Citrus Sinensis ID: 038172

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320---
FSLPALEHNESVAAAAQRRRMSHRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESHTGITEFD
cccccHHHHHHHHHHHHHccccccccccccccccccccHHHccccccccccccccccccccEEccccccccccEEEEEEccccccccccccEEEEEEEEEcccEEEEEEEEEEEcccccEEcEEEEcccccHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHHHHHcEEEEEEEEEEHHHHccccccccccEEEEEccccccEEccccccccccEEccccccccccEEEEEEEEEEccccccEEEcccccccccccccccccccccccccccccccccccccccccEEEEEEEEEEEEccccccccccccccc
ccccHHHHHHHHHHHHHcccccccccccccccccccccHHHHHcccccccccccccccccccEEEEEEEEEEEEEEEEccccccccccccccEEEEEEEEcccEEEEEEEEEEEEccEEEEEEEEEcccccccHHHHHHHHHHHHHHHHHHHHHHHcccHHcHHHHHHHHHHHHHHHcEEEEEEEccHHHccccccccccEEEEEEccccHHHHHHHHHHHHcccccHHHHcccccEEEEEEEcccccEEcHHHHHccccccHHHHHccEEEEEEcccccccEEEEEccccccccccEEccccEEEEEccccccccccccccc
fslpalehnESVAAAAQRRRMshrkfehprhgslgflprkraarhrgkvkafpkddpskpcrltaflgykAGMTHIVRdvekpgsklhkketceavtiietppmmVVGVVGyvktprglrSLNTVWAQHLSEEVRRRFYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAygffekqipvdavfqkdemiDIIGvtkgkgyegvvtrwgvtrlprkthrgLRKVACIGAWHPARVSFTVAragqngyhhrtemNKKVyklgkggqeshtgitefd
fslpalehnesVAAAAQRRRMShrkfehprhgslgflprkrAARHRGkvkafpkddpskpcRLTAFLGYKAGMTHIVRdvekpgsklhkketceavtiietppmmvVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCKSKKKAFtkyskqyetdegkkSIQAQLEKIKKYASVVRVLAHTQIRkmkglkqkkAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIgvtkgkgyegvvtrwgvtrlprkthrglrKVACIGAWHPARVSFTVARagqngyhhrtemnkkvyklgkggqeshtgitefd
FSLPALEHNESVAAAAQRRRMSHRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETppmmvvgvvgYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCkskkkaftkyskQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESHTGITEFD
************************************************************CRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCKSKKKAFTKYS*************AQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHR*************************
***************************H*RHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCKSK*************************KIKKYASVVRVLAHTQIRK***********MEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWG****************CIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQE*********
FSLPALEHN*******************PRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLG**************
FSLP*L*H***VA**********************************KVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKG************
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FSLPALEHNESVAAAAQRRRMSHRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESHTGITEFD
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query323 2.2.26 [Sep-21-2011]
P35684389 60S ribosomal protein L3 yes no 0.938 0.778 0.881 1e-162
P22738390 60S ribosomal protein L3- yes no 0.938 0.776 0.887 1e-157
P17094389 60S ribosomal protein L3- no no 0.938 0.778 0.874 1e-156
P21531 403 60S ribosomal protein L3 yes no 0.897 0.719 0.718 1e-127
P39023 403 60S ribosomal protein L3 yes no 0.897 0.719 0.718 1e-127
Q8NKF4392 60S ribosomal protein L3 yes no 0.928 0.765 0.706 1e-127
P27659 403 60S ribosomal protein L3 yes no 0.897 0.719 0.714 1e-126
P39872 403 60S ribosomal protein L3 yes no 0.897 0.719 0.704 1e-125
Q4R5Q0 403 60S ribosomal protein L3 N/A no 0.897 0.719 0.711 1e-124
P59671392 60S ribosomal protein L3 N/A no 0.928 0.765 0.686 1e-124
>sp|P35684|RL3_ORYSJ 60S ribosomal protein L3 OS=Oryza sativa subsp. japonica GN=RPL3 PE=2 SV=2 Back     alignment and function desciption
 Score =  572 bits (1475), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 267/303 (88%), Positives = 290/303 (95%)

Query: 21  MSHRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDV 80
           MSHRKFEHPRHGSLGFLPRKR++RHRGKVK+FPKDD SKPC LT+F+GYKAGMTHIVR+V
Sbjct: 1   MSHRKFEHPRHGSLGFLPRKRSSRHRGKVKSFPKDDVSKPCHLTSFVGYKAGMTHIVREV 60

