form, where both belong to Pfam family pfam00297. The name is phrased to meet the needs of bacterial genome annotation. Organellar forms typically will have transit peptides, N-terminal to the region modeled here.

>KOG3141 consensus Mitochondrial/chloroplast ribosomal protein L3 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=5.1e-86  Score=608.04  Aligned_cols=238  Identities=45%  Similarity=0.790  Sum_probs=219.6

Q ss_pred             CCCCCccccccCcccccccc-ccc--ceeeeeEEEeeeeeEECCCCcEEEEEEEEeCCCeEEEEeeccCCCCeeEEEEee
Q 023905           35 SPKQPLIFTTKRTTTHIVSM-SYE--AGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGY  111 (275)
Q Consensus        35 ~p~~p~~~~~~~~~~~~~~~-~~~--~r~Glig~KiGMt~if~~~G~~vpvTVl~~~~~~vV~~vkt~e~dGY~AvqvG~  111 (275)
                      .|..+.+..+  ++....+. |.+  +|+|+|+.|+|||++||+||+++||||||+++++||.++.+++++||.||||||
T Consensus        37 ~~~~~~l~~~--~~~~~~~~v~~p~s~R~GvI~~K~GMmp~w~k~G~ri~~TiL~v~d~~Vi~~~t~E~~~g~~avqVG~  114 (310)
T KOG3141|consen   37 APAKSILLLL--KEEPNARKVWIPSSRRVGVIARKLGMMPLWDKDGERIPVTILQVDDNHVIKYITPEAKGGYFAVQVGY  114 (310)
T ss_pred             CcchhhhccC--cCcccccccccCCcccceeEEEeccCchhhccCCCEEEEEEEEEecceEEEEechhhcCCeEEEEecc
Confidence            3434556664  33444443 555  999999999999999999999999999999998988886666699999999999


Q ss_pred             eeeccccCChhhcchhhhcCCCCCceEEEEEecCCCCcCCCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCC
Q 023905          112 RRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGA  191 (275)
Q Consensus       112 g~~~~k~~~Kp~~G~f~kagv~pkr~l~Efrv~~~~~~~~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~p  191 (275)
                      |..++++++|+++|||+++|++||++|+||+|++++.+.+|+.|.+ +||++||||||+|+|+|||||||||||||+|+|
T Consensus       115 g~~~p~kltk~~~g~f~~~gv~pK~~l~eF~Vt~~al~~pGt~l~~-~hFk~GqyVDV~g~TigkGFqGvmKR~GFkG~p  193 (310)
T KOG3141|consen  115 GTVKPKKLTKAELGHFRSAGVPPKRHLREFRVTEEALLPPGTPLFA-RHFKPGQYVDVTGKTIGKGFQGVMKRHGFKGGP  193 (310)
T ss_pred             ccCChHHhhHHHHHHHHHcCCChhhhhheEeechhccCCCCcccch-hhcCCCceEEEEeeEeccccccceeeccccCCc
Confidence            9999999999999999999999999999999997666778999976 799999999999999999999999999999999


Q ss_pred             CCCC-CCCCCCCCCCCCCCCCCcccCCCCCCCCCCCeeEEEEceEEEEEeCCCCEEEEeccCCCCCCCeEEEEeceecCC
Q 023905          192 MTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGK  270 (275)
Q Consensus       192 asHG-Sk~HR~~GSiG~~~~PgRV~kGkkMaG~mG~~~~Tv~Nl~V~kId~e~nli~VKGsVPG~k~~~V~I~~a~~~~~  270 (275)
                      |||| |++||++||+|++++|||||||+||||||||+++|++||+||+||.|+|+|||||||||++|++|+|+||++...
T Consensus       194 asHG~sksHR~~GS~G~~~~pgRV~pGrKMpGhMG~~~rtik~LkV~kId~~~nvi~VkGsVpG~~g~~V~I~Da~~~~~  273 (310)
T KOG3141|consen  194 ASHGTSKSHRRPGSIGQGTTPGRVWPGRKMPGHMGNEWRTIKGLKVWKIDTELNVIWVKGSVPGPKGNLVKIKDAILPTV  273 (310)
T ss_pred             cccCccccccCCccccCCCCCcccccCCcCCcccCcceEEEeeeEEEEEcCCceEEEEecccCCCCCCEEEEEecccccC
Confidence            9999 899999999999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             CCCCC
Q 023905          271 NIPKN  275 (275)
Q Consensus       271 ~~p~~  275 (275)
                      .+|||
T Consensus       274 ~i~k~  278 (310)
T KOG3141|consen  274 DIPKN  278 (310)
T ss_pred             CcccC
Confidence            88886

>COG0087 RplC Ribosomal protein L3 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.9e-81  Score=562.16  Aligned_cols=210  Identities=49%  Similarity=0.821  Sum_probs=201.8

Q ss_pred             eeeeeEEEeeeeeEECCCCcEEEEEEEEeCCCeEEEEeeccCCCCeeEEEEeeeeeccccCChhhcchhhhcCCCCCceE
Q 023905           59 GIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHL  138 (275)
Q Consensus        59 r~Glig~KiGMt~if~~~G~~vpvTVl~~~~~~vV~~vkt~e~dGY~AvqvG~g~~~~k~~~Kp~~G~f~kagv~pkr~l  138 (275)
                      +.|+||+|+||||+||++|..+||||||++ ||+|.|+||.|+|||+|+||+|++.+.++++||++|||+|+++.|+++|
T Consensus         1 ~~G~~G~KvGMT~vf~~~g~~vPVTVie~~-p~~V~~vkt~e~dGy~a~qv~~~~~k~~~~~k~~~g~~~k~~~~~k~~l   79 (218)
T COG0087           1 MLGFLGYKVGMTHVFDERGISVPVTVIEVP-PNVVVQVKTYETDGYRAVQVGAGDRKAKRVNKPLVGHFAKAGVKPKRHL   79 (218)
T ss_pred             CcccceEeccceEEEccCCcEEEEEEEEcC-CcEEEEEEecccCCcEEEEEeecceeeehhccceeeeecccCCCCCCeE
Confidence            479999999999999999999999999996 7999999999999999999999999999999999999999999999999


Q ss_pred             EEEEecCCC---CcCCCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCCCCCC-CCCCCCCCCCCCCCCCCcc
Q 023905          139 QEFRLQSID---GFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRV  214 (275)
Q Consensus       139 ~Efrv~~~~---~~~~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHG-Sk~HR~~GSiG~~~~PgRV  214 (275)
                      +|||+.+.+   .|++|+++++ |+|++||+|||+|+||||||||+||||||+++|+||| +.+||++||||++|||+||
T Consensus        80 ~E~rv~~~~~~~~~e~g~ei~~-dvF~~g~~VDV~gvTKGKGF~G~~KR~gf~~~p~sHg~~~~hR~~GSiG~~~~P~rV  158 (218)
T COG0087          80 AEFRVGGGDVAEKFEVGQEITV-DVFKEGELVDVTGVTKGKGFQGVMKRWGFKGGPASHGSSLSHRRPGSIGQRQTPGRV  158 (218)
T ss_pred             EEEEecCccccceechhhhhch-hhccCCCEEEEEEEecccccceeeeecccccCCcccCCCccccCCcccCCCCCCCce
Confidence            999997654   4899999986 8999999999999999999999999999999999999 6699999999999999999


Q ss_pred             cCCCCCCCCCCCeeEEEEceEEEEEeCCCCEEEEeccCCCCCCCeEEEEeceecCC
Q 023905          215 YKGKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGK  270 (275)
Q Consensus       215 ~kGkkMaG~mG~~~~Tv~Nl~V~kId~e~nli~VKGsVPG~k~~~V~I~~a~~~~~  270 (275)
                      |||++||||||++++|+|||+|++||.|+|||||||||||+++++|.||+|++...
T Consensus       159 ~~g~kmaG~mG~~~vTvqNl~Vv~id~e~~~ilVkGaVPG~~k~~v~vr~a~k~~~  214 (218)
T COG0087         159 FKGKKMAGHMGNERVTVQNLEVVKVDVENNLILVKGAVPGAKKRLVVVRPAVKAKK  214 (218)
T ss_pred             eCCCccCccCCCceEEEEeeEEEEEcCCCCEEEEecccCCCCCceEEEehhhccCC
Confidence            99999999999999999999999999999999999999999999999999998654

>PF00297 Ribosomal_L3: Ribosomal protein L3; InterPro: IPR000597 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=100.00  E-value=5.4e-71  Score=507.79  Aligned_cols=196  Identities=44%  Similarity=0.787  Sum_probs=181.4

Q ss_pred             EeeeeeEE---------CCC-CcEEEEEEEEeCCCeEEEEeeccC----------------------------CCCeeEE
Q 023905           66 KLGMMSYF---------EPD-GTVVPVTVVGFREGNIVTQVKTEA----------------------------TDGYDAV  107 (275)
Q Consensus        66 KiGMt~if---------~~~-G~~vpvTVl~~~~~~vV~~vkt~e----------------------------~dGY~Av  107 (275)
                      |+||||+|         +++ |..+||||||++ ||+|+++||.|                            +|||+|+
T Consensus         1 K~GMT~v~~~~~~~~s~~~~~g~~~pVTVle~~-p~~V~~ir~~~~~~~G~~~~~~~~~~~~~~~~~r~~~~~~~g~~a~   79 (263)
T PF00297_consen    1 KVGMTHVFMIDDRPGSPTEGKGVFVPVTVLEVP-PCVVVGIRTYEDTNDGLKAVQEVWAEHISDDLKRRIYKNKDGYKAV   79 (263)
T ss_dssp             EEEEEEEEEEB-STTSTTTTSEEEEEEEEEEE---EEEEEEEEEEEETTEEEEEEEEESS--STHHHGTCTSTTSSCHCC
T ss_pred             CCcceEEEEecCcCCCccCCCCEEEEEEEEEEC-CeEEEEEEeEecCCCcceeeEEEeccccccccceeeecccccchhh
Confidence            89999999         776 999999999996 79999999999                            9999999


Q ss_pred             EEeeeeeccccCChhhcchhhhcCCC---CCceEEEEEecCC----------CCcCCCcEEeccccccCCCEEEEEEEee
Q 023905          108 QIGYRRVRDKKLTKPELGHLQKSGLI---PMRHLQEFRLQSI----------DGFEAGQKLAFEEIFNEGDLVDVSGTTI  174 (275)
Q Consensus       108 qvG~g~~~~k~~~Kp~~G~f~kagv~---pkr~l~Efrv~~~----------~~~~~G~~l~~~~~F~~Gq~VDV~g~SK  174 (275)
                      |++|++.+++..+++++|||++++++   ++++|+||++.+.          +.+.+|++|+++|+|++||+|||+|+||
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~i~E~~v~~~~~~~~~~~a~~~l~~G~~i~v~dvF~~Gq~VDV~gvTK  159 (263)
T PF00297_consen   80 QLGFGEKKEKRVSKRLLGHFQKAGVPIPKKKPHIMEFRVSGGDVEEKLEYAKELLGVGKEIKVNDVFKEGQYVDVIGVTK  159 (263)
T ss_dssp             EECCCHHCCSTSCCECCEEHHGGGSSSS-CSSEEEEEECESSSHHHHHHHHHHHCSCSSEBSCCTTSSTTSEEEEEEEE-
T ss_pred             hhhhhhccccccchhhhhcccccccchhhccceeEEecccccChhHhhhhhhhhcCccceeehhheecccceEEEEEeec
Confidence            99999999999999999999999999   9999999999877          5688999999989999999999999999


Q ss_pred             ccceeeeeeeeccCCCCCCCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCCCeeEEEEceEEEEEeC-------------
Q 023905          175 GKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDN-------------  241 (275)
Q Consensus       175 GKGF~GvmKR~gF~g~pasHGSk~HR~~GSiG~~~~PgRV~kGkkMaG~mG~~~~Tv~Nl~V~kId~-------------  241 (275)
                      |||||||||||||+++|+|||+..||++||||+ ++|+|||+|++||||||++++|++||+|++||+             
T Consensus       160 GKGFqGv~KR~gf~~~p~sHg~~~hR~~GsiG~-~~PgrV~~g~kmaGqmG~~~rT~~Nl~I~~i~~~~~i~p~ggf~~y  238 (263)
T PF00297_consen  160 GKGFQGVMKRWGFKGGPASHGSSKHRKPGSIGA-WTPGRVFKGKKMAGQMGNHRRTEQNLRIVKIDDDKEINPKGGFKHY  238 (263)
T ss_dssp             EEEEETHHHHCSS--S-SSSSSTTSSSSS-SSC-SSSSSCGTTSTSSEEESSSEEEEEEEEEEEEETSSSSSSTT-BTTT
T ss_pred             CccccccccccCCCccCCCCCCcccCCCCcccc-cccceeecccccCccccceEEEecCcEEEEeCCCccccCCCCceeE
Confidence            999999999999999999999433999999999 999999999999999999999999999999999             


Q ss_pred             ---CCCEEEEeccCCCCCCCeEEEE
Q 023905          242 ---DLRVVMIKGAVPGKPGNLLRVA  263 (275)
Q Consensus       242 ---e~nli~VKGsVPG~k~~~V~I~  263 (275)
                         |+||||||||||||++++|+||
T Consensus       239 G~v~~n~ilvKGsVPG~~~~~V~iR  263 (263)
T PF00297_consen  239 GLVENNLILVKGSVPGPKKRLVKIR  263 (263)
T ss_dssp             B--TTTEEEEES-TSSSTTEEEEEE
T ss_pred             eeecCCEEEEeccccCCCCceEEeC
Confidence               9999999999999999999997

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L3 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L3 is known to bind to the 23S rRNA and may participate in the formation of the peptidyltransferase centre of the ribosome. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities includes bacterial, red algal, cyanelle, mammalian, yeast and Arabidopsis thaliana L3 proteins; archaeal Haloarcula marismortui HmaL3 (HL1), and yeast mitochondrial YmL9 [, , , ].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3UZ8_E 2X9U_E 3UZ1_E 3KNM_E 4ABS_E 2WDI_E 3UYG_E 4DHC_E 2J01_E 2Y11_E ....

>PRK04231 rpl3p 50S ribosomal protein L3P; Reviewed

Probab=100.00  E-value=1.8e-51  Score=387.64  Aligned_cols=212  Identities=29%  Similarity=0.452  Sum_probs=169.4

Q ss_pred             ccceeeeeEEEeeeeeEECCCCc----------EEEEEEEEeCCCeEEEEeeccCCCCee--EEE-Eeeeeec---cccC
Q 023905           56 YEAGIGVMGTKLGMMSYFEPDGT----------VVPVTVVGFREGNIVTQVKTEATDGYD--AVQ-IGYRRVR---DKKL  119 (275)
Q Consensus        56 ~~~r~Glig~KiGMt~if~~~G~----------~vpvTVl~~~~~~vV~~vkt~e~dGY~--Avq-vG~g~~~---~k~~  119 (275)
                      -+...|++|+|.|||+++..|-+          ..||||||++ |.+|..++--..+-|.  ++- +=+.+.+   .+++
T Consensus        36 ~p~l~~F~GyKaGMTHv~~~ddrp~S~~~gkEi~~~VTviEtP-Pm~V~gir~Y~~~~~Gl~~~~evwa~~l~~~~~Rr~  114 (337)
T PRK04231         36 EPKLLGFAGYKAGMTHVIMIDDRPNSPTEGKEIFVPVTVLETP-PMRVAAIRAYEKDPYGLKVLTEVWAEDLDKELERRI  114 (337)
T ss_pred             CcceeEeeeeccCCeEEEEecCCCCCccCCCeEEEeEEEEeCC-CeEEEEEEEEeECCCCcEEEEEEecccchHHHhhhc
Confidence            56789999999999998875432          8999999995 7888888665555442  211 1111111   1222


Q ss_pred             Chhh----------------cchh-----------hh-cCCCCCc-eEEEEEecCCC-----C---cCCCcEEecccccc
Q 023905          120 TKPE----------------LGHL-----------QK-SGLIPMR-HLQEFRLQSID-----G---FEAGQKLAFEEIFN  162 (275)
Q Consensus       120 ~Kp~----------------~G~f-----------~k-agv~pkr-~l~Efrv~~~~-----~---~~~G~~l~~~~~F~  162 (275)
                      +++.                .+.+           ++ .+++-|. +|.|++|...+     +   -.+|++|+++|+|+
T Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~vR~i~~Tqp~~~~~l~kKkp~i~Ei~v~Gg~i~~k~~~a~~llG~~i~v~dvF~  194 (337)
T PRK04231        115 TLPKKDEKKKAFEKLLKLLEEGKIVDVRVIVHTQPKLVTGVPKKKPEIMEIRIGGGSVEERLEYAKELLGKEISISDVFK  194 (337)
T ss_pred             cccccchhhHHHHHHHHHhhcCCeeEEEEEEEechhhccCCCCCCCCEEEEeecCCCHHHHHHHHHHhcCCccchhhhcc
Confidence            2221                0111           12 2566665 89999997532     1   15799999988999


Q ss_pred             CCCEEEEEEEeeccceeeeeeeeccCCCCCCCC-CCCCCCCCCCCCCCCCCcccCCCCCCCCCCCeeEEEEceEEEEEeC
Q 023905          163 EGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDN  241 (275)
Q Consensus       163 ~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHG-Sk~HR~~GSiG~~~~PgRV~kGkkMaG~mG~~~~Tv~Nl~V~kId~  241 (275)
                      +||+|||+|+|||||||||||||||+++|++|| ++.||++||||+ |+|+|||+|++||||||++++|++||+|++||.
T Consensus       195 ~Ge~VDV~gvTKGKGfqGvvKRwg~~~~p~~Hg~~~~~R~~GsiG~-~~P~rV~~~~~maGqmG~~~rT~~N~~I~kI~~  273 (337)
T PRK04231        195 EGQLVDVIAVTKGKGFQGVVKRWGVKLLPRKHKRRGGSRHIGTLGP-WNPSRVMWTVPQAGQMGFHQRTEYNKRILKIGD  273 (337)
T ss_pred             CCCEEEEEEEEeCCccccCeeccCcCCCCCccCCCCCCCCCcccCC-CCCCcccCCCccCCCCCCceEEEecCEEEEEcC
Confidence            999999999999999999999999999999999 679999999997 899999999999999999999999999999998