Query: 81  EKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYK 140
           EKPGSKLHKKETCEAVTIIETPP+++VG+V YVKTPRGLRSLN+VWAQHLSEEVRRRFYK
Sbjct: 61  EKPGSKLHKKETCEAVTIIETPPLVIVGLVAYVKTPRGLRSLNSVWAQHLSEEVRRRFYK 120

Query: 141 NWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAH 200
           NWCKSKKKAFTKY+ +Y++D GKK IQ QLEK+KKYAS+VRV+AHTQIRKMKGLKQKKAH
Sbjct: 121 NWCKSKKKAFTKYALKYDSDAGKKEIQMQLEKMKKYASIVRVIAHTQIRKMKGLKQKKAH 180

Query: 201 LMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTR 260
           LMEIQ+NGGTIA+KVDY Y FFEK+IPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTR
Sbjct: 181 LMEIQINGGTIADKVDYGYKFFEKEIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTR 240

Query: 261 LPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESHTGIT 320
           LPRKTHRGLRKVACIGAWHPARVS+TVARAGQNGYHHRTEMNKKVYK+GK GQESH   T
Sbjct: 241 LPRKTHRGLRKVACIGAWHPARVSYTVARAGQNGYHHRTEMNKKVYKIGKSGQESHAACT 300

Query: 321 EFD 323
           EFD
Sbjct: 301 EFD 303
The L3 protein is a component of the large subunit of cytoplasmic ribosomes.
Oryza sativa subsp. japonica (taxid: 39947)
>sp|P22738|RL32_ARATH 60S ribosomal protein L3-2 OS=Arabidopsis thaliana GN=ARP2 PE=2 SV=4 Back     alignment and function description
>sp|P17094|RL31_ARATH 60S ribosomal protein L3-1 OS=Arabidopsis thaliana GN=ARP1 PE=2 SV=5 Back     alignment and function description
>sp|P21531|RL3_RAT 60S ribosomal protein L3 OS=Rattus norvegicus GN=Rpl3 PE=1 SV=3 Back     alignment and function description
>sp|P39023|RL3_HUMAN 60S ribosomal protein L3 OS=Homo sapiens GN=RPL3 PE=1 SV=2 Back     alignment and function description
>sp|Q8NKF4|RL3_ASPFU 60S ribosomal protein L3 OS=Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) GN=rpl3 PE=1 SV=2 Back     alignment and function description
>sp|P27659|RL3_MOUSE 60S ribosomal protein L3 OS=Mus musculus GN=Rpl3 PE=2 SV=3 Back     alignment and function description
>sp|P39872|RL3_BOVIN 60S ribosomal protein L3 OS=Bos taurus GN=RPL3 PE=2 SV=2 Back     alignment and function description
>sp|Q4R5Q0|RL3_MACFA 60S ribosomal protein L3 OS=Macaca fascicularis GN=RPL3 PE=2 SV=3 Back     alignment and function description
>sp|P59671|RL3_NEUCR 60S ribosomal protein L3 OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=rpl-3 PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query323
296081197 449 unnamed protein product [Vitis vinifera] 0.950 0.683 0.941 1e-173
225460636397 PREDICTED: 60S ribosomal protein L3-like 0.950 0.773 0.941 1e-173
313586459389 60S ribosomal protein L3B [Hevea brasili 0.938 0.778 0.940 1e-171
147833564389 hypothetical protein VITISV_039858 [Viti 0.938 0.778 0.943 1e-171
313586457389 60S ribosomal protein L3A [Hevea brasili 0.938 0.778 0.940 1e-170
255566636389 60S ribosomal protein L3, putative [Rici 0.938 0.778 0.927 1e-169
82623411389 ribosomal protein L3-like [Solanum tuber 0.938 0.778 0.927 1e-168
350539715389 ribosomal protein L3 [Solanum lycopersic 0.938 0.778 0.927 1e-168
224066623389 predicted protein [Populus trichocarpa] 0.938 0.778 0.914 1e-167
37625023389 ribosomal protein L3A [Nicotiana tabacum 0.938 0.778 0.920 1e-167
>gi|296081197|emb|CBI18223.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  612 bits (1579), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 289/307 (94%), Positives = 303/307 (98%)

Query: 17  QRRRMSHRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHI 76
           +RRRMSHRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHI
Sbjct: 57  RRRRMSHRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHI 116

Query: 77  VRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRR 136
           VR+VEKPGSKLHKKETCEAVTI+ETPPM++VGVV YVKTPRGLRSLNTVWAQHLSEEV+R
Sbjct: 117 VREVEKPGSKLHKKETCEAVTIVETPPMVIVGVVAYVKTPRGLRSLNTVWAQHLSEEVKR 176

Query: 137 RFYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQ 196
           RFYKNWCKSKKKAFTKYSKQYET+EGKKSIQAQLEK+KKYASV+RVLAHTQIRKMKGLKQ
Sbjct: 177 RFYKNWCKSKKKAFTKYSKQYETEEGKKSIQAQLEKMKKYASVIRVLAHTQIRKMKGLKQ 236

Query: 197 KKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRW 256
           KKAHLMEIQVNGGTIA+KVDYAYGFFEKQ+PVDA+FQKDEMIDIIGVTKGKGYEGVVTRW
Sbjct: 237 KKAHLMEIQVNGGTIAQKVDYAYGFFEKQVPVDAIFQKDEMIDIIGVTKGKGYEGVVTRW 296

Query: 257 GVTRLPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESH 316
           GVTRLPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKK+YKLGK  QESH
Sbjct: 297 GVTRLPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKIEQESH 356

Query: 317 TGITEFD 323
           T +TEFD
Sbjct: 357 TALTEFD 363

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225460636|ref|XP_002265125.1| PREDICTED: 60S ribosomal protein L3-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|313586459|gb|ADR71240.1| 60S ribosomal protein L3B [Hevea brasiliensis] Back     alignment and taxonomy information
>gi|147833564|emb|CAN63848.1| hypothetical protein VITISV_039858 [Vitis vinifera] Back     alignment and taxonomy information
>gi|313586457|gb|ADR71239.1| 60S ribosomal protein L3A [Hevea brasiliensis] Back     alignment and taxonomy information
>gi|255566636|ref|XP_002524302.1| 60S ribosomal protein L3, putative [Ricinus communis] gi|223536393|gb|EEF38042.1| 60S ribosomal protein L3, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|82623411|gb|ABB87120.1| ribosomal protein L3-like [Solanum tuberosum] Back     alignment and taxonomy information
>gi|350539715|ref|NP_001233997.1| ribosomal protein L3 [Solanum lycopersicum] gi|38327504|gb|AAR17783.1| ribosomal protein L3 [Solanum lycopersicum] Back     alignment and taxonomy information
>gi|224066623|ref|XP_002302168.1| predicted protein [Populus trichocarpa] gi|118483469|gb|ABK93633.1| unknown [Populus trichocarpa] gi|222843894|gb|EEE81441.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|37625023|gb|AAQ96335.1| ribosomal protein L3A [Nicotiana tabacum] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query323
TAIR|locus:2018605389 RP1 "ribosomal protein 1" [Ara 0.938 0.778 0.818 2.4e-138
TAIR|locus:2200873390 RPL3B "R-protein L3 B" [Arabid 0.938 0.776 0.821 7.4e-137
CGD|CAL0006304389 RPL3 [Candida albicans (taxid: 0.925 0.768 0.656 5.7e-107
UNIPROTKB|Q59LS1389 RPL3 "Likely cytosolic ribosom 0.925 0.768 0.656 5.7e-107
UNIPROTKB|F1NEM8 403 RPL3 "Uncharacterized protein" 0.900 0.722 0.654 6.5e-106
UNIPROTKB|F1NLW1 402 RPL3 "Uncharacterized protein" 0.900 0.723 0.654 6.5e-106
UNIPROTKB|P39023 403 RPL3 "60S ribosomal protein L3 0.897 0.719 0.652 1.4e-105
RGD|735105 403 Rpl3 "ribosomal protein L3" [R 0.897 0.719 0.652 1.4e-105
ASPGD|ASPL0000001032392 rpl3 [Emericella nidulans (tax 0.928 0.765 0.636 2.2e-105
UNIPROTKB|J9P6X5 403 RPL3 "Uncharacterized protein" 0.897 0.719 0.646 9.5e-105
TAIR|locus:2018605 RP1 "ribosomal protein 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1354 (481.7 bits), Expect = 2.4e-138, P = 2.4e-138
 Identities = 248/303 (81%), Positives = 272/303 (89%)