Q ss_pred             -----------------CCCEEEEeccCCCCCCCeEEEEeceecC
Q 023905          242 -----------------DLRVVMIKGAVPGKPGNLLRVAPAKIVG  269 (275)
Q Consensus       242 -----------------e~nli~VKGsVPG~k~~~V~I~~a~~~~  269 (275)
                                       ++||||||||||||++++|+|++|++..
T Consensus       274 ~~~~ItP~GGF~hYG~V~~~~ilvKGsVPG~~kr~v~lr~air~~  318 (337)
T PRK04231        274 DGDEITPKGGFLHYGLVRNDYVLIKGSVPGPAKRLIRLRPAIRPP  318 (337)
T ss_pred             CccccccCCCccccccccCCEEEEEecccCCCCceEEEehhhccC
Confidence                             5999999999999999999999998643

>TIGR03626 L3_arch archaeal ribosomal protein L3

Probab=100.00  E-value=2.7e-51  Score=385.40  Aligned_cols=211  Identities=31%  Similarity=0.435  Sum_probs=168.7

Q ss_pred             ccceeeeeEEEeeeeeEECCCC----------cEEEEEEEEeCCCeEEEEeeccCCC--CeeEEEEeee-eec---cccC
Q 023905           56 YEAGIGVMGTKLGMMSYFEPDG----------TVVPVTVVGFREGNIVTQVKTEATD--GYDAVQIGYR-RVR---DKKL  119 (275)
Q Consensus        56 ~~~r~Glig~KiGMt~if~~~G----------~~vpvTVl~~~~~~vV~~vkt~e~d--GY~AvqvG~g-~~~---~k~~  119 (275)
                      -+...|++|+|.|||+++-.+-          ...||||||++ |.+|..++--..+  |..++-=-+. +.+   .+++
T Consensus        32 ~~~l~~F~GyKaGMTHvv~~~drp~S~~~gkEv~~~VTviEtP-Pm~v~gir~Y~~t~~Gl~~l~~vwa~~l~~e~~r~~  110 (330)
T TIGR03626        32 EPKLQGFAGYKAGMTHVIMVDDRKNSPTEGKEISVPVTVLEAP-PLRVAAIRAYGKDPYGLKVLTEVWANNLDKELSRKI  110 (330)
T ss_pred             CceeeeeeeeccCCeEEEEecCCCCCCcCCCeEEeeeEEEecC-CeEEEEEEEEEECCCCcEEEEEEeeccCcHHHhhcc
Confidence            5688999999999999886432          47899999995 6888877544333  4333321121 111   1122


Q ss_pred             Chhh-----------cchhh---------------h-cCCCCCc-eEEEEEecCCC-----C---cCCCcEEeccccccC
Q 023905          120 TKPE-----------LGHLQ---------------K-SGLIPMR-HLQEFRLQSID-----G---FEAGQKLAFEEIFNE  163 (275)
Q Consensus       120 ~Kp~-----------~G~f~---------------k-agv~pkr-~l~Efrv~~~~-----~---~~~G~~l~~~~~F~~  163 (275)
                      .++.           ...++               + .+++-|. +|+|++|...+     +   -.+|++|+++|+|++
T Consensus       111 ~~~k~~~~~~~~~~~~~~l~~~~~~iRvi~~Tqp~~~~~~~kKkp~imEi~v~Gg~i~~k~~~a~~~lG~~i~v~dvF~~  190 (330)
T TIGR03626       111 TLPKNYDVEEKLEKIEELLENDADDVRLIVHTQPKLVTGVPKKKPEIMEIRIGGGSVEERFEYALSILGKEISVSDVFKE  190 (330)
T ss_pred             ccccccchhhHHHHHHHHHhcCceEEEEEEEeccccccCcccCCccEEEEeecCCCHHHHhHhhHhcCCcEEehhheecC
Confidence            2211           11111               2 2566665 89999997543     1   257999999889999


Q ss_pred             CCEEEEEEEeeccceeeeeeeeccCCCCCCCC-CCCCCCCCCCCCCCCCCcccCCCCCCCCCCCeeEEEEceEEEEEeCC
Q 023905          164 GDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDND  242 (275)
Q Consensus       164 Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHG-Sk~HR~~GSiG~~~~PgRV~kGkkMaG~mG~~~~Tv~Nl~V~kId~e  242 (275)
                      ||+|||+|+|||||||||||||||+++|++|| ++.||++||||+ |+|+|||+|++||||||++++|++||+|++||+|
T Consensus       191 Ge~VDV~gvTKGKGfqGvvKRwg~~~~p~~hg~~~~~R~~GsiG~-~~P~rV~~~~~maGqmG~~~rT~~N~~I~kI~~e  269 (330)
T TIGR03626       191 GQLVDVIAVTKGKGFQGVVKRWGVKLLPRKHKRRKGGRHIGTLGP-WTPSRVRWTVPQAGQMGYHQRTEYNKRILKIGED  269 (330)
T ss_pred             CCEEEEEEEEcCCccccCeeccccCCCCCccCCCCCCCCCcccCC-CCCCcccCCcccCCCCCCceEEEecCEEEEEcCc
Confidence            99999999999999999999999999999999 679999999997 8999999999999999999999999999999999


Q ss_pred             -----------------CCEEEEeccCCCCCCCeEEEEeceec
Q 023905          243 -----------------LRVVMIKGAVPGKPGNLLRVAPAKIV  268 (275)
Q Consensus       243 -----------------~nli~VKGsVPG~k~~~V~I~~a~~~  268 (275)
                                       +||||||||||||++++|+|++|++.
T Consensus       270 ~~~ItP~GGF~~YG~Vk~~~ilvKGsVPG~~~r~v~lr~a~~~  312 (330)
T TIGR03626       270 GDEITPKGGFVNYGLVRNDYVLIKGSVPGPSKRLIRLRDAIRP  312 (330)
T ss_pred             cccccccCCccccccccCCEEEEEecCcCCCCceEEEehhhcc
Confidence                             99999999999999999999999864

This model describes exclusively the archaeal class of ribosomal protein L3. A separate model (TIGR03625) describes the bacterial/organelle form, and both belong to Pfam family pfam00297. Eukaryotic proteins are excluded from this model.

>PTZ00103 60S ribosomal protein L3; Provisional

Probab=100.00  E-value=1.9e-47  Score=364.69  Aligned_cols=208  Identities=24%  Similarity=0.359  Sum_probs=162.3

Q ss_pred             cceeeeeEEEeeeeeEECCCC----------cEEEEEEEEeCCCeEEEEeeccCCC--CeeEEEEee-eeecc---ccC-
Q 023905           57 EAGIGVMGTKLGMMSYFEPDG----------TVVPVTVVGFREGNIVTQVKTEATD--GYDAVQIGY-RRVRD---KKL-  119 (275)
Q Consensus        57 ~~r~Glig~KiGMt~if~~~G----------~~vpvTVl~~~~~~vV~~vkt~e~d--GY~AvqvG~-g~~~~---k~~-  119 (275)
                      +...|++|+|.|||+|+-++-          ...||||||++ |.+|+.++--..+  |..++-=-+ ...++   +++ 
T Consensus        41 p~L~aF~GyKAGMTHvv~~~drp~S~~~~kEv~~~VTIiEtP-Pm~V~GirgY~~tp~Gl~~l~~vwA~~l~~e~~rr~y  119 (390)
T PTZ00103         41 PHLTAFMGYKAGMTHIVRDVDRPGSKLHKKEVVEAVTIIEAP-PMVVVGIVGYRETPRGLRALTTVWAHHLSDEFRRRFY  119 (390)
T ss_pred             ceEeeeeeeccCCeEEEEecCCCCCCcCCCeEEeeeEEEeCC-CeEEEEEEEEEECCCCcEEeEEEeeccCcHHHhhhhc
Confidence            578999999999999886532          47899999995 6888876433333  322221111 11110   111 


Q ss_pred             -C----------------------hhhcchhh---------------hcCCCCCc-eEEEEEecCCC-----Cc---CCC
Q 023905          120 -T----------------------KPELGHLQ---------------KSGLIPMR-HLQEFRLQSID-----GF---EAG  152 (275)
Q Consensus       120 -~----------------------Kp~~G~f~---------------kagv~pkr-~l~Efrv~~~~-----~~---~~G  152 (275)
                       +                      +.++..++               +..++-|. +|+|++|...+     +|   .+|
T Consensus       120 k~~~~s~k~af~k~~~~~~~~~~~~~~~~~l~k~~~~IRvi~hTqp~~~~l~kKkp~imEiqv~GGsv~~k~d~a~~llg  199 (390)
T PTZ00103        120 KNWYKSKKKAFTKYKKFAATKKAEERTLKRIKKYCSVIRVIAHTQPSKLPLGQKKAHVMEIQVNGGSVAEKVDFAKSLLE  199 (390)
T ss_pred             cccchhhhhhhhhhhhhhcchhhHHHHHHHHhhcccEEEEEEEcchhhcCcCCcCccEEEEeecCCCHHHHHHHHHHHhc
Confidence             0                      01111112               12244454 89999997643     12   579


Q ss_pred             cEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCCC-CCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCCCeeEEE
Q 023905          153 QKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAM-THGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKI  231 (275)
Q Consensus       153 ~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pa-sHGSk~HR~~GSiG~~~~PgRV~kGkkMaG~mG~~~~Tv  231 (275)
                      ++|+++|+|++||+|||+|+|||||||||||||||+++|+ |||  .||++||||+ |+|+||++|++||||||++++|+
T Consensus       200 k~i~v~dvF~~ge~VDVigvTKGKGfqGvvKRwg~~~~p~ktH~--~~RkvGsiG~-w~P~RV~~~v~~aGQmG~h~rTe  276 (390)
T PTZ00103        200 KEVPVDSVFQQNEMIDVIGVTKGHGFEGVVKRWGVTRLPRKTHR--GLRKVACIGA-WHPARVQYTVPRAGQHGYHHRTE  276 (390)
T ss_pred             CeechhhhccCCCEeeeEEEEcCCccccCeeccccCCCCccccC--CCCCCCccCC-CCCCcccCCCccCcCCCCceEEE
Confidence            9999989999999999999999999999999999999995 999  5999999999 69999999999999999999999


Q ss_pred             EceEEEEEeC------------------------------CCCEEEEeccCCCCCCCeEEEEeceec
Q 023905          232 RKLKIVKIDN------------------------------DLRVVMIKGAVPGKPGNLLRVAPAKIV  268 (275)
Q Consensus       232 ~Nl~V~kId~------------------------------e~nli~VKGsVPG~k~~~V~I~~a~~~  268 (275)
                      +|++|++||.                              ++||||||||||||++++|+||+|++.
T Consensus       277 ~Nk~I~rI~~~~~~~~~~t~~~~~~~~ItP~GGF~hYG~V~~d~imiKGsVpGp~kr~v~lR~ai~~  343 (390)
T PTZ00103        277 LNKKIYRIGVAEDPNNATTEADLTEKTITPMGGFPHYGTVRNDFLMLKGCVVGPKKRVITLRKSLVP  343 (390)
T ss_pred             eccEEEEEcCCCCcccccccccccccccccCCCccccceecCCEEEEeccccCCCCceEEEehhhcc
Confidence            9999999998                              789999999999999999999999764

>KOG0746 consensus 60S ribosomal protein L3 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=99.91  E-value=7.6e-25  Score=205.63  Aligned_cols=206  Identities=23%  Similarity=0.302  Sum_probs=154.9

Q ss_pred             ceeeeeEEEeeeeeEECC---CC-------cEEEEEEEEeCCCeEEEEe----ecc----------------------CC
Q 023905           58 AGIGVMGTKLGMMSYFEP---DG-------TVVPVTVVGFREGNIVTQV----KTE----------------------AT  101 (275)
Q Consensus        58 ~r~Glig~KiGMt~if~~---~G-------~~vpvTVl~~~~~~vV~~v----kt~----------------------e~  101 (275)
                      ..+++||+|.|||.|..|   .|       .+.+|||||.+ |.||+.+    +|.                      .+
T Consensus        29 hlT~FlgYKAGMThivRe~drpgsK~~kkEv~eAVTi~etP-pmvVvgvvgyv~Tp~Glr~l~tv~A~hlSde~~Rrfyk  107 (384)
T KOG0746|consen   29 HLTAFLGYKAGMTHIVREVDRPGSKVNKKEVVEAVTIVETP-PMVVVGIVGYVETPRGLRTLKTVWAEHLSDECKRRFYK  107 (384)
T ss_pred             eEeeeecccccceeeehhhcCcccccchhhheeeEEEeccC-CEEEEEEeeeeecCchHHHHHHHHHHHhhHHHHHHHHH
Confidence            567999999999999976   24       36799999995 7888875    221                      12


Q ss_pred             CCeeEEEEeeeeecccc---CC-hhhcchhhhc---C---------------C-CCCceEEEEEecCCC--------CcC
Q 023905          102 DGYDAVQIGYRRVRDKK---LT-KPELGHLQKS---G---------------L-IPMRHLQEFRLQSID--------GFE  150 (275)
Q Consensus       102 dGY~AvqvG~g~~~~k~---~~-Kp~~G~f~ka---g---------------v-~pkr~l~Efrv~~~~--------~~~  150 (275)
                      |.|.+-.-+|-....++   .. +.+.-.|++.   -               + .-|.||+|.+++...        .-.
T Consensus       108 nw~kskkkaft~~~k~~~~~~gk~~~~~~~~~~kky~~virv~ahtq~~~~~l~qkkahlmeiqvngGtia~KvdwA~~~  187 (384)
T KOG0746|consen  108 NWHKSKKKAFTKYCKKWQDEDGKKQLEKDFSSMKKYCQVIRVIAHTQMRLLPLRQKKAHLMEIQVNGGTVAEKVDWARER  187 (384)
T ss_pred             hhhhhhhHHHHHHhhhhhhhhcchhhHHHHHHHHhhhheeeeeeechhhhhhhhhhhhhheeeeecCCcHHHHhHHHHhh
Confidence            22211111110000000   00 0011111111   0               0 257899999997543        123


Q ss_pred             CCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCC-CCCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCCCeeE
Q 023905          151 AGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGA-MTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTR  229 (275)
Q Consensus       151 ~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~p-asHGSk~HR~~GSiG~~~~PgRV~kGkkMaG~mG~~~~  229 (275)
                      ..+++.++++|+..|.+|++|+|||+||.||..|||.+.+| .||-  ..|...|||+ |+|.||.....+|||+|++++
T Consensus       188 lEkqv~v~~vF~qdemId~IgvtkGkGykGvt~rw~tkklprkthr--glrkvaciga-whpa~V~~sVaRaGqkgyHhr  264 (384)
T KOG0746|consen  188 LEKQVPVNQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHR--GLRKVACIGA-WHPARVAFSVARAGQKGYHHR  264 (384)
T ss_pred             hhccCchhhccccccccceeeeeecccccccccccccccCcchhcc--cchheeeccc-ccccceeeeeeccccccchhh
Confidence            56888888999999999999999999999999999999999 7776  5799999999 999999999999999999999


Q ss_pred             EEEceEEEEEeCC-------------------------------CCEEEEeccCCCCCCCeEEEEecee
Q 023905          230 KIRKLKIVKIDND-------------------------------LRVVMIKGAVPGKPGNLLRVAPAKI  267 (275)
Q Consensus       230 Tv~Nl~V~kId~e-------------------------------~nli~VKGsVPG~k~~~V~I~~a~~  267 (275)
                      |..|.+|++|...                               |+++|+||||+|++.+++.++.++.
T Consensus       265 TeiNkkiY~ig~g~~~~~nastdyDlt~k~itpmggf~hYG~V~ndfvM~kgcvvg~kKrv~TLrksll  333 (384)
T KOG0746|consen  265 TEINKKIYRIGQGKLIKNNASTDYDLTEKSITPMGGFPHYGEVINDFVMLKGCVVGPKKRVVTLRKSLL  333 (384)
T ss_pred             hhhhhheeecccccccccccccCccccccccccCCCcceeeeeechheeecccccCccccccchhhhhh
Confidence            9999999999652                               6899999999999999999998854

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	275
3bbo_F	259	Homology Model For The Spinach Chloroplast 50s Subu		1e-105
1p85_B	209	Real Space Refined Coordinates Of The 50s Subunit F		3e-38
1pnu_B	205	Crystal Structure Of A Streptomycin Dependent Ribos		3e-34
1nkw_B	211	Crystal Structure Of The Large Ribosomal Subunit Fr		4e-34
2j01_E	206	Structure Of The Thermus Thermophilus 70s Ribosome		1e-28
3pyo_D	204	Crystal Structure Of A Complex Containing Domain 3		1e-28
3fin_E	205	T. Thermophilus 70s Ribosome In Complex With Mrna,		1e-28
2ftc_C	211	Structural Model For The Large Subunit Of The Mamma		4e-20
3j21_C	365	Promiscuous Behavior Of Proteins In Archaeal Riboso		5e-07
1jj2_B	337	Fully Refined Crystal Structure Of The Haloarcula M		3e-06
1s72_B	338	Refined Crystal Structure Of The Haloarcula Marismo		3e-06
1ml5_e	338	Crystal Structure Of The Ribosome At 5.5 A Resoluti		1e-04
1ffk_B	337	Crystal Structure Of The Large Ribosomal Subunit Fr		1e-04