Query:    21 MSHRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDV 80
             MSHRKFEHPRHGSLGFLPRKRA RHRGKVKAFPKDD +KPC+ TAF+GYKAGMTHIVR+V
Sbjct:     1 MSHRKFEHPRHGSLGFLPRKRANRHRGKVKAFPKDDQTKPCKFTAFMGYKAGMTHIVREV 60

Query:    81 EKPGSKLHKKETCEAVTIIETXXXXXXXXXXYVKTPRGLRSLNTVWAQHLSEEVRRRFYK 140
             EKPGSKLHKKETCEAVTIIET          YVKTPRGLRSLNTVWAQHLSEEVRRRFYK
Sbjct:    61 EKPGSKLHKKETCEAVTIIETPAMVVVGVVAYVKTPRGLRSLNTVWAQHLSEEVRRRFYK 120

Query:   141 NWCXXXXXXXXXXXXQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAH 200
             NW             QY++++GKK IQAQLEK+KKYA+V+RVLAHTQIRKMKGLKQKKAH
Sbjct:   121 NWAKSKKKAFTGYAKQYDSEDGKKGIQAQLEKMKKYATVIRVLAHTQIRKMKGLKQKKAH 180

Query:   201 LMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTR 260
             +MEIQ+NGGTIA+KVD+AY FFEKQIP++AVFQKDEMIDIIGVTKGKGYEGVVTRWGVTR
Sbjct:   181 MMEIQINGGTIAQKVDFAYSFFEKQIPIEAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTR 240

Query:   261 LPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESHTGIT 320
             LPRKTHRGLRKVACIGAWHPARVS+TVARAGQNGYHHRTE+NKK+Y+LGK G E+HT +T
Sbjct:   241 LPRKTHRGLRKVACIGAWHPARVSYTVARAGQNGYHHRTELNKKIYRLGKVGTEAHTAMT 300

Query:   321 EFD 323
             E+D
Sbjct:   301 EYD 303
GO:0003735 "structural constituent of ribosome" evidence=IEA;ISS
GO:0005622 "intracellular" evidence=IEA
GO:0005737 "cytoplasm" evidence=ISM
GO:0005840 "ribosome" evidence=IEA;ISS
GO:0006412 "translation" evidence=IEA;ISS
GO:0009793 "embryo development ending in seed dormancy" evidence=NAS
GO:0005773 "vacuole" evidence=IDA
GO:0005730 "nucleolus" evidence=IDA
GO:0022626 "cytosolic ribosome" evidence=IDA
GO:0005618 "cell wall" evidence=IDA
GO:0005774 "vacuolar membrane" evidence=IDA
GO:0005886 "plasma membrane" evidence=IDA
GO:0016020 "membrane" evidence=IDA
GO:0022625 "cytosolic large ribosomal subunit" evidence=IDA;TAS
GO:0005829 "cytosol" evidence=IDA
GO:0009506 "plasmodesma" evidence=IDA
GO:0005794 "Golgi apparatus" evidence=RCA
GO:0001510 "RNA methylation" evidence=RCA
TAIR|locus:2200873 RPL3B "R-protein L3 B" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
CGD|CAL0006304 RPL3 [Candida albicans (taxid:5476)] Back     alignment and assigned GO terms
UNIPROTKB|Q59LS1 RPL3 "Likely cytosolic ribosomal protein L3" [Candida albicans SC5314 (taxid:237561)] Back     alignment and assigned GO terms
UNIPROTKB|F1NEM8 RPL3 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|F1NLW1 RPL3 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|P39023 RPL3 "60S ribosomal protein L3" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
RGD|735105 Rpl3 "ribosomal protein L3" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
ASPGD|ASPL0000001032 rpl3 [Emericella nidulans (taxid:162425)] Back     alignment and assigned GO terms
UNIPROTKB|J9P6X5 RPL3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms

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) ?
Q6FTJ2RL3_CANGANo assigned EC number0.68640.92560.7726yesno
P35684RL3_ORYSJNo assigned EC number0.88110.93800.7789yesno
C5A286RL3_THEGJNo assigned EC number0.37950.86370.8063yesno
P36584RL3B_SCHPONo assigned EC number0.71940.92560.7706yesno
A6UQJ0RL3_METVSNo assigned EC number0.39380.82970.8023yesno
A4FVY2RL3_METM5No assigned EC number0.37320.82970.8023yesno
P39872RL3_BOVINNo assigned EC number0.70440.89780.7196yesno
A6VHD2RL3_METM7No assigned EC number0.37670.82970.8023yesno
Q9UWG2RL3_METVANo assigned EC number0.39380.82970.8023yesno
Q8SQI3RL3_ENCCUNo assigned EC number0.51630.89780.7571yesno
Q6BXM5RL3_DEBHANo assigned EC number0.70290.92560.7686yesno
Q4R5Q0RL3_MACFANo assigned EC number0.71130.89780.7196N/Ano
P22738RL32_ARATHNo assigned EC number0.88770.93800.7769yesno
P20279RL3_HALMANo assigned EC number0.34690.84520.8076yesno
P39023RL3_HUMANNo assigned EC number0.71820.89780.7196yesno
Q8NKF4RL3_ASPFUNo assigned EC number0.70620.92870.7653yesno
O28354RL3_ARCFUNo assigned EC number0.38690.82660.8066yesno
P40372RL3A_SCHPONo assigned EC number0.71610.92560.7706yesno
P50880RL3_CAEELNo assigned EC number0.65350.93490.7531yesno
A9A9B8RL3_METM6No assigned EC number0.37320.82970.8023yesno
P14126RL3_YEASTNo assigned EC number0.69630.92560.7726yesno
P34113RL3_DICDINo assigned EC number0.69480.93490.7587yesno
Q759R7RL3_ASHGONo assigned EC number0.70620.92560.7726yesno
Q975I1RL3_SULTONo assigned EC number0.36540.85440.8046yesno
O16797RL3_DROMENo assigned EC number0.68380.89780.6971yesno
Q6LX10RL3_METMPNo assigned EC number0.37320.82970.8023yesno
P27659RL3_MOUSENo assigned EC number0.71470.89780.7196yesno
Q3IMY8RL3_NATPDNo assigned EC number0.34890.85440.8214yesno
Q6CJR7RL3_KLULANo assigned EC number0.67980.92560.7726yesno
P21531RL3_RATNo assigned EC number0.71820.89780.7196yesno

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:
GSVIVG00031743001
SubName- Full=Putative uncharacterized protein (Chromosome chr18 scaffold_59, whole genome shotgun sequence); (389 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00018552001
SubName- Full=Chromosome chr13 scaffold_17, whole genome shotgun sequence; (155 aa)
•  •••• 0.987
GSVIVG00024826001
SubName- Full=Chromosome chr6 scaffold_3, whole genome shotgun sequence; (405 aa)
• ••••• 0.986
GSVIVG00023068001
SubName- Full=Chromosome chr8 scaffold_29, whole genome shotgun sequence; (406 aa)
• ••••• 0.986
GSVIVG00025575001
SubName- Full=Chromosome chr8 scaffold_34, whole genome shotgun sequence; (307 aa)
•  •••• 0.961
GSVIVG00019030001
SubName- Full=Chromosome chr15 scaffold_19, whole genome shotgun sequence; (103 aa)
   •••• 0.940
GSVIVG00023867001
SubName- Full=Chromosome chr7 scaffold_31, whole genome shotgun sequence; (118 aa)
•  •••• 0.920
GSVIVG00036802001
SubName- Full=Chromosome chr4 scaffold_83, whole genome shotgun sequence; (260 aa)
•  •••• 0.920
GSVIVG00027466001
SubName- Full=Chromosome chr19 scaffold_4, whole genome shotgun sequence; (260 aa)
•  •••• 0.920
GSVIVG00026101001
SubName- Full=Putative uncharacterized protein (Chromosome chr12 scaffold_36, whole genome shot [...] (260 aa)
•  •••• 0.915
GSVIVG00034206001
SubName- Full=Putative uncharacterized protein (Chromosome chr9 scaffold_7, whole genome shotgu [...] (129 aa)
•  •••  0.914

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query323
PTZ00103390 PTZ00103, PTZ00103, 60S ribosomal protein L3; Prov 0.0
PRK04231337 PRK04231, rpl3p, 50S ribosomal protein L3P; Review 2e-93
TIGR03626330 TIGR03626, L3_arch, archaeal ribosomal protein L3 7e-87
pfam00297199 pfam00297, Ribosomal_L3, Ribosomal protein L3 2e-69
COG0087218 COG0087, RplC, Ribosomal protein L3 [Translation, 3e-46
PRK00001210 PRK00001, rplC, 50S ribosomal protein L3; Validate 1e-05
TIGR03625202 TIGR03625, L3_bact, 50S ribosomal protein L3, bact 4e-05
>gnl|CDD|240267 PTZ00103, PTZ00103, 60S ribosomal protein L3; Provisional Back     alignment and domain information 
 Score =  527 bits (1359), Expect = 0.0
 Identities = 218/303 (71%), Positives = 258/303 (85%), Gaps = 5/303 (1%)