>pdb|3BBO|F Chain F, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 259

Iteration: 1
 Score =  377 bits (969), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 186/237 (78%), Positives = 206/237 (86%), Gaps = 4/237 (1%)
Query: 43  TTKRTTTHI----VSMSYEAGIGVMGTKLGMMSYFEXXXXXXXXXXXXFREGNIVTQVKT 98
           T K T+ HI    +S S EAG+GVM TKLGMMS+FE            FREGNIVTQ+KT
Sbjct: 23  THKPTSLHISKSSISASLEAGVGVMATKLGMMSFFEESGTVVPVTVVGFREGNIVTQIKT 82
Query: 99  EATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFE 158
           EATDGY+AVQ+GYRRVRD+KLTKPE+GHL+KSG+IP+RHLQEFRLQSIDGFE  QKL F 
Sbjct: 83  EATDGYNAVQVGYRRVRDRKLTKPEMGHLEKSGIIPLRHLQEFRLQSIDGFEVTQKLDFG 142
Query: 159 EIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGK 218
           E+F EGDLVDVSGTTIGKGFQGGIKRHNF+RG MTHGSKSHRQLGSIGAGTTPGRVYKGK
Sbjct: 143 ELFKEGDLVDVSGTTIGKGFQGGIKRHNFKRGQMTHGSKSHRQLGSIGAGTTPGRVYKGK 202
Query: 219 KMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN 275
           KMPGRMGGT RKIRKLKIVKID+ L ++MIKGA+PGKPGNLLR+APAKIVGKNIPK+
Sbjct: 203 KMPGRMGGTKRKIRKLKIVKIDDQLNIIMIKGALPGKPGNLLRIAPAKIVGKNIPKS 259

>pdb|1P85|B Chain B, Real Space Refined Coordinates Of The 50s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 209

Iteration: 1
 Score =  155 bits (391), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 91/207 (43%), Positives = 123/207 (59%), Gaps = 3/207 (1%)
Query: 60  IGVMGTKLGMMSYFEXXXXXXXXXXXXFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKL 119
           IG++G K+GM   F               E N VTQVK  A DGY A+Q+     +  ++
Sbjct: 2   IGLVGKKVGMTRIFTEDGVSIPVTVIEV-EANRVTQVKDLANDGYRAIQVTTGAKKANRV 60
Query: 120 TKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQ 179
           TKPE GH  K+G+   R L EFRL   + F  GQ ++ E +F +   VDV+GT+ GKGF 
Sbjct: 61  TKPEAGHFAKAGVEAGRGLWEFRLAEGEEFTVGQSISVE-LFADVKKVDVTGTSKGKGFA 119
Query: 180 GGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVK 238
           G +KR NFR    THG S SHR  GSIG   TPG+V+KGKKM G+MG     ++ L +V+
Sbjct: 120 GTVKRWNFRTQDATHGNSLSHRVPGSIGQNQTPGKVFKGKKMAGQMGNERVTVQSLDVVR 179
Query: 239 IDNDLRVVMIKGAVPGKPGNLLRVAPA 265
           +D +  ++++KGAVPG  G+ L V PA
Sbjct: 180 VDAERNLLLVKGAVPGATGSDLIVKPA 206

>pdb|1PNU|B Chain B, Crystal Structure Of A Streptomycin Dependent Ribosome From Escherichia Coli, 50s Subunit Of 70s Ribosome. This File, 1pnu, Contains Only Molecules Of The 50s Ribosomal Subunit. The 30s Subunit, Mrna, P-Site Trna, And A-Site Trna Are In The Pdb File 1pns. Length = 205

Iteration: 1
 Score =  142 bits (357), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 84/201 (41%), Positives = 117/201 (58%), Gaps = 8/201 (3%)
Query: 61  GVMGTKLGMMSYFEXXXXXXXXXXXXFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLT 120
           G++GTK+GM   ++                  + Q KT  TDGY+AVQIGY    ++K+ 
Sbjct: 3   GILGTKIGMTQIWKNDRAIPVTVV--LAGPCPIVQRKTAQTDGYEAVQIGYAPKAERKVN 60
Query: 121 KPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQG 180
           KP  GH  K+G+ P R L+EFR     GF         +IF EG+ +D +GT+ GKG QG
Sbjct: 61  KPMQGHFAKAGVAPTRILREFR-----GFAPDGDSVNVDIFAEGEKIDATGTSKGKGTQG 115
Query: 181 GIKRHNFRRGAMTHGSKS-HRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI 239
            +KR NF  G  +HGSK  HR+ GSIG   TPGRVYKGK+M G MG     ++ L++V+I
Sbjct: 116 VMKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKGKRMAGHMGMERVTVQNLEVVEI 175
Query: 240 DNDLRVVMIKGAVPGKPGNLL 260
                ++++KGA+PG  G L+
Sbjct: 176 RAGENLILVKGAIPGANGGLV 196

>pdb|1NKW|B Chain B, Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans Length = 211

Iteration: 1
 Score =  141 bits (355), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 84/201 (41%), Positives = 117/201 (58%), Gaps = 8/201 (3%)
Query: 61  GVMGTKLGMMSYFEXXXXXXXXXXXXFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLT 120
           G++GTK+GM   ++                  + Q KT  TDGY+AVQIGY    ++K+ 
Sbjct: 3   GILGTKIGMTQIWKNDRAIPVTVV--LAGPCPIVQRKTAQTDGYEAVQIGYAPKAERKVN 60
Query: 121 KPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQG 180
           KP  GH  K+G+ P R L+EFR     GF         +IF EG+ +D +GT+ GKG QG
Sbjct: 61  KPMQGHFAKAGVAPTRILREFR-----GFAPDGDSVNVDIFAEGEKIDATGTSKGKGTQG 115
Query: 181 GIKRHNFRRGAMTHGSKS-HRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI 239
            +KR NF  G  +HGSK  HR+ GSIG   TPGRVYKGK+M G MG     ++ L++V+I
Sbjct: 116 VMKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKGKRMAGHMGMERVTVQNLEVVEI 175
Query: 240 DNDLRVVMIKGAVPGKPGNLL 260
                ++++KGA+PG  G L+
Sbjct: 176 RAGENLILVKGAIPGANGGLV 196

>pdb|2J01|E Chain E, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4). This File Contains The 50s Subunit From Molecule I. Length = 206

Iteration: 1
 Score =  123 bits (309), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 81/211 (38%), Positives = 111/211 (52%), Gaps = 8/211 (3%)
Query: 61  GVMGTKLGMMSYFEXXXXXXXXXXXXFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLT 120
           G++G K+GM   F                   V Q +T   DGY AVQ+G+     K++ 
Sbjct: 3   GILGVKVGMTRIFRDDRAVPVTVI--LAGPCPVVQRRTPEKDGYTAVQLGFLPQNPKRVN 60
Query: 121 KPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQG 180
           +P  GH  K+G+ P+R L+E R      F         EIF  G+ VDV+GT+ G+GF G
Sbjct: 61  RPLKGHFAKAGVEPVRILREIR-----DFNPEGDTVTVEIFKPGERVDVTGTSKGRGFAG 115
Query: 181 GIKRHNFRRGAMTHGS-KSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI 239
            +KR NF  G  +HG+ K HR  GSIG   TPGRVYKGKKM G  G     +  L++V +
Sbjct: 116 VMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKGKKMAGHYGAERVTVMNLEVVDV 175
Query: 240 DNDLRVVMIKGAVPGKPGNLLRVAPAKIVGK 270
             +  ++++KGAVPG  G L+ V   K   K
Sbjct: 176 IPEENLLLVKGAVPGPNGGLVIVRETKKAAK 206

>pdb|3PYO|D Chain D, Crystal Structure Of A Complex Containing Domain 3 From The Psiv Igr Ires Rna Bound To The 70s Ribosome. This File Contains The 50s Subunit Of The First 70s Ribosome. Length = 204

Iteration: 1
 Score =  123 bits (308), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 80/207 (38%), Positives = 110/207 (53%), Gaps = 8/207 (3%)
Query: 61  GVMGTKLGMMSYFEXXXXXXXXXXXXFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLT 120
           G++G K+GM   F                   V Q +T   DGY AVQ+G+     K++ 
Sbjct: 3   GILGVKVGMTRIFRDDRAVPVTVI--LAGPCPVVQRRTPEKDGYTAVQLGFLPQNPKRVN 60
Query: 121 KPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQG 180
           +P  GH  K+G+ P+R L+E R      F         EIF  G+ VDV+GT+ G+GF G
Sbjct: 61  RPLKGHFAKAGVEPVRILREIR-----DFNPEGDTVTVEIFKPGERVDVTGTSKGRGFAG 115
Query: 181 GIKRHNFRRGAMTHGS-KSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI 239
            +KR NF  G  +HG+ K HR  GSIG   TPGRVYKGKKM G  G     +  L++V +
Sbjct: 116 VMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKGKKMAGHYGAERVTVMNLEVVDV 175
Query: 240 DNDLRVVMIKGAVPGKPGNLLRVAPAK 266
             +  ++++KGAVPG  G L+ V   K
Sbjct: 176 IPEENLLLVKGAVPGPNGGLVIVRETK 202

>pdb|3FIN|E Chain E, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A 6.4 A Cryo-Em Map. This File Contains The 50s Subunit. Length = 205

Iteration: 1
 Score =  123 bits (308), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 80/207 (38%), Positives = 110/207 (53%), Gaps = 8/207 (3%)
Query: 61  GVMGTKLGMMSYFEXXXXXXXXXXXXFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLT 120
           G++G K+GM   F                   V Q +T   DGY AVQ+G+     K++ 
Sbjct: 3   GILGVKVGMTRIFRDDRAVPVTVI--LAGPCPVVQRRTPEKDGYTAVQLGFLPQNPKRVN 60
Query: 121 KPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQG 180
           +P  GH  K+G+ P+R L+E R      F         EIF  G+ VDV+GT+ G+GF G
Sbjct: 61  RPLKGHFAKAGVEPVRILREIR-----DFNPEGDTVTVEIFKPGERVDVTGTSKGRGFAG 115
Query: 181 GIKRHNFRRGAMTHGS-KSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI 239
            +KR NF  G  +HG+ K HR  GSIG   TPGRVYKGKKM G  G     +  L++V +
Sbjct: 116 VMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKGKKMAGHYGAERVTVMNLEVVDV 175
Query: 240 DNDLRVVMIKGAVPGKPGNLLRVAPAK 266
             +  ++++KGAVPG  G L+ V   K
Sbjct: 176 IPEENLLLVKGAVPGPNGGLVIVRETK 202

>pdb|2FTC|C Chain C, Structural Model For The Large Subunit Of The Mammalian Mitochondrial Ribosome Length = 211

Iteration: 1
 Score = 95.1 bits (235), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 63/210 (30%), Positives = 106/210 (50%), Gaps = 4/210 (1%)
Query: 60  IGVMGTKLGMMSYFEXXXXXXXXXXXXFREGNIVTQVKTEATDGYDA-VQIGYRRVRDKK 118
           +G++  KLGMM  +              ++ +++     E  +G  A + +G + V   +
Sbjct: 2   VGLIALKLGMMPLWTKDGQKHVVTLLQVQDCHVLKYTSKENCNGKMATLSVGGKTVSRFR 61
Query: 119 LTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGF 178
                L   ++ GL P + ++ F +      + G  L +   F  G  VDV+  TIGKGF
Sbjct: 62  KATSILEFYRELGLPPKQTVKIFNITDNAAIKPGTPL-YAAHFRPGQYVDVTAKTIGKGF 120
Query: 179 QGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIV 237
           QG +KR  F+    THG +K+HR+ G++  G   GRV+ G KMPG+MG   R    LK+ 
Sbjct: 121 QGVMKRWGFKGQPATHGQTKTHRRPGAVATGDI-GRVWPGTKMPGKMGNIYRTEYGLKVW 179
Query: 238 KIDNDLRVVMIKGAVPGKPGNLLRVAPAKI 267
           +I+    ++ + G+VPG    L++V  +K+
Sbjct: 180 RINTKHNIIYVNGSVPGHKNCLVKVKDSKL 209

>pdb|3J21|C Chain C, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (50s Ribosomal Proteins) Length = 365

Iteration: 1
 Score = 51.6 bits (122), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 44/140 (31%), Positives = 64/140 (45%), Gaps = 28/140 (20%)
Query: 152 GQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTP 211
           G++L   E+  EG+L+DV   T GKG QG +KR   +  A    SK  R++GSIG    P
Sbjct: 204 GKELRVGEVLKEGELLDVIAVTKGKGTQGPVKRWGIKLRAHKD-SKGRRKVGSIGP-WHP 261
Query: 212 GRVYKGKKMPGRMGGTTRKIRKLKIV--------KIDNDLRV------------------ 245
            RV     M G+MG   R     +++        K+D +  +                  
Sbjct: 262 ARVMWTVPMAGQMGFHHRTELNKRLIAIGENGKLKLDENTEIEITPKGGFPHYGIVRSDF 321
Query: 246 VMIKGAVPGKPGNLLRVAPA 265
           +MI G+VPG    ++RV PA
Sbjct: 322 MMIAGSVPGAIKRIIRVRPA 341

>pdb|1JJ2|B Chain B, Fully Refined Crystal Structure Of The Haloarcula Marismortui Large Ribosomal Subunit At 2.4 Angstrom Resolution Length = 337

Iteration: 1
 Score = 48.9 bits (115), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 39/139 (28%), Positives = 62/139 (44%), Gaps = 18/139 (12%)
Query: 144 QSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKS-HRQL 202
            ++D  E G + A  +IF  G+  DV+G T GKG QG +KR   ++    H  +   R++
Sbjct: 177 HALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRI 236
Query: 203 GSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI----------------DNDLRVV 246
           G++G    P RV       G+ G   R     +++ I                + D    
Sbjct: 237 GNLGP-WNPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEGDEPTVDGGFVNYGEVDGPYT 295
Query: 247 MIKGAVPGKPGNLLRVAPA 265
           ++KG+VPG    L+R  PA
Sbjct: 296 LVKGSVPGPDKRLVRFRPA 314

>pdb|1S72|B Chain B, Refined Crystal Structure Of The Haloarcula Marismortui Large Ribosomal Subunit At 2.4 Angstrom Resolution Length = 338

Iteration: 1
 Score = 48.9 bits (115), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 39/139 (28%), Positives = 62/139 (44%), Gaps = 18/139 (12%)
Query: 144 QSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKS-HRQL 202
            ++D  E G + A  +IF  G+  DV+G T GKG QG +KR   ++    H  +   R++
Sbjct: 178 HALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRI 237
Query: 203 GSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI----------------DNDLRVV 246
           G++G    P RV       G+ G   R     +++ I                + D    
Sbjct: 238 GNLGP-WNPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEGDEPTVDGGFVNYGEVDGPYT 296
Query: 247 MIKGAVPGKPGNLLRVAPA 265
           ++KG+VPG    L+R  PA
Sbjct: 297 LVKGSVPGPDKRLVRFRPA 315

>pdb|1ML5|EE Chain e, Structure Of The E. Coli Ribosomal Termination Complex With Release Factor 2 Length = 338

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 35/128 (27%), Positives = 57/128 (44%), Gaps = 18/128 (14%)
Query: 144 QSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKS-HRQL 202
            ++D  E G + A  +IF  G+  DV+G T GKG QG +KR   ++    H  +   R++
Sbjct: 177 HALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRI 236
Query: 203 GSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI----------------DNDLRVV 246
           G++G    P RV       G+ G   R     +++ I                + D    
Sbjct: 237 GNLGP-WNPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEGDEPTVDGGFVNYGEVDGPYT 295
Query: 247 MIKGAVPG 254
           ++KG+VPG
Sbjct: 296 LVKGSVPG 303

>pdb|1FFK|B Chain B, Crystal Structure Of The Large Ribosomal Subunit From Haloarcula Marismortui At 2.4 Angstrom Resolution Length = 337

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 35/128 (27%), Positives = 57/128 (44%), Gaps = 18/128 (14%)
Query: 144 QSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKS-HRQL 202
            ++D  E G + A  +IF  G+  DV+G T GKG QG +KR   ++    H  +   R++
Sbjct: 176 HALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRI 235
Query: 203 GSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI----------------DNDLRVV 246
           G++G    P RV       G+ G   R     +++ I                + D    
Sbjct: 236 GNLGP-WNPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEGDEPTVDGGFVNYGEVDGPYT 294
Query: 247 MIKGAVPG 254
           ++KG+VPG
Sbjct: 295 LVKGSVPG 302

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	275
3bbo_F	259	Ribosomal protein L3; large ribosomal subunit, spi	1e-114
3r8s_D	209	50S ribosomal protein L3; protein biosynthesis, RN	1e-103
3v2d_E	206	50S ribosomal protein L3; ribosome associated inhi	7e-97
2zjr_B	211	50S ribosomal protein L3; ribosome, large ribosoma	4e-96
2ftc_C	211	L3MT, MRP-L3, mitochondrial 39S ribosomal protein	3e-95
1vq8_B	338	50S ribosomal protein L3P; ribosome 50S, protein-p	1e-38
3iz5_C	389	60S ribosomal protein L3 (L3P); eukaryotic ribosom	8e-30
4a17_B	391	RPL3, ribosomal protein L3; eukaryotic ribosome, r	2e-27
3u5e_B	387	60S ribosomal protein L3; translation, ribosome, r	3e-26
2zkr_b	403	60S ribosomal protein L3; protein-RNA complex, 60S	2e-24

>3bbo_F Ribosomal protein L3; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 259

 Score =  328 bits (844), Expect = e-114
 Identities = 194/254 (76%), Positives = 216/254 (85%), Gaps = 3/254 (1%)

Query: 25  RPTRKASILASPKQPLIFTTKRTTTH---IVSMSYEAGIGVMGTKLGMMSYFEPDGTVVP 81
              R   +   P + L      +       +S S EAG+GVM TKLGMMS+FE  GTVVP
Sbjct: 6   LTLRSPFLHRLPLRALKTHKPTSLHISKSSISASLEAGVGVMATKLGMMSFFEESGTVVP 65

Query: 82  VTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEF 141
           VTVVGFREGNIVTQ+KTEATDGY+AVQ+GYRRVRD+KLTKPE+GHL+KSG+IP+RHLQEF
Sbjct: 66  VTVVGFREGNIVTQIKTEATDGYNAVQVGYRRVRDRKLTKPEMGHLEKSGIIPLRHLQEF 125

Query: 142 RLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQ 201
           RLQSIDGFE  QKL F E+F EGDLVDVSGTTIGKGFQGGIKRHNF+RG MTHGSKSHRQ
Sbjct: 126 RLQSIDGFEVTQKLDFGELFKEGDLVDVSGTTIGKGFQGGIKRHNFKRGQMTHGSKSHRQ 185