Query: 21  MSHRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDV 80
           MSHRKFEHPRHGSLGFLPRKR  RHRG++++FPKDDP++P  LTAF+GYKAGMTHIVRDV
Sbjct: 1   MSHRKFEHPRHGSLGFLPRKRCRRHRGRIRSFPKDDPTQPPHLTAFMGYKAGMTHIVRDV 60

Query: 81  EKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYK 140
           ++PGSKLHKKE  EAVTIIE PPM+VVG+VGY +TPRGLR+L TVWA HLS+E RRRFYK
Sbjct: 61  DRPGSKLHKKEVVEAVTIIEAPPMVVVGIVGYRETPRGLRALTTVWAHHLSDEFRRRFYK 120

Query: 141 NWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAH 200
           NW KSKKKAFTKY K   T   KK+ +  L++IKKY SV+RV+AHTQ  K+  L QKKAH
Sbjct: 121 NWYKSKKKAFTKYKKFAAT---KKAEERTLKRIKKYCSVIRVIAHTQPSKLP-LGQKKAH 176

Query: 201 LMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTR 260
           +MEIQVNGG++AEKVD+A    EK++PVD+VFQ++EMID+IGVTKG G+EGVV RWGVTR
Sbjct: 177 VMEIQVNGGSVAEKVDFAKSLLEKEVPVDSVFQQNEMIDVIGVTKGHGFEGVVKRWGVTR 236

Query: 261 LPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESHTGIT 320
           LPRKTHRGLRKVACIGAWHPARV +TV RAGQ+GYHHRTE+NKK+Y++G    + +   T
Sbjct: 237 LPRKTHRGLRKVACIGAWHPARVQYTVPRAGQHGYHHRTELNKKIYRIGVAE-DPNNATT 295

Query: 321 EFD 323
           E D
Sbjct: 296 EAD 298

Length = 390
>gnl|CDD|235260 PRK04231, rpl3p, 50S ribosomal protein L3P; Reviewed Back     alignment and domain information
>gnl|CDD|234286 TIGR03626, L3_arch, archaeal ribosomal protein L3 Back     alignment and domain information
>gnl|CDD|144036 pfam00297, Ribosomal_L3, Ribosomal protein L3 Back     alignment and domain information
>gnl|CDD|223165 COG0087, RplC, Ribosomal protein L3 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|234564 PRK00001, rplC, 50S ribosomal protein L3; Validated Back     alignment and domain information
>gnl|CDD|234285 TIGR03625, L3_bact, 50S ribosomal protein L3, bacterial Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 323
PTZ00103390 60S ribosomal protein L3; Provisional 100.0
PRK04231337 rpl3p 50S ribosomal protein L3P; Reviewed 100.0
TIGR03626330 L3_arch archaeal ribosomal protein L3. This model 100.0
KOG0746384 consensus 60S ribosomal protein L3 and related pro 100.0
PF00297263 Ribosomal_L3: Ribosomal protein L3; InterPro: IPR0 100.0
COG0087218 RplC Ribosomal protein L3 [Translation, ribosomal 100.0
TIGR03625202 L3_bact 50S ribosomal protein L3, bacterial. This 100.0
CHL00143207 rpl3 ribosomal protein L3; Validated 100.0
PRK00001210 rplC 50S ribosomal protein L3; Validated 100.0
KOG3141310 consensus Mitochondrial/chloroplast ribosomal prot 100.0
KOG0746384 consensus 60S ribosomal protein L3 and related pro 87.98
>PTZ00103 60S ribosomal protein L3; Provisional Back     alignment and domain information 
Probab=100.00  E-value=1.7e-122  Score=896.21  Aligned_cols=298  Identities=73%  Similarity=1.221  Sum_probs=284.8