Query: 202 LGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLR 261
           LGSIGAGTTPGRVYKGKKMPGRMGGT RKIRKLKIVKID+ L ++MIKGA+PGKPGNLLR
Sbjct: 186 LGSIGAGTTPGRVYKGKKMPGRMGGTKRKIRKLKIVKIDDQLNIIMIKGALPGKPGNLLR 245

Query: 262 VAPAKIVGKNIPKN 275
           +APAKIVGKNIPK+
Sbjct: 246 IAPAKIVGKNIPKS 259

>3r8s_D 50S ribosomal protein L3; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_B 1p86_B 1vs8_D 1vs6_D 2aw4_D 2awb_D 2gya_B 2gyc_B 1vt2_D 2i2v_D 2j28_D 2i2t_D* 2qao_D* 2qba_D* 2qbc_D* 2qbe_D 2qbg_D 2qbi_D* 2qbk_D* 2qov_D ... Length = 209

 Score =  297 bits (762), Expect = e-103
 Identities = 97/207 (46%), Positives = 131/207 (63%), Gaps = 3/207 (1%)

Query: 60  IGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKL 119
           IG++G K+GM   F  DG  +PVTV+   E N VTQVK  A DGY A+Q+     +  ++
Sbjct: 2   IGLVGKKVGMTRIFTEDGVSIPVTVIEV-EANRVTQVKDLANDGYRAIQVTTGAKKANRV 60

Query: 120 TKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQ 179
           TKPE GH  K+G+   R L EFRL   + F  GQ ++ E +F +   VDV+GT+ GKGF 
Sbjct: 61  TKPEAGHFAKAGVEAGRGLWEFRLAEGEEFTVGQSISVE-LFADVKKVDVTGTSKGKGFA 119

Query: 180 GGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVK 238
           G +KR NFR    THG S SHR  GSIG   TPG+V+KGKKM G+MG     ++ L +V+
Sbjct: 120 GTVKRWNFRTQDATHGNSLSHRVPGSIGQNQTPGKVFKGKKMAGQMGNERVTVQSLDVVR 179

Query: 239 IDNDLRVVMIKGAVPGKPGNLLRVAPA 265
           +D +  ++++KGAVPG  G+ L V PA
Sbjct: 180 VDAERNLLLVKGAVPGATGSDLIVKPA 206

>3v2d_E 50S ribosomal protein L3; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_C 2hgj_E 2hgq_E 2hgu_E 1vsa_C 2j03_E 2jl6_E 2jl8_E 2v47_E 2v49_E 2wdi_E 2wdj_E 2wdl_E 2wdn_E 2wh2_E 2wh4_E 2wrj_E 2wrl_E 2wro_E 2wrr_E ... Length = 206

 Score =  282 bits (723), Expect = 7e-97
 Identities = 87/211 (41%), Positives = 119/211 (56%), Gaps = 8/211 (3%)

Query: 61  GVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLT 120
           G++G K+GM   F  D   VPVTV+       V Q +T   DGY AVQ+G+     K++ 
Sbjct: 3   GILGVKVGMTRIFR-DDRAVPVTVILA-GPCPVVQRRTPEKDGYTAVQLGFLPQNPKRVN 60

Query: 121 KPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQG 180
           +P  GH  K+G+ P+R L+E R  +      G  +  E IF  G+ VDV+GT+ G+GF G
Sbjct: 61  RPLKGHFAKAGVEPVRILREIRDFN----PEGDTVTVE-IFKPGERVDVTGTSKGRGFAG 115

Query: 181 GIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI 239
            +KR NF  G  +HG  K HR  GSIG   TPGRVYKGKKM G  G     +  L++V +
Sbjct: 116 VMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKGKKMAGHYGAERVTVMNLEVVDV 175

Query: 240 DNDLRVVMIKGAVPGKPGNLLRVAPAKIVGK 270
             +  ++++KGAVPG  G L+ V   K   K
Sbjct: 176 IPEENLLLVKGAVPGPNGGLVIVRETKKAAK 206

>2zjr_B 50S ribosomal protein L3; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.43.3.2 PDB: 1nwx_B* 1nwy_B* 1sm1_B* 1xbp_B* 2ogm_B* 2ogn_B* 2ogo_B* 2zjp_B* 2zjq_B 1nkw_B 3cf5_B* 3dll_B* 3pio_B* 3pip_B* 1pnu_B 1pny_B 1vor_E 1vou_E 1vow_E 1voy_E ... Length = 211

 Score =  280 bits (719), Expect = 4e-96
 Identities = 88/207 (42%), Positives = 125/207 (60%), Gaps = 8/207 (3%)

Query: 61  GVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLT 120
           G++GTK+GM   ++ +   +PVTVV       + Q KT  TDGY+AVQIGY    ++K+ 
Sbjct: 3   GILGTKIGMTQIWK-NDRAIPVTVVLA-GPCPIVQRKTAQTDGYEAVQIGYAPKAERKVN 60

Query: 121 KPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQG 180
           KP  GH  K+G+ P R L+EFR         G  +  + IF EG+ +D +GT+ GKG QG
Sbjct: 61  KPMQGHFAKAGVAPTRILREFRGF----APDGDSVNVD-IFAEGEKIDATGTSKGKGTQG 115

Query: 181 GIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI 239
            +KR NF  G  +HG  K HR+ GSIG   TPGRVYKGK+M G MG     ++ L++V+I
Sbjct: 116 VMKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKGKRMAGHMGMERVTVQNLEVVEI 175

Query: 240 DNDLRVVMIKGAVPGKPGNLLRVAPAK 266
                ++++KGA+PG  G L+ +  A 
Sbjct: 176 RAGENLILVKGAIPGANGGLVVLRSAA 202

>2ftc_C L3MT, MRP-L3, mitochondrial 39S ribosomal protein L3; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} Length = 211

 Score =  278 bits (713), Expect = 3e-95
 Identities = 64/211 (30%), Positives = 104/211 (49%), Gaps = 6/211 (2%)

Query: 60  IGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKL 119
           +G++  KLGMM  +  DG    VT++   +   V +  ++         +        + 
Sbjct: 2   VGLIALKLGMMPLWTKDGQKHVVTLLQV-QDCHVLKYTSKENCNGKMATLSVGGKTVSRF 60

Query: 120 TKPE--LGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKG 177
            K    L   ++ GL P + ++ F +      + G  L     F  G  VDV+  TIGKG
Sbjct: 61  RKATSILEFYRELGLPPKQTVKIFNITDNAAIKPGTPLYAA-HFRPGQYVDVTAKTIGKG 119

Query: 178 FQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKI 236
           FQG +KR  F+    THG +K+HR+ G++  G   GRV+ G KMPG+MG   R    LK+
Sbjct: 120 FQGVMKRWGFKGQPATHGQTKTHRRPGAVATGD-IGRVWPGTKMPGKMGNIYRTEYGLKV 178

Query: 237 VKIDNDLRVVMIKGAVPGKPGNLLRVAPAKI 267
            +I+    ++ + G+VPG    L++V  +K+
Sbjct: 179 WRINTKHNIIYVNGSVPGHKNCLVKVKDSKL 209

>1vq8_B 50S ribosomal protein L3P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.43.3.2 PDB: 1vq4_B* 1vq5_B* 1vq6_B* 1vq7_B* 1s72_B* 1vq9_B* 1vqk_B* 1vql_B* 1vqm_B* 1vqn_B* 1vqo_B* 1vqp_B* 1yhq_B* 1yi2_B* 1yij_B* 1yit_B* 1yj9_B* 1yjn_B* 1yjw_B* 2otj_B* ... Length = 338

 Score =  137 bits (346), Expect = 1e-38
 Identities = 52/277 (18%), Positives = 82/277 (29%), Gaps = 74/277 (26%)

Query: 61  GVMGTKLGMMSYFEPDG----------TVVPVTVVGFREGNIVTQVKTEATDGYDAVQ-- 108
           G  G K GM      +             VPVTV+          ++      Y      
Sbjct: 41  GFAGYKAGMTHVVLVNDEPNSPREGMEETVPVTVIET-PPMRAVALRAYEDTPYGQRPLT 99

Query: 109 --------------------------------------IGYRRVRDKKLTKPELGHLQKS 130
                                                 +G  R+    +        +K 
Sbjct: 100 EVWTDEFHSELDRTLDVPEDHDPDAAEEQIRDAHEAGDLGDLRLITHTVPDAVPSVPKKK 159

Query: 131 GLIPMRHLQEFRLQSI-----DGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRH 185
             +    +    +        D  E G + A  +IF  G+  DV+G T GKG QG +KR 
Sbjct: 160 PDVMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRW 219

Query: 186 NFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLR 244
             ++    H      R++G++G    P RV       G+ G   R     +++ I     
Sbjct: 220 GVQKRKGKHARQGWRRRIGNLGP-WNPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEGDE 278

Query: 245 V----------------VMIKGAVPGKPGNLLRVAPA 265
                             ++KG+VPG    L+R  PA
Sbjct: 279 PTVDGGFVNYGEVDGPYTLVKGSVPGPDKRLVRFRPA 315

>4a17_B RPL3, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_B 4a1c_B 4a1e_B Length = 391

 Score =  108 bits (271), Expect = 2e-27
 Identities = 36/213 (16%), Positives = 69/213 (32%), Gaps = 35/213 (16%)

Query: 89  EGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDG 148
           +      +          V++       K   + +  H+ +  +   +  ++        
Sbjct: 138 DQKAQDLLLKRIEKYCSVVRVIAHTNMSKLNLRQKKNHILEIQVNGGKVAEKVA--FAKS 195

Query: 149 FEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAG 208
               +    + IF E +++DV G T GKGF G IKR   +        + +R++G IGA 
Sbjct: 196 LLEKEVK-VDSIFAENEMLDVLGVTKGKGFAGVIKRFGVKHLQKKT-HRGYRKVGCIGAW 253

Query: 209 TTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRV----------------------- 245
             P R+       G++G   R     K+ ++                             
Sbjct: 254 -HPSRIRFTVPRAGQLGYHHRTETNKKVYRVGKGDDASNASTAGDVTDKAITPLGGFPHY 312

Query: 246 -------VMIKGAVPGKPGNLLRVAPAKIVGKN 271
                  +MIKG   G    +L +  + I   +
Sbjct: 313 GVVKNDFIMIKGCCVGPKKRVLTLRKSIIPQTH 345

>3u5e_B 60S ribosomal protein L3; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3o5h_C 3o58_C 3u5i_B 3izc_C 3izs_C 1s1i_C 3jyw_C Length = 387

 Score =  104 bits (261), Expect = 3e-26
 Identities = 31/183 (16%), Positives = 59/183 (32%), Gaps = 38/183 (20%)

Query: 113 RVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGT 172
           R       K  L  +Q +G      +   R          + +A + +F + +++D    
Sbjct: 167 RKTPLAQKKAHLAEIQLNGGSISEKVDWAR------EHFEKTVAVDSVFEQNEMIDAIAV 220

Query: 173 TIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIR 232
           T G GF+G   R   ++       +  R++  IGA   P  V       G+ G  +R   
Sbjct: 221 TKGHGFEGVTHRWGTKKLPRKT-HRGLRKVACIGAW-HPAHVMWSVARAGQRGYHSRTSI 278

Query: 233 KLKIVKIDNDLR------------------------------VVMIKGAVPGKPGNLLRV 262
             KI ++                                    +M+KG +PG    ++ +
Sbjct: 279 NHKIYRVGKGDDEANGATSFDRTKKTITPMGGFVHYGEIKNDFIMVKGCIPGNRKRIVTL 338

Query: 263 APA 265
             +
Sbjct: 339 RKS 341

>2zkr_b 60S ribosomal protein L3; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 403

 Score =  100 bits (249), Expect = 2e-24
 Identities = 38/197 (19%), Positives = 65/197 (32%), Gaps = 48/197 (24%)

Query: 106 AVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGD 165
             Q+    +R KK    E+     +    +   +E   Q +            ++F + +
Sbjct: 165 HTQMRLLPLRQKKAHLMEVQVNGGTVAEKLDWARERLEQQVP---------VSQVFGQDE 215

Query: 166 LVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMG 225
           ++DV G T GKG++G   R + ++       +  R++  IGA   P RV       G+ G
Sbjct: 216 MIDVIGVTKGKGYKGVTSRWHTKKLPRKT-HRGLRKVACIGAWH-PARVAFSVARAGQKG 273

Query: 226 GTTRKIRKLKIVKIDNDLRV-------------------------------------VMI 248
              R     KI KI     +                                     VM+
Sbjct: 274 YHHRTEINKKIYKIGQGYLIKDGKLIKNNASTDYDLSDKSINPLGGFVHYGEVTNDFVML 333

Query: 249 KGAVPGKPGNLLRVAPA 265
           KG V G    +L +  +
Sbjct: 334 KGCVVGTKKRVLTLRKS 350

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	275
3r8s_D	209	50S ribosomal protein L3; protein biosynthesis, RN	100.0
2ftc_C	211	L3MT, MRP-L3, mitochondrial 39S ribosomal protein	100.0
3v2d_E	206	50S ribosomal protein L3; ribosome associated inhi	100.0
3bbo_F	259	Ribosomal protein L3; large ribosomal subunit, spi	100.0
2zjr_B	211	50S ribosomal protein L3; ribosome, large ribosoma	100.0
1vq8_B	338	50S ribosomal protein L3P; ribosome 50S, protein-p	100.0
2zkr_b	403	60S ribosomal protein L3; protein-RNA complex, 60S	100.0
3j21_C	365	50S ribosomal protein L3P; archaea, archaeal, KINK	100.0
3u5e_B	387	60S ribosomal protein L3; translation, ribosome, r	100.0
3iz5_C	389	60S ribosomal protein L3 (L3P); eukaryotic ribosom	100.0
4a17_B	391	RPL3, ribosomal protein L3; eukaryotic ribosome, r	100.0

>3r8s_D 50S ribosomal protein L3; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_B 1p86_B 1vs8_D 1vs6_D 2aw4_D 2awb_D 2gya_B 2gyc_B 1vt2_D 2i2v_D 2j28_D 2i2t_D* 2qao_D* 2qba_D* 2qbc_D* 2qbe_D 2qbg_D 2qbi_D* 2qbk_D* 2qov_D ...

Probab=100.00  E-value=1.7e-90  Score=616.66  Aligned_cols=207  Identities=46%  Similarity=0.761  Sum_probs=202.6

Q ss_pred             eeeeeEEEeeeeeEECCCCcEEEEEEEEeCCCeEEEEeeccCCCCeeEEEEeeeeeccccCChhhcchhhhcCCCCCceE
Q 023905           59 GIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHL  138 (275)
Q Consensus        59 r~Glig~KiGMt~if~~~G~~vpvTVl~~~~~~vV~~vkt~e~dGY~AvqvG~g~~~~k~~~Kp~~G~f~kagv~pkr~l  138 (275)
                      ++||||+|+||||+|||||+++||||||++ +|+|+|+||.|+|||+||||||++++++++|||++|||+|||++|+|+|
T Consensus         1 m~Glig~KiGMt~if~~~G~~ipvTVl~~~-~~~V~q~kt~e~dGY~Avqvg~g~~~~~~~~Kp~~Ghf~kagv~pkr~l   79 (209)
T 3r8s_D            1 MIGLVGKKVGMTRIFTEDGVSIPVTVIEVE-ANRVTQVKDLANDGYRAIQVTTGAKKANRVTKPEAGHFAKAGVEAGRGL   79 (209)
T ss_dssp             CCCEEEEEEEEEEEECTTCCEEEEEEEECC-CEEEEEEECHHHHSSCEEEEEESCCCGGGSCHHHHHHHHHHTCCCCSEE
T ss_pred             CcEEEEEEeceeEEECCCCcEEEEEEEEec-CCEEEEEEccCCCCeEEEEEEEeecCcccCCHHHhhHHHHcCCCCCeEE
Confidence            369999999999999999999999999996 6999999999999999999999999999999999999999999999999


Q ss_pred             EEEEecCCCCcCCCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCCCCCC-CCCCCCCCCCCCCCCCCcccCC
Q 023905          139 QEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKG  217 (275)
Q Consensus       139 ~Efrv~~~~~~~~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHG-Sk~HR~~GSiG~~~~PgRV~kG  217 (275)
                      +|||++++++|++|++|++ |+|++||+|||+|+|||||||||||||||+++|+||| |++||++||||++|+|+|||||
T Consensus        80 ~Efrv~~~~~~~~G~~i~v-~~F~~G~~VDV~g~sKGKGFqGv~KR~gf~~~p~sHG~s~~hR~~GsiG~~~~P~rV~kg  158 (209)
T 3r8s_D           80 WEFRLAEGEEFTVGQSISV-ELFADVKKVDVTGTSKGKGFAGTVKRWNFRTQDATHGNSLSHRVPGSIGQNQTPGKVFKG  158 (209)
T ss_dssp             EEEECCTTCCCCTTCEECG-GGGGSCCEEEEEEECCCCCEECHHHHHCCCCCCSSTTCCSCSSSCCCCCCBTTBCSCCTT
T ss_pred             EEEecCCcccCCCCCEEEe-eeEcCCCEEEEEEEEeccccceeeeEcCCCCCCcccCCCCCCCCCeeCCCCCCCCcCcCC
Confidence            9999988888999999998 8999999999999999999999999999999999999 8999999999999999999999


Q ss_pred             CCCCCCCCCeeEEEEceEEEEEeCCCCEEEEeccCCCCCCCeEEEEecee
Q 023905          218 KKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKI  267 (275)
Q Consensus       218 kkMaG~mG~~~~Tv~Nl~V~kId~e~nli~VKGsVPG~k~~~V~I~~a~~  267 (275)
                      +|||||||++++|++||+|++||.|+|||||||||||+++++|+|++|++
T Consensus       159 kkmaG~mG~~~~T~~Nl~I~kid~e~nlilvKGsVPG~k~~~v~ir~avk  208 (209)
T 3r8s_D          159 KKMAGQMGNERVTVQSLDVVRVDAERNLLLVKGAVPGATGSDLIVKPAVK  208 (209)
T ss_dssp             CCCSEECSSSEEEEEEEEEEEEEGGGTEEEEESCCSSCTTCEEEEEECSC
T ss_pred             CccCCCCCCccEEEecCEEEEEcCCCCEEEEEecCcCCCCCEEEEEeccc
Confidence            99999999999999999999999999999999999999999999999976

>2ftc_C L3MT, MRP-L3, mitochondrial 39S ribosomal protein L3; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus}

Probab=100.00  E-value=1.9e-89  Score=611.12  Aligned_cols=206  Identities=32%  Similarity=0.567  Sum_probs=201.5

Q ss_pred             eeeeeEEEeeeeeEECCCCcEEEEEEEEeCCCeEEEEeeccC--CCCeeEEEEeeeeeccccCChhhcchhhhcCCCCCc
Q 023905           59 GIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEA--TDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMR  136 (275)
Q Consensus        59 r~Glig~KiGMt~if~~~G~~vpvTVl~~~~~~vV~~vkt~e--~dGY~AvqvG~g~~~~k~~~Kp~~G~f~kagv~pkr  136 (275)
                      |+||||+|+||||+|||||+++||||||++ +|+|+|+||.|  +|||+||||||+++++++++||++|||+|||++|++
T Consensus         1 R~Gllg~KiGMt~if~~~G~~ipvTVl~~~-~~~V~q~kt~e~~~dGY~Avqvg~~~~~~~~~~kp~~Ghf~kagv~pkr   79 (211)
T 2ftc_C            1 RVGLIALKLGMMPLWTKDGQKHVVTLLQVQ-DCHVLKYTSKENCNGKMATLSVGGKTVSRFRKATSILEFYRELGLPPKQ   79 (211)
T ss_pred             CceEEEEEcceEEEECCCCcEEEEEEEEEc-CCEEEEEEccccCCCCEEEEEEeeeecccccCChhHhhhHHHcCCCccc
Confidence            689999999999999999999999999996 69999999999  799999999999999999999999999999999999


Q ss_pred             eEEEEEecCCCCcCCCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCCCCCC-CCCCCCCCCCCCCCCCCccc
Q 023905          137 HLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVY  215 (275)
Q Consensus       137 ~l~Efrv~~~~~~~~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHG-Sk~HR~~GSiG~~~~PgRV~  215 (275)
                      +|+|||+++++.+++|++|++ |+|++||+|||+|+|||||||||||||||+++|+||| |++||++||||++ +|+|||
T Consensus        80 ~l~Efrv~~~~~~~~G~~l~v-~~F~~Gq~VDV~g~sKGKGFqGv~KR~gf~~~p~sHG~s~~hR~~GSiG~~-~PgRV~  157 (211)
T 2ftc_C           80 TVKIFNITDNAAIKPGTPLYA-AHFRPGQYVDVTAKTIGKGFQGVMKRWGFKGQPATHGQTKTHRRPGAVATG-DIGRVW  157 (211)
T ss_pred             EEEEEEeCCCCccccCCEEEh-HhccCCceEEEEEEEcCCcceeceeecCCCCCCcccCCCCCCCCCcccCCC-CCCeec
Confidence            999999988888999999998 7999999999999999999999999999999999999 9999999999998 999999


Q ss_pred             CCCCCCCCCCCeeEEEEceEEEEEeCCCCEEEEeccCCCCCCCeEEEEecee
Q 023905          216 KGKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKI  267 (275)
Q Consensus       216 kGkkMaG~mG~~~~Tv~Nl~V~kId~e~nli~VKGsVPG~k~~~V~I~~a~~  267 (275)
                      ||+|||||||++++|++||+|++||+|+|||||||||||+++++|.|++|++
T Consensus       158 kgkkmaG~mG~~~~T~~Nl~I~~id~e~nlilvKGsVPG~k~~~v~ir~a~~  209 (211)
T 2ftc_C          158 PGTKMPGKMGNIYRTEYGLKVWRINTKHNIIYVNGSVPGHKNCLVKVKDSKL  209 (211)
T ss_pred             CCcccCCCCCCeeEEEeccEEEEECCCCCEEEEEecCcCCCCCEEEEEeccc
Confidence            9999999999999999999999999999999999999999999999999976

>3v2d_E 50S ribosomal protein L3; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_C 2hgj_E 2hgq_E 2hgu_E 1vsa_C 2j03_E 2jl6_E 2jl8_E 2v47_E 2v49_E 2wdi_E 2wdj_E 2wdl_E 2wdn_E 2wh2_E 2wh4_E 2wrj_E 2wrl_E 2wro_E 2wrr_E ...

Probab=100.00  E-value=1.4e-88  Score=603.20  Aligned_cols=203  Identities=42%  Similarity=0.704  Sum_probs=197.7

Q ss_pred             eeeeEEEeeeeeEECCCCcEEEEEEEEeCCCeEEEEeeccCCCCeeEEEEeeeeeccccCChhhcchhhhcCCCCCceEE
Q 023905           60 IGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQ  139 (275)
Q Consensus        60 ~Glig~KiGMt~if~~~G~~vpvTVl~~~~~~vV~~vkt~e~dGY~AvqvG~g~~~~k~~~Kp~~G~f~kagv~pkr~l~  139 (275)
                      .||||+|+||||+||| |+++||||||++ +|+|+|+||.|+|||+||||||++++++++|||++|||+|||++|+|+|+
T Consensus         2 ~Gllg~KiGMt~if~~-G~~ipvTVi~~~-~~~V~q~kt~e~dGY~Avqvg~~~~~~~~~~kp~~Ghf~kagv~pkr~l~   79 (206)
T 3v2d_E            2 KGILGVKVGMTRIFRD-DRAVPVTVILAG-PCPVVQRRTPEKDGYTAVQLGFLPQNPKRVNRPLKGHFAKAGVEPVRILR   79 (206)
T ss_dssp             CEEEEEEEEEEEEESS-SCEEEEEEEECC-CEEEEEEECHHHHSSCEEEEEEEECCGGGCCHHHHHHHHTTCCCCEEEEE
T ss_pred             ceEEEEEccceeEEcC-CCEEEEEEEEec-CCEEEEEEccCcCCeEEEEEEeccCCccCCCHHHhhhHHHcCCCcCeEEE
Confidence            6999999999999999 999999999996 69999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCCCcCCCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCCCCCC-CCCCCCCCCCCCCCCCCcccCCC
Q 023905          140 EFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGK  218 (275)
Q Consensus       140 Efrv~~~~~~~~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHG-Sk~HR~~GSiG~~~~PgRV~kGk  218 (275)
                      |||+++    ++|++|++ |+|++||+|||+|+|||||||||||||||+++|+||| |++||++||||++|+|+|||||+
T Consensus        80 Efrv~~----~~G~~i~v-~~F~~G~~VDV~g~sKGKGFqGv~KR~gf~~~p~tHG~s~~hR~~GsiG~~~~P~rV~kgk  154 (206)
T 3v2d_E           80 EIRDFN----PEGDTVTV-EIFKPGERVDVTGTSKGRGFAGVMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKGK  154 (206)
T ss_dssp             EEETCC----CSSSEECG-GGCCTTCEEEEEEECCCCCEECHHHHSCCCCCCSSTTCCSCTTCCCCCCCBTTBCSCCTTC
T ss_pred             EEECCC----CCCCEEEe-eeecCCCEEEEEEEEeccccceeeeEcccCCCCcccCCCCCCCCCeeCCCCCCCCcCcCCC
Confidence            999864    89999998 8999999999999999999999999999999999999 99999999999999999999999


Q ss_pred             CCCCCCCCeeEEEEceEEEEEeCCCCEEEEeccCCCCCCCeEEEEeceecC
Q 023905          219 KMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVG  269 (275)
Q Consensus       219 kMaG~mG~~~~Tv~Nl~V~kId~e~nli~VKGsVPG~k~~~V~I~~a~~~~  269 (275)
                      +||||||++++|++||+|++||.|+|||||||||||+++++|+|++|++..
T Consensus       155 kmaG~mG~~~~T~~Nl~I~kid~e~nlilvKGsVPG~k~~~v~ir~a~k~~  205 (206)
T 3v2d_E          155 KMAGHYGAERVTVMNLEVVDVIPEENLLLVKGAVPGPNGGLVIVRETKKAA  205 (206)
T ss_dssp             CCCEECSSSEEEEEEEEEEEEETTTTEEEEESCCSSCTTCEEEEEECCCC-
T ss_pred             ccCCCCCCccEEEeccEEEEEcCCCCEEEEEecCcCCCCCEEEEeeccccC
Confidence            999999999999999999999999999999999999999999999998754

>3bbo_F Ribosomal protein L3; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=100.00  E-value=2.8e-89  Score=625.61  Aligned_cols=223  Identities=84%  Similarity=1.325  Sum_probs=150.6

Q ss_pred             ccccccceeeeeEEEeeeeeEECCCCcEEEEEEEEeCCCeEE-EEeeccCCCCeeEEEEeeeeeccccCChhhcchhhhc
Q 023905           52 VSMSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIV-TQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKS  130 (275)
Q Consensus        52 ~~~~~~~r~Glig~KiGMt~if~~~G~~vpvTVl~~~~~~vV-~~vkt~e~dGY~AvqvG~g~~~~k~~~Kp~~G~f~ka  130 (275)
                      +|||+++|+|+||+|+||||+||+||.++||||||+++ |+| +|++|.|.|||+|+|+||++.++++++||++|||+|+
T Consensus        36 ~~~~~~~~~G~lG~K~GMT~if~e~G~~vPVTVle~~p-~~Vv~q~kt~e~dGy~Avqvg~~~~k~k~~tKp~~Ghf~ka  114 (259)
T 3bbo_F           36 ISASLEAGVGVMATKLGMMSFFEESGTVVPVTVVGFRE-GNIVTQIKTEATDGYNAVQVGYRRVRDRKLTKPEMGHLEKS  114 (259)
T ss_dssp             ----------------------------------------------------------------CCSSCCHHHHTTCSSC
T ss_pred             ccccccceeEEEEEecCcEEEEccCCeEEEEEEEEECC-CEEEEEEeecCCCCcEEEEEEEeeechhhCChhhhhhHHHc
Confidence            68999999999999999999999999999999999975 666 8999999999999999999999999999999999999


Q ss_pred             CCCCCceEEEEEecCCCCcCCCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCCCCCCCCCCCCCCCCCCCCC
Q 023905          131 GLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTT  210 (275)
Q Consensus       131 gv~pkr~l~Efrv~~~~~~~~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHGSk~HR~~GSiG~~~~  210 (275)
                      +++|+++|+|||+++.++|++|++|+++++|++||+|||+|+|||||||||||||||+++|+||||++||++||||++++
T Consensus       115 gv~~kr~l~Efrv~~~~~~~~G~~i~v~~vF~~Gq~VDV~G~TKGKGFqGv~KRwgf~g~p~sHGsk~hR~~GSiG~~~~  194 (259)
T 3bbo_F          115 GIIPLRHLQEFRLQSIDGFEVTQKLDFGELFKEGDLVDVSGTTIGKGFQGGIKRHNFKRGQMTHGSKSHRQLGSIGAGTT  194 (259)
T ss_dssp             CCCCSSCCCCCCSCCCCTTTTCCCCSSCSSSCSSSCCCCCCBCCCCSSCCSSSSSCCCCCCSSSCSSTTTSCCCCSCSSC
T ss_pred             CCCCCcEEEEEecCChhhcccccEeehhheecCCCEEEEEEEecCCcceeeeeecCcCCCCCcCCCCCCCCCcccCCCCC
Confidence            99999999999998777899999999954599999999999999999999999999999999999999999999999999


Q ss_pred             CCcccCCCCCCCCCCCeeEEEEceEEEEEeCCCCEEEEeccCCCCCCCeEEEEeceecCCCCCCC
Q 023905          211 PGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNIPKN  275 (275)
Q Consensus       211 PgRV~kGkkMaG~mG~~~~Tv~Nl~V~kId~e~nli~VKGsVPG~k~~~V~I~~a~~~~~~~p~~  275 (275)
                      |+|||||+|||||||++++|++||+|++||+|+|||||||||||+++++|+|++|++.++++|||
T Consensus       195 PgRV~kGkkMaGqmG~~~~T~~Nl~IvrId~e~nlilVKGsVPG~k~~~V~ir~avk~~~~~~~~  259 (259)
T 3bbo_F          195 PGRVYKGKKMPGRMGGTKRKIRKLKIVKIDDQLNIIMIKGALPGKPGNLLRIAPAKIVGKNIPKS  259 (259)
T ss_dssp             CTTTTTTSCCCCCCCCCBCCCCCCCEEEEETTTTEEEECSCCSSCSSSCCCCCCCCCC-------
T ss_pred             CCcCcCCCccCCCCCCceEEEeccEEEEECCCCCEEEEEecCcCCCCCEEEEEeccccCCCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999997

>2zjr_B 50S ribosomal protein L3; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.43.3.2 PDB: 1nwx_B* 1nwy_B* 1sm1_B* 1xbp_B* 2ogm_B* 2ogn_B* 2ogo_B* 2zjp_B* 2zjq_B 1nkw_B 3cf5_B* 3dll_B* 3pio_B* 3pip_B* 1pnu_B 1pny_B 1vor_E 1vou_E 1vow_E 1voy_E ...

Probab=100.00  E-value=3.7e-84  Score=577.49  Aligned_cols=202  Identities=44%  Similarity=0.740  Sum_probs=196.9

Q ss_pred             eeeeEEEeeeeeEECCCCcEEEEEEEEeCCCeEEEEeeccCCCCeeEEEEeeeeeccccCChhhcchhhhcCCCCCceEE
Q 023905           60 IGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQ  139 (275)
Q Consensus        60 ~Glig~KiGMt~if~~~G~~vpvTVl~~~~~~vV~~vkt~e~dGY~AvqvG~g~~~~k~~~Kp~~G~f~kagv~pkr~l~  139 (275)
                      +|+||+|+||||+||| |.++||||||++ ||+|+|++|.|+|||+|+||||++.+++++|||++|||+|++++|+++|+
T Consensus         2 ~g~lg~K~GMT~i~~~-g~~~pVTVie~~-p~~V~~~kt~~~dgy~avqvg~~~~~~~~~tkp~~g~~~kagv~~k~~l~   79 (211)
T 2zjr_B            2 KGILGTKIGMTQIWKN-DRAIPVTVVLAG-PCPIVQRKTAQTDGYEAVQIGYAPKAERKVNKPMQGHFAKAGVAPTRILR   79 (211)
T ss_dssp             CEEEEEEEEEEEEEET-TEEEEEEEEECC-CEEEEEEECTTTTSSCEEEEECSCCCGGGCCHHHHHHHHTTTCCCCSCEE
T ss_pred             eeEeEEecCcEeEEeC-CCEEEEEEEEeC-CcEEEEEeceecCCCcEEEEEEEEecccccChhhhhhHHHcCCCCCcEEE
Confidence            5999999999999999 999999999996 69999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCCCcCCCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCCCCCC-CCCCCCCCCCCCCCCCCcccCCC
Q 023905          140 EFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGK  218 (275)
Q Consensus       140 Efrv~~~~~~~~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHG-Sk~HR~~GSiG~~~~PgRV~kGk  218 (275)
                      |||+++    ++|++|++ |+|++||+|||+|+|||||||||||||||+++|+||| |++||++||||++|+|+|||||+
T Consensus        80 Efrv~~----~~G~~i~v-~~F~~G~~VDV~g~tKGKGFqGv~KR~gf~~~p~sHG~s~~hR~~GsiG~~~~PgRV~kgk  154 (211)
T 2zjr_B           80 EFRGFA----PDGDSVNV-DIFAEGEKIDATGTSKGKGTQGVMKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKGK  154 (211)
T ss_dssp             EETTCC----CSSEECST-TTSCTTCEEEEEEECCEEEEECHHHHHCCCCCCSSSSCSSCSCSCCCCCCSSTTCSCCTTC
T ss_pred             EEEcCC----cCCCEeEh-hhhcCCCceEEEEEEcCCcceeceeecCCCCCCcccCCCCCCCCCcccCCCCCCCcCcCCC
Confidence            999854    89999998 8999999999999999999999999999999999999 99999999999999999999999


Q ss_pred             CCCCCCCCeeEEEEceEEEEEeCCCCEEEEeccCCCCCCCeEEEEeceec
Q 023905          219 KMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIV  268 (275)
Q Consensus       219 kMaG~mG~~~~Tv~Nl~V~kId~e~nli~VKGsVPG~k~~~V~I~~a~~~  268 (275)
                      |||||||++++|++||+|++||+|+|||||||||||+++++|+|++|++.
T Consensus       155 kmaG~mG~~~~T~~Nl~I~~id~e~nlilvKGsVPG~~~~~v~ir~a~k~  204 (211)
T 2zjr_B          155 RMAGHMGMERVTVQNLEVVEIRAGENLILVKGAIPGANGGLVVLRSAAKA  204 (211)
T ss_dssp             CCCEEEECCEEEEEEEEEEEEETTTTEEEEESCCSSCTTCEEEEEBCSSC
T ss_pred             ccCCCCCCccEeEeccEEEEEcCCCCEEEEEecCcCCCCcEEEEEecccc
Confidence            99999999999999999999999999999999999999999999999873

>1vq8_B 50S ribosomal protein L3P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.43.3.2 PDB: 1vq4_B* 1vq5_B* 1vq6_B* 1vq7_B* 1s72_B* 1vq9_B* 1vqk_B* 1vql_B* 1vqm_B* 1vqn_B* 1vqo_B* 1vqp_B* 1yhq_B* 1yi2_B* 1yij_B* 1yit_B* 1yj9_B* 1yjn_B* 1yjw_B* 2otj_B* ...

Probab=100.00  E-value=5.5e-73  Score=534.58  Aligned_cols=211  Identities=26%  Similarity=0.359  Sum_probs=194.9

Q ss_pred             ccceeeeeEEEeeeeeEECCCCc----------EEEEEEEEeCCCeEEEEeeccCCCCeeEEEEeee-------eecccc
Q 023905           56 YEAGIGVMGTKLGMMSYFEPDGT----------VVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYR-------RVRDKK  118 (275)
Q Consensus        56 ~~~r~Glig~KiGMt~if~~~G~----------~vpvTVl~~~~~~vV~~vkt~e~dGY~AvqvG~g-------~~~~k~  118 (275)
                      -+.++|+||+|+||||||+++|+          ++||||||++ ||+|+|++|.|+|||. +|+|++       +..+++
T Consensus        36 ~~~l~g~lG~K~GMT~i~~~~g~~~s~~~gke~~vpVTVie~~-p~~V~~vk~~~~dgy~-lq~~~~v~a~~~~~~~~r~  113 (338)
T 1vq8_B           36 QPGVQGFAGYKAGMTHVVLVNDEPNSPREGMEETVPVTVIETP-PMRAVALRAYEDTPYG-QRPLTEVWTDEFHSELDRT  113 (338)
T ss_dssp             SCEECCEEEEEEEEEEEEEECCCTTCTTTTSEEEEEEEEEECC-CEEEEEEEEEEEETTE-EEEEEEEECSCCCTTGGGT
T ss_pred             CceEEEEEEEecCCEEEEeECCccCCccCCceeEEEEEEEEeC-CcEEEEEEeeeccCce-eEeeeeEeccccchhhccc
Confidence            45788999999999999999997          9999999996 6999999999999999 999998       445688


Q ss_pred             CChhhc-------chhh--------------------h-cCCCC-CceEEEEEecCCC-----Cc-----CCCcEEeccc
Q 023905          119 LTKPEL-------GHLQ--------------------K-SGLIP-MRHLQEFRLQSID-----GF-----EAGQKLAFEE  159 (275)
Q Consensus       119 ~~Kp~~-------G~f~--------------------k-agv~p-kr~l~Efrv~~~~-----~~-----~~G~~l~~~~  159 (275)
                      ++||+.       |||+                    + +|+++ +++|+||||++.+     +|     ++|++|+++|
T Consensus       114 ~~kp~~~~~~~~~~~~~~~~~~~~~~~ir~i~~tqp~k~agv~~kk~~l~E~rv~~~~~~~k~~~a~~~l~~G~~i~v~~  193 (338)
T 1vq8_B          114 LDVPEDHDPDAAEEQIRDAHEAGDLGDLRLITHTVPDAVPSVPKKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMND  193 (338)
T ss_dssp             SCCCSSCCHHHHHHHHHHHHHHTCEEEEEEEEECCGGGCTTSCCCSCCEEEEEEECSCHHHHHHHHHHHHHHTCEECSTT
T ss_pred             ccccccccchhhHHHHHhhhcccceeEEEEEEEeccccccCCCccCCEEEEEEecCcchhhhhhhhhhccCCCcEEchhh
Confidence            899987       7886                    7 79996 8999999997644     23     3499999988


Q ss_pred             cccCCCEEEEEEEeeccceeeeeeeeccCCCCCCCC-CCCCCCCCCCCCCCCCCcccCCCCCCCCCCCeeEEEEceEEEE
Q 023905          160 IFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVK  238 (275)
Q Consensus       160 ~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHG-Sk~HR~~GSiG~~~~PgRV~kGkkMaG~mG~~~~Tv~Nl~V~k  238 (275)
                      +|++||+|||+|+|||||||||||||||+++|+||| |+.||++|||| +|+|+|||+|++||||||++++|++||+|++
T Consensus       194 vF~~Gq~VDV~gvTKGKGFqGv~KRwgf~~~p~sHG~sk~hR~~GsiG-~~~P~RV~~g~kmaGqmG~~~rT~~Nl~I~k  272 (338)
T 1vq8_B          194 IFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRIGNLG-PWNPSRVRSTVPQQGQTGYHQRTELNKRLID  272 (338)
T ss_dssp             TCCTTCEEEEEEECCCCCEECHHHHHCCCCCCGGGGSSSCSSCCSCSC-CSSSSSCCTTSCCCEECSCCEEEEEEEEEEE
T ss_pred             cccCCCceeeEEEEeCCCceeeeeecCCCCCCcccCCCccCCCCcccC-CCCCCeeccCCcCCCCcCCceEEEeccEEEE
Confidence            999999999999999999999999999999999999 99999999999 4999999999999999999999999999999


Q ss_pred             EeCC----------------CCEEEEeccCCCCCCCeEEEEeceecC
Q 023905          239 IDND----------------LRVVMIKGAVPGKPGNLLRVAPAKIVG  269 (275)
Q Consensus       239 Id~e----------------~nli~VKGsVPG~k~~~V~I~~a~~~~  269 (275)
                      ||+|                +|||||||||||+++++|+|++|++..
T Consensus       273 Id~e~~i~p~GGf~~YG~v~~~~ilvKGsVPG~k~~~V~ir~avk~~  319 (338)
T 1vq8_B          273 IGEGDEPTVDGGFVNYGEVDGPYTLVKGSVPGPDKRLVRFRPAVRPN  319 (338)
T ss_dssp             EEEESSSCCTTCBTTTBCCCEEEEEEESCCSSCTTCEEEEEECSSCS
T ss_pred             cCCCCccccCCCccccccccCCEEEEEccCcCCCCcEEEEeehhccc
Confidence            9998                999999999999999999999998753

>2zkr_b 60S ribosomal protein L3; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=100.00  E-value=2.6e-62  Score=468.99  Aligned_cols=203  Identities=26%  Similarity=0.356  Sum_probs=182.0

Q ss_pred             cceeeeeEEEeeeeeEECCC----------CcEEEEEEEEeCCCeEEEEeeccCCCCeeEEEEeeee---eccccCC---
Q 023905           57 EAGIGVMGTKLGMMSYFEPD----------GTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRR---VRDKKLT---  120 (275)
Q Consensus        57 ~~r~Glig~KiGMt~if~~~----------G~~vpvTVl~~~~~~vV~~vkt~e~dGY~AvqvG~g~---~~~k~~~---  120 (275)
                      +.++|+||+|+|||+||+++          +.++||||||++ ||+|++++     ||.++|.|++.   +-..+++   
T Consensus        41 ~~ltgflGyKaGMThi~~~~drpgS~~~~kev~~pVTVlEtp-P~~Vvgvr-----GY~~~~~Gl~~~~~vwa~~ls~e~  114 (403)
T 2zkr_b           41 VHLTAFLGYKAGMTHIVREVDRPGSKVNKKEVVEAVTIVETP-PMVIVGIV-----GYVETPRGLRTFKTIFAEHISDEC  114 (403)
T ss_dssp             BGGGSCEEEEEEEEEEEEECCCTTSTTCSCEEEEEEEEEECC-CBEEEEEE-----EEEEETTEEEEEEEEECSCCCGGG
T ss_pred             ceeeEEEEEccCCeEEEeeccCCCCccCCCceEEEEEEEEcC-CCEEEEEE-----eEEEecCCcccceEEeeccCChHH
Confidence            47899999999999999998          999999999996 68888886     99999999873   3222233   


Q ss_pred             -------------hhhcchhhh----------------------------------cCCC-CCceEEEEEecCCC-----
Q 023905          121 -------------KPELGHLQK----------------------------------SGLI-PMRHLQEFRLQSID-----  147 (275)
Q Consensus       121 -------------Kp~~G~f~k----------------------------------agv~-pkr~l~Efrv~~~~-----  147 (275)
                                   |+..+||++                                  ++++ ++++|+||+|++.+     
T Consensus       115 ~Rr~~kn~~~~~kk~~~~~~kk~~~~~~~~~i~~~l~~~~k~~~~iRvi~hTq~~~~~l~qkk~~l~E~~v~g~~~~~k~  194 (403)
T 2zkr_b          115 KRRFYKNWHKSKKKAFTKYCKKWQDADGKKQLERDFSSMKKYCQVIRVIAHTQMRLLPLRQKKAHLMEVQVNGGTVAEKL  194 (403)
T ss_dssp             GCCCCCCSSCCSCCCCCCCCCCCCCHHHHHHHHHHHHHHSCCCSSCEEEEECCGGGSSCSCCCCCCEEEEBCSSSHHHHH
T ss_pred             hhhhhcccccchhhhhhhcccccccchhhhhHHHHHHHhhccceEEEEEEEecccccccccCCCEEEEEEecCcchhhhh
Confidence                         666777765                                  5787 99999999998655     


Q ss_pred             Cc---CCCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCCC-CCCCCCCCCCCCCCCCCCCCcccCCCCCCCC
Q 023905          148 GF---EAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAM-THGSKSHRQLGSIGAGTTPGRVYKGKKMPGR  223 (275)
Q Consensus       148 ~~---~~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pa-sHGSk~HR~~GSiG~~~~PgRV~kGkkMaG~  223 (275)
                      +|   .+|++|+++++|++||+|||+|+|||||||||||||||+++|+ ||  +.||++|||| +|+|+|||+|++||||
T Consensus       195 ~~A~~~lg~~i~v~~vF~~ge~VDV~gvTKGKGfqGvvkRwg~~~~p~ktH--~~hR~~GsiG-~~~P~RV~~g~~maGq  271 (403)
T 2zkr_b          195 DWARERLEQQVPVSQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTH--RGLRKVACIG-AWHPARVAFSVARAGQ  271 (403)
T ss_dssp             HHHHHHHHSCBCSTTTCCSSCCCCEEEECCEEEEECHHHHHCCCCCCSSTT--TTTTCCSCSS-CSSSCSCCTTSCCCEE
T ss_pred             hhhhccCCcEEchhhhccCCceEEEEEeecCCcceeceeecCcCCCCcccc--cccCCCcccC-CCCCCeECCCCcCCCC
Confidence            46   8999999988999999999999999999999999999999997 99  5799999999 6999999999999999


Q ss_pred             CCCeeEEEEceEEEEEeCC-------------------------------------CCEEEEeccCCCCCCCeEEEEece
Q 023905          224 MGGTTRKIRKLKIVKIDND-------------------------------------LRVVMIKGAVPGKPGNLLRVAPAK  266 (275)
Q Consensus       224 mG~~~~Tv~Nl~V~kId~e-------------------------------------~nli~VKGsVPG~k~~~V~I~~a~  266 (275)
                      ||++++|++||+|++||.|                                     +|||||||||||+++++|.|++|+
T Consensus       272 mG~~~rT~~NlkI~rI~~~~~~~~~k~~~~~~~t~~d~~~k~ItP~GGF~hYG~V~~~~ilvKGsVpG~kk~~v~lr~a~  351 (403)
T 2zkr_b          272 KGYHHRTEINKKIYKIGQGYLIKDGKLIKNNASTDYDLSDKSINPLGGFVHYGEVTNDFVMLKGCVVGTKKRVLTLRKSL  351 (403)
T ss_dssp             EECCEEEESCCCEEEEECCCCCCSSCCCCCTTCCCCCCSSCSCCSCCCBTTTBCCCSCEEEEESCCSSCTTCEEECCCCC
T ss_pred             CCcceEEecCCEEEEECCccccccccccccccccccccccccccCCCCcceeeeecCCEEEEEecccCCCCcEEEEeecc
Confidence            9999999999999999998                                     999999999999999999999998


Q ss_pred             ec
Q 023905          267 IV  268 (275)
Q Consensus       267 ~~  268 (275)
                      +.
T Consensus       352 ~~  353 (403)
T 2zkr_b          352 LV  353 (403)
T ss_dssp             --
T ss_pred             cc
Confidence            74

>3j21_C 50S ribosomal protein L3P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=100.00  E-value=1.8e-51  Score=389.25  Aligned_cols=211  Identities=27%  Similarity=0.407  Sum_probs=166.9

Q ss_pred             ccceeeeeEEEeeeeeEECCCC---------cEEEEEEEEeCCCeEEEEeeccC--CCCeeEEE-Eeeeeec--------
Q 023905           56 YEAGIGVMGTKLGMMSYFEPDG---------TVVPVTVVGFREGNIVTQVKTEA--TDGYDAVQ-IGYRRVR--------  115 (275)
Q Consensus        56 ~~~r~Glig~KiGMt~if~~~G---------~~vpvTVl~~~~~~vV~~vkt~e--~dGY~Avq-vG~g~~~--------  115 (275)
                      -+...|++|+|.|||+|.-++-         ...||||||.+ |.+|+.+.--.  -.|..++- |=+.+.+        
T Consensus        35 ~~~L~~F~GYKAGMTHiv~~~drpgS~~~kEv~~~VTivEtP-Pm~vvgi~gY~~tp~Gl~~~~~vwa~~l~~~~~~~~y  113 (365)
T 3j21_C           35 EVRMLGFAGYKAGMTHILMIDDEPGLTNGKEIFMPVTIIETP-PLRVFGIRAYRMGYLGLETATEVIVPDFPLDNYPAKE  113 (365)
T ss_dssp             SSEECCEEEEEEEEEEEEEESCSCSSCSSSEEEEEEEEEECC-CEEEEEEEEEEECSSSEEEEEEECCCCCCCCSCCCCC
T ss_pred             CceeeeeeeeccCCeEEEEEcCCCCCcCCCEeeeeeEEEeCC-CeEEEEEEEEeecCCCceeEEEEccccccchhhcccc
Confidence            4578899999999999986542         38899999995 68888764222  23332221 1111111        


Q ss_pred             ---------------cccC---Ch-----------hhcchhhh-----------------cCCCCCceEEEEEecCCC--
Q 023905          116 ---------------DKKL---TK-----------PELGHLQK-----------------SGLIPMRHLQEFRLQSID--  147 (275)
Q Consensus       116 ---------------~k~~---~K-----------p~~G~f~k-----------------agv~pkr~l~Efrv~~~~--  147 (275)
                                     .+++   .|           ..+..+++                 .++..|.+|+|++|...+  
T Consensus       114 ~~~~~k~~~~~~~e~~Rr~~~~~k~~~~~~~~~~~~~~~~~~k~~~~~~iRvi~hTqp~~~~lqKK~~imEiqV~Ggsv~  193 (365)
T 3j21_C          114 RKGKPKPKMTFYKLLERRIATLPKNYTQEMFEQKLGQLEDMIKEGEIVDVRAIVATQPWVIKLKKKPEVMEYAIGGTSVE  193 (365)
T ss_dssp             SSSCCCCCCCSCSHHHHSSCCCCSCHHHHHHHHHHHHHHHHHTCTTEEEEEEEEEECCSSCSSCCSCCEEEEEEECSSHH
T ss_pred             ccccccccccchhhhhhhhhcccccccccchhhHHHHHHHhhccCcceEEEEEEeccccccccccCccEEEEEecCCCHH
Confidence                           0111   11           11222233                 345567899999997644  


Q ss_pred             ---Cc---CCCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCCCCCCCCCCCCCCCCCCCCCCCcccCCCCCC
Q 023905          148 ---GF---EAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMP  221 (275)
Q Consensus       148 ---~~---~~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHGSk~HR~~GSiG~~~~PgRV~kGkkMa  221 (275)
                         +|   ++|++|+++++|++||+|||+|+|||||||||||||||+++|++||+. ||++||||+ |+|+|||+|++||
T Consensus       194 ~k~~~a~~~lG~~i~v~~vF~~ge~VDV~GvTKGKGFqGvvKRwgf~~~p~~hg~~-hR~~GsiG~-~~P~rV~~g~~ma  271 (365)
T 3j21_C          194 EKFNYIKEKLGKELRVGEVLKEGELLDVIAVTKGKGTQGPVKRWGIKLRAHKDSKG-RRKVGSIGP-WHPARVMWTVPMA  271 (365)
T ss_dssp             HHHHHHHHHTTCBCCHHHHCCTTCEEEEEEECCCCEEECHHHHHCCCCCSSCCSSC-SSCCCCSCC-SSSCSCCSSSCCC
T ss_pred             HHHHHHHhhcCcEEechhccCCCCEEEEEEEeeccccccceeeccCCCCCCCCCCC-CCCCcccCC-CCCCcccCCCccC
Confidence               22   689999998899999999999999999999999999999999999963 999999999 7999999999999


Q ss_pred             CCCCCeeEEEEceEEEEEeCC--------------------------CCEEEEeccCCCCCCCeEEEEeceecC
Q 023905          222 GRMGGTTRKIRKLKIVKIDND--------------------------LRVVMIKGAVPGKPGNLLRVAPAKIVG  269 (275)
Q Consensus       222 G~mG~~~~Tv~Nl~V~kId~e--------------------------~nli~VKGsVPG~k~~~V~I~~a~~~~  269 (275)
                      ||||++++|++||+|++||+|                          +|||||||||||+++++|+|++|++..
T Consensus       272 GqmG~~~rT~~NlkI~kI~~~~~~~~~d~t~k~ItP~GGF~hYG~V~~~~ilvKGsVPG~kk~~v~lr~a~~~~  345 (365)
T 3j21_C          272 GQMGFHHRTELNKRLIAIGENGKLKLDENTEIEITPKGGFPHYGIVRSDFMMIAGSVPGAIKRIIRVRPAIRPP  345 (365)
T ss_dssp             EEESSCEEEEEEEEEEEEEEESSCCSSSSSCSCCCCTTCBTTBCCCCEEEEEEESCCSSCTTCEEEEEECSSCC
T ss_pred             CccCcceeEecCCEEEEEcCCCCcccccccccccccCCCceeeeeecCCEEEEEecCcCCCCcEEEEeeccccc
Confidence            999999999999999999986                          799999999999999999999998753

>3u5e_B 60S ribosomal protein L3; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3o5h_C 3o58_C 3u5i_B 4b6a_B 3izc_C 3izs_C 1s1i_C 3jyw_C

Probab=100.00  E-value=1.9e-50  Score=384.64  Aligned_cols=208  Identities=24%  Similarity=0.359  Sum_probs=163.0

Q ss_pred             cceeeeeEEEeeeeeEECCC---C-------cEEEEEEEEeCCCeEEEEeeccCCC--CeeEEE-Eeeeeecc---ccC-
Q 023905           57 EAGIGVMGTKLGMMSYFEPD---G-------TVVPVTVVGFREGNIVTQVKTEATD--GYDAVQ-IGYRRVRD---KKL-  119 (275)
Q Consensus        57 ~~r~Glig~KiGMt~if~~~---G-------~~vpvTVl~~~~~~vV~~vkt~e~d--GY~Avq-vG~g~~~~---k~~-  119 (275)
                      +..+|++|+|.|||+|.-++   |       ...||||||.+ |.+|+.+.--..+  |-.++- |=+.+.++   +++ 
T Consensus        41 ~~L~aF~GYKAGMTHiv~~~drpgS~~~~kEvv~~VTivEtP-Pm~vvgi~gY~~tp~Gl~~~~~vwa~~l~~e~~Rr~~  119 (387)
T 3u5e_B           41 VALTSFLGYKAGMTTIVRDLDRPGSKFHKREVVEAVTVVDTP-PVVVVGVVGYVETPRGLRSLTTVWAEHLSDEVKRRFY  119 (387)
T ss_dssp             CCCSEEEEEEEEEEEEEEECCCTTSTTTTSEEEEEEEEEECC-CEEEEEEEEEEEETTEEEEEEEEECSCCCHHHHGGGC
T ss_pred             ceeeeeeeeccCCeEEEEEccCCCCCcCCCEeeeeeEEEecC-CeEEEEEEEEeecCCCceeEEEEcccccCHHHhhhhh
Confidence            45789999999999998442   4       38999999995 6888876422112  222211 11111110   111 


Q ss_pred             --------------C-------hhhcchh---h---------------hcCCC-CCceEEEEEecCCC-----Cc---CC
Q 023905          120 --------------T-------KPELGHL---Q---------------KSGLI-PMRHLQEFRLQSID-----GF---EA  151 (275)
Q Consensus       120 --------------~-------Kp~~G~f---~---------------kagv~-pkr~l~Efrv~~~~-----~~---~~  151 (275)
                                    .       +...-.|   +               ..++. -|.+|+|++|+..+     +|   .+
T Consensus       120 knw~~skkkaftk~~kk~~~~~~~~~~~~~~~~k~~~viRvi~hTqp~l~~l~qKK~~imEiqV~Ggsv~~k~~~a~~~l  199 (387)
T 3u5e_B          120 KNWYKSKKKAFTKYSAKYAQDGAGIERELARIKKYASVVRVLVHTQIRKTPLAQKKAHLAEIQLNGGSISEKVDWAREHF  199 (387)
T ss_dssp             SCTTTSCCCTTTTTGGGGSSSSHHHHHHHHHHHHSCSEEEEEEECCGGGSSCSCCSCCEEEEECCSSCHHHHHHHHHHTT
T ss_pred             cccchhhhhhhhhhcccccchhHHHHHHHHHhhhcccEEEEEEeccccccCccccCceeEEEEecCCCHHHHHHHHHhcc
Confidence                          0       1111111   1               23343 36899999998643     22   68


Q ss_pred             CcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCC-CCCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCCCeeEE
Q 023905          152 GQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGA-MTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRK  230 (275)
Q Consensus       152 G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~p-asHGSk~HR~~GSiG~~~~PgRV~kGkkMaG~mG~~~~T  230 (275)
                      |++|+++++|++||+|||+|+|||||||||||||||+++| +||+  .||++||||+ |+|+|||+|++||||||++++|
T Consensus       200 g~~i~v~~vF~~ge~VDV~gvTKGKGfqGvvKRwg~~~~p~ktH~--~~R~~GsiG~-~~P~rV~~g~~maGqmG~~~rT  276 (387)
T 3u5e_B          200 EKTVAVDSVFEQNEMIDAIAVTKGHGFEGVTHRWGTKKLPRKTHR--GLRKVACIGA-WHPAHVMWSVARAGQRGYHSRT  276 (387)
T ss_dssp             TCEECGGGTCCTTCEEEEEEECCCCCEECHHHHHCCCCCCTTCTT--CSSSCSCCCC-SSSSSCCTTSCCCEECSCCEEE
T ss_pred             CCEechHHhccCCCEEEEEEEEcCccceeeeeecccCCCCccccC--CCCCCcccCC-CCCCcccCCCccCCCCCCceEE
Confidence            9999998899999999999999999999999999999999 9997  6999999999 9999999999999999999999


Q ss_pred             EEceEEEEEeC------------------------------CCCEEEEeccCCCCCCCeEEEEeceec
Q 023905          231 IRKLKIVKIDN------------------------------DLRVVMIKGAVPGKPGNLLRVAPAKIV  268 (275)
Q Consensus       231 v~Nl~V~kId~------------------------------e~nli~VKGsVPG~k~~~V~I~~a~~~  268 (275)
                      ++||+|++||.                              ++|||||||||||+++++|.|++|++.
T Consensus       277 ~~NlkI~kI~~~~~~~~~~t~~d~t~k~ItP~GGF~hYG~V~~~~ilvKGsVpG~kk~~v~lr~s~~~  344 (387)
T 3u5e_B          277 SINHKIYRVGKGDDEANGATSFDRTKKTITPMGGFVHYGEIKNDFIMVKGCIPGNRKRIVTLRKSLYT  344 (387)
T ss_dssp             EEEEEEEEECCSSCSCSSCCTTTCCCCCSCCTTCBTTTBCCCSCEEEEESCCSSCTTCEEEEEECSSC
T ss_pred             EeccEEEEEcCCccccccccccccccccccCCCCccccceecCCEEEEEecccCCCCcEEEEeecccC
Confidence            99999999999                              999999999999999999999999874

>4a17_B RPL3, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_B 4a1c_B 4a1e_B

Probab=100.00  E-value=6.7e-49  Score=374.41  Aligned_cols=208  Identities=26%  Similarity=0.379  Sum_probs=163.2

Q ss_pred             cceeeeeEEEeeeeeEECCC---C-------cEEEEEEEEeCCCeEEEEeeccCC--CCeeEEE-Eeeeeecc---ccC-
Q 023905           57 EAGIGVMGTKLGMMSYFEPD---G-------TVVPVTVVGFREGNIVTQVKTEAT--DGYDAVQ-IGYRRVRD---KKL-  119 (275)
Q Consensus        57 ~~r~Glig~KiGMt~if~~~---G-------~~vpvTVl~~~~~~vV~~vkt~e~--dGY~Avq-vG~g~~~~---k~~-  119 (275)
                      +..+|++|+|.|||+|..++   |       ...||||||.+ |.+|+.+.--..  .|-.++- |=+.+.++   +++ 
T Consensus        41 ~~L~aF~GYKAGMTHiv~~~drpgS~~~~kEv~~~VTivEtP-Pm~vvgi~gY~~tp~Gl~~~~~vwa~~l~~e~~Rr~~  119 (391)
T 4a17_B           41 PHLTAFTGFKAGMTHILREVDRSGSRHNKKEVVEAVTVIECP-PMTIVGVVGYIDTPRGLRALTTVWAKTIDNNTKKRFY  119 (391)
T ss_dssp             CEECEEEEEEEEEEEEEEECCCTTSTTTTSEEEEEEEEEECC-CEEEEEEEEEEEETTEEEEEEEEECSCCCHHHHGGGC
T ss_pred             ceEeeeeeeccCCeEEEEEccCCCCCcCCCEeeeeeEEEeCC-CeEEEEEEEEeecCCCceeEEEEcccccCHHHhhhhc
Confidence            46789999999999998442   4       38999999995 688887642222  2322221 11111111   111 


Q ss_pred             -----------Ch--------h---hcchh---------------hhcCCC-CCceEEEEEecCCC-----Cc---CCCc
Q 023905          120 -----------TK--------P---ELGHL---------------QKSGLI-PMRHLQEFRLQSID-----GF---EAGQ  153 (275)
Q Consensus       120 -----------~K--------p---~~G~f---------------~kagv~-pkr~l~Efrv~~~~-----~~---~~G~  153 (275)
                                 ++        .   .+..+               ...++. -|.+|+|++|+..+     +|   .+|+
T Consensus       120 knw~~skkkaftk~~kk~~~~~~~~~~~~~~k~~~viRvi~hTqp~l~~l~qKK~~imEiqV~GGsv~~k~~~a~~~lg~  199 (391)
T 4a17_B          120 KNWANSNKKAFTHHEKNFDQKAQDLLLKRIEKYCSVVRVIAHTNMSKLNLRQKKNHILEIQVNGGKVAEKVAFAKSLLEK  199 (391)
T ss_dssp             SCSTTSCCCTTHHHHHTCCHHHHHHHHHHHHHHCSEEEEEEEECGGGSCSSCCCCEEEEEEEECSCHHHHHHHHHHHTTC
T ss_pred             ccccccchhhhhhhhhhcchhHHHHHHHHhhhcccEEEEEEeccccccCcCCCCceEEEEEecCCCHHHHHHHHHhhcCC
Confidence                       11        0   11111               123443 36899999997643     12   5899


Q ss_pred             EEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCC-CCCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCCCeeEEEE
Q 023905          154 KLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGA-MTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIR  232 (275)
Q Consensus       154 ~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~p-asHGSk~HR~~GSiG~~~~PgRV~kGkkMaG~mG~~~~Tv~  232 (275)
                      +|+++++|++||+|||+|+|||||||||||||||+++| +||+  .||++||||+ |+|+|||+|++||||||++++|++
T Consensus       200 ~i~v~~vF~~ge~VDV~gvTKGKGfqGvvKRwg~~~~p~ktH~--~~R~~GsiG~-~~P~rV~~g~~maGqmG~~~rT~~  276 (391)
T 4a17_B          200 EVKVDSIFAENEMLDVLGVTKGKGFAGVIKRFGVKHLQKKTHR--GYRKVGCIGA-WHPSRIRFTVPRAGQLGYHHRTET  276 (391)
T ss_dssp             EECHHHHCCTTCEEEEEEECCCCCEECHHHHHCCCCCCTTCSS--CSSSCSCSCC-SSSSSCCTTSCCCEECSCCEEEEE
T ss_pred             EEehhHhcCCCCEEEEEEEEeCcccceeeeecccCCCCccccc--CCCCCcccCC-CCCCcccCCCccCCCCCCceEEEe
Confidence            99998899999999999999999999999999999998 9998  6999999999 999999999999999999999999


Q ss_pred             ceEEEEEeC------------------------------CCCEEEEeccCCCCCCCeEEEEeceec
Q 023905          233 KLKIVKIDN------------------------------DLRVVMIKGAVPGKPGNLLRVAPAKIV  268 (275)
Q Consensus       233 Nl~V~kId~------------------------------e~nli~VKGsVPG~k~~~V~I~~a~~~  268 (275)
                      ||+|++||+                              ++|||||||||||+++++|.|++|++.
T Consensus       277 NlkI~kI~~~~~~~~a~t~~d~t~k~ItP~GGF~hYG~V~~~~ilvKGsVpG~kk~~v~lr~s~~~  342 (391)
T 4a17_B          277 NKKVYRVGKGDDASNASTAGDVTDKAITPLGGFPHYGVVKNDFIMIKGCCVGPKKRVLTLRKSIIP  342 (391)
T ss_dssp             EEEEEEEECTTCSSTTCCTTTCSCCCSSCTTCBTTTBCCCSCEEEEESCCSSSTTCEEEEEECSSC
T ss_pred             ccEEEEEcCCccccccccccccccccccCCCcccccceecCCEEEEeccccCCCCcEEEEeecccC
Confidence            999999998                              999999999999999999999999864

---

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	275
d2gycb1	209	b.43.3.2 (B:1-209) Ribosomal protein L3 {Escherich	3e-53
d2zjrb1	205	b.43.3.2 (B:1-205) Ribosomal protein L3 {Deinococc	4e-50
d2j01e1	205	b.43.3.2 (E:1-205) Ribosomal protein L3 {Thermus t	6e-46
d1vqob1	337	b.43.3.2 (B:1-337) Ribosomal protein L3 {Archaeon	5e-35

>d2gycb1 b.43.3.2 (B:1-209) Ribosomal protein L3 {Escherichia coli [TaxId: 562]} Length = 209

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Escherichia coli [TaxId: 562]

 Score =  170 bits (431), Expect = 3e-53
 Identities = 97/207 (46%), Positives = 129/207 (62%), Gaps = 3/207 (1%)

Query: 60  IGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKL 119
           IG++G K+GM   F  DG  +PVTV+   E N VTQVK  A DGY A+Q+     +  ++
Sbjct: 2   IGLVGKKVGMTRIFTEDGVSIPVTVIEV-EANRVTQVKDLANDGYRAIQVTTGAKKANRV 60

Query: 120 TKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQ 179
           TKPE GH  K+G+   R L EFRL   + F  GQ     E+F +   VDV+GT+ GKGF 
Sbjct: 61  TKPEAGHFAKAGVEAGRGLWEFRLAEGEEFTVGQS-ISVELFADVKKVDVTGTSKGKGFA 119

Query: 180 GGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVK 238
           G +KR NFR    THG S SHR  GSIG   TPG+V+KGKKM G+MG     ++ L +V+
Sbjct: 120 GTVKRWNFRTQDATHGNSLSHRVPGSIGQNQTPGKVFKGKKMAGQMGNERVTVQSLDVVR 179

Query: 239 IDNDLRVVMIKGAVPGKPGNLLRVAPA 265
           +D +  ++++KGAVPG  G+ L V PA
Sbjct: 180 VDAERNLLLVKGAVPGATGSDLIVKPA 206

>d2zjrb1 b.43.3.2 (B:1-205) Ribosomal protein L3 {Deinococcus radiodurans [TaxId: 1299]} Length = 205

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Deinococcus radiodurans [TaxId: 1299]

 Score =  162 bits (410), Expect = 4e-50
 Identities = 88/206 (42%), Positives = 125/206 (60%), Gaps = 8/206 (3%)

Query: 61  GVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLT 120
           G++GTK+GM   ++ +   +PVTVV       + Q KT  TDGY+AVQIGY    ++K+ 
Sbjct: 3   GILGTKIGMTQIWK-NDRAIPVTVVLA-GPCPIVQRKTAQTDGYEAVQIGYAPKAERKVN 60

Query: 121 KPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQG 180
           KP  GH  K+G+ P R L+EFR  + DG          +IF EG+ +D +GT+ GKG QG
Sbjct: 61  KPMQGHFAKAGVAPTRILREFRGFAPDGDSVNV-----DIFAEGEKIDATGTSKGKGTQG 115

Query: 181 GIKRHNFRRGAMTHGSKSHRQ-LGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI 239
            +KR NF  G  +HGSK   +  GSIG   TPGRVYKGK+M G MG     ++ L++V+I
Sbjct: 116 VMKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKGKRMAGHMGMERVTVQNLEVVEI 175

Query: 240 DNDLRVVMIKGAVPGKPGNLLRVAPA 265
                ++++KGA+PG  G L+ +  A
Sbjct: 176 RAGENLILVKGAIPGANGGLVVLRSA 201

>d2j01e1 b.43.3.2 (E:1-205) Ribosomal protein L3 {Thermus thermophilus [TaxId: 274]} Length = 205

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Thermus thermophilus [TaxId: 274]

 Score =  151 bits (382), Expect = 6e-46
 Identities = 85/207 (41%), Positives = 118/207 (57%), Gaps = 8/207 (3%)

Query: 61  GVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLT 120
           G++G K+GM   F  D   VPVTV+       V Q +T   DGY AVQ+G+     K++ 
Sbjct: 3   GILGVKVGMTRIFR-DDRAVPVTVILA-GPCPVVQRRTPEKDGYTAVQLGFLPQNPKRVN 60

Query: 121 KPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQG 180
           +P  GH  K+G+ P+R L+E R  + +           EIF  G+ VDV+GT+ G+GF G
Sbjct: 61  RPLKGHFAKAGVEPVRILREIRDFNPE-----GDTVTVEIFKPGERVDVTGTSKGRGFAG 115

Query: 181 GIKRHNFRRGAMTHGS-KSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI 239
            +KR NF  G  +HG+ K HR  GSIG   TPGRVYKGKKM G  G     +  L++V +
Sbjct: 116 VMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKGKKMAGHYGAERVTVMNLEVVDV 175

Query: 240 DNDLRVVMIKGAVPGKPGNLLRVAPAK 266
             +  ++++KGAVPG  G L+ V   K
Sbjct: 176 IPEENLLLVKGAVPGPNGGLVIVRETK 202

>d1vqob1 b.43.3.2 (B:1-337) Ribosomal protein L3 {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 337

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score =  126 bits (317), Expect = 5e-35
 Identities = 50/282 (17%), Positives = 78/282 (27%), Gaps = 72/282 (25%)

Query: 61  GVMGTKLGMMSYFEPDG----------TVVPVTVVGFREGNIVTQVKTEATDGYDAVQIG 110
           G  G K GM      +             VPVTV+          ++      Y    + 
Sbjct: 40  GFAGYKAGMTHVVLVNDEPNSPREGMEETVPVTVIET-PPMRAVALRAYEDTPYGQRPLT 98

Query: 111 YRRVRD-----KKLTKPELGHLQKSGLIPMRHLQEFR----------------------- 142
                +      +       H   +    +R   E                         
Sbjct: 99  EVWTDEFHSELDRTLDVPEDHDPDAAEEQIRDAHEAGDLGDLRLITHTVPDAVPSVPKKK 158

Query: 143 -----------------LQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRH 185
                              ++D  E G + A  +IF  G+  DV+G T GKG QG +KR 
Sbjct: 159 PDVMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRW 218

Query: 186 NFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLR- 244
             ++    H  +  R+         P RV       G+ G   R     +++ I      
Sbjct: 219 GVQKRKGKHARQGWRRRIGNLGPWNPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEGDEP 278

Query: 245 ---------------VVMIKGAVPGKPGNLLRVAPAKIVGKN 271
                            ++KG+VPG    L+R  PA      
Sbjct: 279 TVDGGFVNYGEVDGPYTLVKGSVPGPDKRLVRFRPAVRPNDQ 320

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	275
d2zjrb1	205	Ribosomal protein L3 {Deinococcus radiodurans [Tax	100.0
d2gycb1	209	Ribosomal protein L3 {Escherichia coli [TaxId: 562	100.0
d2j01e1	205	Ribosomal protein L3 {Thermus thermophilus [TaxId:	100.0
d1vqob1	337	Ribosomal protein L3 {Archaeon Haloarcula marismor	100.0

>d2zjrb1 b.43.3.2 (B:1-205) Ribosomal protein L3 {Deinococcus radiodurans [TaxId: 1299]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Deinococcus radiodurans [TaxId: 1299]

Probab=100.00  E-value=1.1e-83  Score=569.95  Aligned_cols=202  Identities=44%  Similarity=0.734  Sum_probs=194.0

Q ss_pred             eeeeEEEeeeeeEECCCCcEEEEEEEEeCCCeEEEEeeccCCCCeeEEEEeeeeeccccCChhhcchhhhcCCCCCceEE
Q 023905           60 IGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQ  139 (275)
Q Consensus        60 ~Glig~KiGMt~if~~~G~~vpvTVl~~~~~~vV~~vkt~e~dGY~AvqvG~g~~~~k~~~Kp~~G~f~kagv~pkr~l~  139 (275)
                      .||||+|+||||+||+ |+++||||||++ +|+|+|+||.|+|||+|+||||++.++++++||++|||+|++++|++++.
T Consensus         2 ~Glig~KiGMT~i~~~-g~~vpVTVle~~-p~~V~~~kt~ekdGY~avqvg~~~~~~k~~~K~~~g~~~k~~~~~~~~~~   79 (205)
T d2zjrb1           2 KGILGTKIGMTQIWKN-DRAIPVTVVLAG-PCPIVQRKTAQTDGYEAVQIGYAPKAERKVNKPMQGHFAKAGVAPTRILR   79 (205)
T ss_dssp             CEEEEEEEEEEEEEET-TEEEEEEEEECC-CEEEEEEECTTTTSSCEEEEECSCCCGGGCCHHHHHHHHTTTCCCCSCEE
T ss_pred             ceEEEEeccceeEEeC-CCEEEEEEEEeC-CCEEEEEEeeccCCCeeeeecceeecccccccccccceeccccccceeee
Confidence            5999999999999985 899999999996 69999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCCCcCCCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCCCCCC-CCCCCCCCCCCCCCCCCcccCCC
Q 023905          140 EFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGK  218 (275)
Q Consensus       140 Efrv~~~~~~~~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHG-Sk~HR~~GSiG~~~~PgRV~kGk  218 (275)
                      ||++.    +..|+++++ |+|++||+|||+|+|||||||||||||||+++|+||| |++||++||||++++|||||||+
T Consensus        80 ef~~~----~~~g~~~~~-~~F~~G~~VDV~g~sKGKGFqGv~KR~gf~g~p~sHG~s~~hR~~GsiG~~~~PgRV~kGk  154 (205)
T d2zjrb1          80 EFRGF----APDGDSVNV-DIFAEGEKIDATGTSKGKGTQGVMKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKGK  154 (205)
T ss_dssp             EETTC----CCSSEECST-TTSCTTCEEEEEEECCEEEEECHHHHHCCCCCCSSSSCSSCSCSCCCCCCSSTTCSCCTTC
T ss_pred             ecccc----ccccceeee-EeecCCCEEEEEEEeeccccccceEecccccCcccccCCccccccccccccCcCceEecCC
Confidence            99954    345788887 7999999999999999999999999999999999999 78999999999999999999999


Q ss_pred             CCCCCCCCeeEEEEceEEEEEeCCCCEEEEeccCCCCCCCeEEEEeceec
Q 023905          219 KMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIV  268 (275)
Q Consensus       219 kMaG~mG~~~~Tv~Nl~V~kId~e~nli~VKGsVPG~k~~~V~I~~a~~~  268 (275)
                      |||||||++++|++||+|++||+|+||||||||||||++++|+|+||++.
T Consensus       155 kMaG~mG~~~~Tv~nl~V~~id~e~nli~vkGsVPG~~~~~V~ir~a~k~  204 (205)
T d2zjrb1         155 RMAGHMGMERVTVQNLEVVEIRAGENLILVKGAIPGANGGLVVLRSAAKA  204 (205)
T ss_dssp             CCCEEEECCEEEEEEEEEEEEETTTTEEEEESCCSSCTTCEEEEEBCSSC
T ss_pred             ccCCcccceEEEEeCCEEEEEeCCCCEEEEeccCcCCCCCEEEEEecccC
Confidence            99999999999999999999999999999999999999999999999874

>d2gycb1 b.43.3.2 (B:1-209) Ribosomal protein L3 {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=7.5e-82  Score=557.83  Aligned_cols=207  Identities=46%  Similarity=0.761  Sum_probs=201.7

Q ss_pred             eeeeeEEEeeeeeEECCCCcEEEEEEEEeCCCeEEEEeeccCCCCeeEEEEeeeeeccccCChhhcchhhhcCCCCCceE
Q 023905           59 GIGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHL  138 (275)
Q Consensus        59 r~Glig~KiGMt~if~~~G~~vpvTVl~~~~~~vV~~vkt~e~dGY~AvqvG~g~~~~k~~~Kp~~G~f~kagv~pkr~l  138 (275)
                      ++||||+|+|||++||+||+++||||||++ +|+|+++||.|+|||+|+|+||++.++++++||++|||+++++++++++
T Consensus         1 m~Glig~KiGMT~v~~~~G~~vpVTVle~~-p~~V~~vkt~~kdgy~a~~~~~~~~~~k~~~K~~~g~~~k~~~~~~~~~   79 (209)
T d2gycb1           1 MIGLVGKKVGMTRIFTEDGVSIPVTVIEVE-ANRVTQVKDLANDGYRAIQVTTGAKKANRVTKPEAGHFAKAGVEAGRGL   79 (209)
T ss_dssp             CCCCEEEEEEEEECCCSSSCCCEEEEEECC-CEECCCEEEEEEETTEEEEEEEECSSCHHHHHHHHHHTTTTCEEEEECC
T ss_pred             CceEeEEecCCceEECCCCcEEEEEEEEeC-CCEEEEEEeeccCCcceeEecccccccccCChhHhcchhhhccccccee
Confidence            469999999999999999999999999996 6999999999999999999999999999999999999999999999999


Q ss_pred             EEEEecCCCCcCCCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCCCCCC-CCCCCCCCCCCCCCCCCcccCC
Q 023905          139 QEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKG  217 (275)
Q Consensus       139 ~Efrv~~~~~~~~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHG-Sk~HR~~GSiG~~~~PgRV~kG  217 (275)
                      +||++++++++++|+.+++ |+|++||+|||+|+|||||||||||||||+++|+||| |++||++||+|++++|+|||||
T Consensus        80 ~e~~~~~~~~~~~G~~~~~-~~F~~Gq~VDV~g~TKGKGFqGv~KR~gf~g~~~sHg~~~~~r~~gs~g~~~~PgrV~~g  158 (209)
T d2gycb1          80 WEFRLAEGEEFTVGQSISV-ELFADVKKVDVTGTSKGKGFAGTVKRWNFRTQDATHGNSLSHRVPGSIGQNQTPGKVFKG  158 (209)
T ss_dssp             CSSSCCSTHHHHTSEECHH-HHCCTTCEEEEEEECCCCCSCCSTTTTCCCCCCGGGTSSSCCSCCSCSSSSSSSCCCCSS
T ss_pred             eeecccchHhhccCccccc-ceeecCceEEEEEEEeccccCCceeeeeecccCcccCCcceeccCccccccCcCCeEeec
Confidence            9999988888999999987 8999999999999999999999999999999999999 8899999999999999999999


Q ss_pred             CCCCCCCCCeeEEEEceEEEEEeCCCCEEEEeccCCCCCCCeEEEEecee
Q 023905          218 KKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKI  267 (275)
Q Consensus       218 kkMaG~mG~~~~Tv~Nl~V~kId~e~nli~VKGsVPG~k~~~V~I~~a~~  267 (275)
                      ++||||||++++|++||+|++||+|+||||||||||||++++|+||||++
T Consensus       159 ~~maG~mG~~~~T~~n~~I~~Id~~~n~i~vkGsVPG~~~~~v~ir~aik  208 (209)
T d2gycb1         159 KKMAGQMGNERVTVQSLDVVRVDAERNLLLVKGAVPGATGSDLIVKPAVK  208 (209)
T ss_dssp             SCCCCCCCCCEEEEEEEEEEECCSSSSEEEEESCCSSCTTCEEECCBCSC
T ss_pred             cccCCccCCceEEEecCEEEEEeCCCCEEEEEecCcCCCCCEEEEEeccc
Confidence            99999999999999999999999999999999999999999999999986

>d2j01e1 b.43.3.2 (E:1-205) Ribosomal protein L3 {Thermus thermophilus [TaxId: 274]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=2.3e-80  Score=546.21  Aligned_cols=202  Identities=43%  Similarity=0.709  Sum_probs=193.4

Q ss_pred             eeeeEEEeeeeeEECCCCcEEEEEEEEeCCCeEEEEeeccCCCCeeEEEEeeeeeccccCChhhcchhhhcCCCCCceEE
Q 023905           60 IGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQ  139 (275)
Q Consensus        60 ~Glig~KiGMt~if~~~G~~vpvTVl~~~~~~vV~~vkt~e~dGY~AvqvG~g~~~~k~~~Kp~~G~f~kagv~pkr~l~  139 (275)
                      .||||+|+|||++|| ||.++||||||++ +|+|+|+||.|+|||+|+|+|+++.+.++++|+++|+|+|++..+++++.
T Consensus         2 ~GliG~KiGMT~i~~-~g~~vpVTVlev~-p~~Vv~vkt~ekdgy~avqlg~~~~~~~~~~k~~~g~~~k~~~~~~~~~~   79 (205)
T d2j01e1           2 KGILGVKVGMTRIFR-DDRAVPVTVILAG-PCPVVQRRTPEKDGYTAVQLGFLPQNPKRVNRPLKGHFAKAGVEPVRILR   79 (205)
T ss_dssp             CCCEEEEEEEEEEEE-TTEEEEEEEEEEC-CBCCCCBCCTTTTSSCCBCCCCCCCCCSTTCSCCCCCSGGGSSCCSSCCC
T ss_pred             ceEEEEecCCeeEEe-CCCEEEEEEEEeC-CCEEEEEEeeccCCCcceeeeeeeecccccccccccccccccccccceee
Confidence            499999999999998 6899999999996 59999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCCCcCCCcEEeccccccCCCEEEEEEEeeccceeeeeeeeccCCCCCCCC-CCCCCCCCCCCCCCCCCcccCCC
Q 023905          140 EFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGK  218 (275)
Q Consensus       140 Efrv~~~~~~~~G~~l~~~~~F~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHG-Sk~HR~~GSiG~~~~PgRV~kGk  218 (275)
                      ||+..    +.+|++|++ ++|++||+|||+|+|||||||||||||||+++|+||| |++||++||+|++++|+|||||+
T Consensus        80 e~~~~----~~~g~~l~~-~~F~~Gq~VdVtg~TkGKGFqGv~KR~gf~g~p~sHg~s~~hR~~Gs~g~~~~pgrV~~g~  154 (205)
T d2j01e1          80 EIRDF----NPEGDTVTV-EIFKPGERVDVTGTSKGRGFAGVMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKGK  154 (205)
T ss_dssp             CCTTC----CCCSSCBCS-TTCCTTCEECCEEECCCCCEECTTTSSCCCCCCSSSSCSSCSSCCCCCCCSTTTCSCCTTC
T ss_pred             eeecc----ccccceeee-eEeeCCceEEEEEEEeccccCcceeecccccCccccCCcccccccccccccCcCceEEeec
Confidence            99843    356899987 7999999999999999999999999999999999999 89999999999999999999999


Q ss_pred             CCCCCCCCeeEEEEceEEEEEeCCCCEEEEeccCCCCCCCeEEEEeceec
Q 023905          219 KMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIV  268 (275)
Q Consensus       219 kMaG~mG~~~~Tv~Nl~V~kId~e~nli~VKGsVPG~k~~~V~I~~a~~~  268 (275)
                      |||||||++++|++||+|++||+|+|||||||||||+++++|+|+||++.
T Consensus       155 km~G~mG~~~~T~~nl~i~~id~~~n~i~vkGsVPG~~~~~v~ir~a~k~  204 (205)
T d2j01e1         155 KMAGHYGAERVTVMNLEVVDVIPEENLLLVKGAVPGPNGGLVIVRETKKA  204 (205)
T ss_dssp             CCSEECSSCEEECCCEECCCCCTTTTCEECCSCCCSCSSEEEECCCCCCC
T ss_pred             ccCCccCCceEEEeCCEEEEEeCCCCEEEEEecCcCCCCCEEEEEecccC
Confidence            99999999999999999999999999999999999999999999999864

>d1vqob1 b.43.3.2 (B:1-337) Ribosomal protein L3 {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=100.00  E-value=4.8e-71  Score=519.28  Aligned_cols=211  Identities=27%  Similarity=0.369  Sum_probs=187.8

Q ss_pred             cceeeeeEEEeeeeeEECCCCc----------EEEEEEEEeCCCeEEEEeeccCCCCeeEEEEeeeeec------cccCC
Q 023905           57 EAGIGVMGTKLGMMSYFEPDGT----------VVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVR------DKKLT  120 (275)
Q Consensus        57 ~~r~Glig~KiGMt~if~~~G~----------~vpvTVl~~~~~~vV~~vkt~e~dGY~AvqvG~g~~~------~k~~~  120 (275)
                      +..+|+||+|+||||||++||+          ++||||||++ ||+|+|+||.|+|||+|+|||++..+      .+.++
T Consensus        36 ~~~~G~iG~KvGMT~v~~~d~~~~S~~~gk~i~vPVTVIe~~-p~~V~~vkt~e~dgy~a~qlg~~~~~~~~~~~~r~~~  114 (337)
T d1vqob1          36 PGVQGFAGYKAGMTHVVLVNDEPNSPREGMEETVPVTVIETP-PMRAVALRAYEDTPYGQRPLTEVWTDEFHSELDRTLD  114 (337)
T ss_dssp             CEECCEEEEEEEEEEEEEECCCTTSTTTTSEEEEEEEEEECC-CEEEEEEEEEEEETTEEEEEEEEECSCCCTTGGGTSC
T ss_pred             cceEEEEEEccCceEEEEeCCCcCCcccCceeEeeeEEEEcC-CceEEEEEEEecCCCceEEEEEEEccccchhhhcccc
Confidence            5778999999999999999996          8999999996 69999999999999999999976433      35667


Q ss_pred             hhhcchhhhc----------------------------CCC-CCceEEEEEecCC----------CCcCCCcEEeccccc
Q 023905          121 KPELGHLQKS----------------------------GLI-PMRHLQEFRLQSI----------DGFEAGQKLAFEEIF  161 (275)
Q Consensus       121 Kp~~G~f~ka----------------------------gv~-pkr~l~Efrv~~~----------~~~~~G~~l~~~~~F  161 (275)
                      +|+.++++++                            ++. .+.+|.||+|...          +.+++|++++++|+|
T Consensus       115 ~~~~~~~k~~~~~~k~~~~~~~~~~vrvi~~tqp~~~~~~~~KKp~v~E~~v~Gg~~~e~~~~~~~~~~~G~ei~v~dvF  194 (337)
T d1vqob1         115 VPEDHDPDAAEEQIRDAHEAGDLGDLRLITHTVPDAVPSVPKKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIF  194 (337)
T ss_dssp             CCSSCCHHHHHHHHHHHHHHTCEEEEEEEEECCGGGCTTSCCCSCCEEEEEEESSCHHHHHHHHHHHHHHTCEECGGGTC
T ss_pred             hhhccchhhcchhhhhhhhhcccceEEEEeeeccccccccccccchheeeeccCCchhhhhhhhhhhhccccEEEeehee
Confidence            6765555442                            222 3568999999643          245789999999999


Q ss_pred             cCCCEEEEEEEeeccceeeeeeeeccCCCCCCCC-CCCCCCCCCCCCCCCCCcccCCCCCCCCCCCeeEEEEceEEEEE-
Q 023905          162 NEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI-  239 (275)
Q Consensus       162 ~~Gq~VDV~g~SKGKGF~GvmKR~gF~g~pasHG-Sk~HR~~GSiG~~~~PgRV~kGkkMaG~mG~~~~Tv~Nl~V~kI-  239 (275)
                      ++||+|||+|+|||||||||||||||+++|+||| +++||++||||+ ++|+|||||++||||||++++|++||+|++| 
T Consensus       195 ~~G~~VDV~g~TKGKGFqGvvKR~gf~~~p~sHg~~~~hR~~GsiG~-~~PgRV~kg~kmaGqmG~~~rT~~Nl~IvkI~  273 (337)
T d1vqob1         195 RAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRIGNLGP-WNPSRVRSTVPQQGQTGYHQRTELNKRLIDIG  273 (337)
T ss_dssp             CTTCEEEEEEECCCCCEECHHHHHCCCCCCGGGGSSSCSSCCSCSCC-SSSSSCCTTSCCCEECSCCEEEEEEEEEEEEE
T ss_pred             cCCCEEEEEEEecccccccceEeeeecccccccCCCccccCCcccCC-CCCCceecccccCCccCCccEEEeCcEEEEEc
Confidence            9999999999999999999999999999999999 569999999998 6899999999999999999999999999999 


Q ss_pred             ---------------eCCCCEEEEeccCCCCCCCeEEEEeceecC
Q 023905          240 ---------------DNDLRVVMIKGAVPGKPGNLLRVAPAKIVG  269 (275)
Q Consensus       240 ---------------d~e~nli~VKGsVPG~k~~~V~I~~a~~~~  269 (275)
                                     |.|+|||||||||||+++++|+||+|++..
T Consensus       274 ~~~~i~~~gGf~~ygdve~~~ilVKGsVPG~~~~~V~ir~aik~~  318 (337)
T d1vqob1         274 EGDEPTVDGGFVNYGEVDGPYTLVKGSVPGPDKRLVRFRPAVRPN  318 (337)
T ss_dssp             EESTTCCTTCBTTTBCCCEEEEEEESCCSSCTTCEEEEEECSSCS
T ss_pred             ccccccccCCceeeeeccCCEEEEEecccCCCCcEEEEeccccCC
Confidence                           779999999999999999999999998753