Q ss_pred             cCCCCCCCCCCCCCCcCCcccccccCCccccCCCCCCCCCceeeeeeEEeecceEEEeccCCCCCcCCCCcEEEeeEEEE
Q 038172           21 MSHRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIE  100 (323)
Q Consensus        21 mshrkf~~PR~GSl~f~PrKRa~~~~~~vrs~P~~~~~~~~~l~gf~GyKaGMThv~~~ddr~~s~~~~kev~~pVTVlE  100 (323)
                      |||||||+||||||||+|||||++++|+|||||+||.+.+|||+||+|||||||||+++||+|+|+++||||++||||||
T Consensus         1 MshRk~~~PR~GSLgf~PRKRa~~~~~rvrswP~dd~~~~p~L~aF~GyKAGMTHvv~~~drp~S~~~~kEv~~~VTIiE   80 (390)
T PTZ00103          1 MSHRKFEHPRHGSLGFLPRKRCRRHRGRIRSFPKDDPTQPPHLTAFMGYKAGMTHIVRDVDRPGSKLHKKEVVEAVTIIE   80 (390)
T ss_pred             CCCCCCCCCCCCcCCcCCccccccCCCCcccCCCcCCCCCceEeeeeeeccCCeEEEEecCCCCCCcCCCeEEeeeEEEe
Confidence            99999999999999999999999999999999999987889999999999999999999999999999999999999999


Q ss_pred             eCCeEEEEEEeeeeCCCCcccceEEeccccchhHhhhhccccchhhhhhchhcccccccccchhhhHHHHHHhhccceEE
Q 038172          101 TPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVV  180 (323)
Q Consensus       101 ~pP~~Vvgi~gY~kt~~Gl~~~~~vwa~~l~~~~~Rr~~k~~y~s~~~~~~~~~k~~~~~~~~k~~~~~l~~~~~~~~~i  180 (323)
                      ||||+|+|+|||.+||+||++|+||||+||++||+||||||||+|+++||+++.+++++   .+++++.++.|+++|++|
T Consensus        81 tPPm~V~GirgY~~tp~Gl~~l~~vwA~~l~~e~~rr~yk~~~~s~k~af~k~~~~~~~---~~~~~~~~~~l~k~~~~I  157 (390)
T PTZ00103         81 APPMVVVGIVGYRETPRGLRALTTVWAHHLSDEFRRRFYKNWYKSKKKAFTKYKKFAAT---KKAEERTLKRIKKYCSVI  157 (390)
T ss_pred             CCCeEEEEEEEEEECCCCcEEeEEEeeccCcHHHhhhhccccchhhhhhhhhhhhhhcc---hhhHHHHHHHHhhcccEE
Confidence            99999999999999999999999999999999999999999999999999998765432   245678888888999999


Q ss_pred             EeehhhhhhhccCcccCCceEEEEEecCCcchhhhhhhhcCCCcccCcccccCCCceEEEEEEecccccccceeeeccCC
Q 038172          181 RVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTR  260 (323)
Q Consensus       181 rvi~~tq~~k~~gl~~kk~~i~Ei~V~gg~~~~~~~~a~~~lGk~i~v~dvF~~Ge~VDVigvTKGKGFqGvvKRwG~~~  260 (323)
                      |||+||||++++ |+||||||||||||||+++++||||+++||++|+++|||++||+|||||+|||||||||||||||++
T Consensus       158 Rvi~hTqp~~~~-l~kKkp~imEiqv~GGsv~~k~d~a~~llgk~i~v~dvF~~ge~VDVigvTKGKGfqGvvKRwg~~~  236 (390)
T PTZ00103        158 RVIAHTQPSKLP-LGQKKAHVMEIQVNGGSVAEKVDFAKSLLEKEVPVDSVFQQNEMIDVIGVTKGHGFEGVVKRWGVTR  236 (390)
T ss_pred             EEEEEcchhhcC-cCCcCccEEEEeecCCCHHHHHHHHHHHhcCeechhhhccCCCEeeeEEEEcCCccccCeeccccCC
Confidence            999999999998 9999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCCCCCCccccCCCCCCccCCCCCCCCCCCceEEEeeeEEEEEcCCCCccCCCCCCCC
Q 038172          261 LPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESHTGITEFD  323 (323)
Q Consensus       261 ~prkthk~~RkvGsiG~~~P~rV~~~v~~aGQmG~h~rTe~NkrI~kIg~~~~~~~~~~t~~d  323 (323)
                      +|+++|++||++||||+|||+||+|+++||||||||+|||+||+||+||.+.+. .+++|+||
T Consensus       237 ~p~ktH~~~RkvGsiG~w~P~RV~~~v~~aGQmG~h~rTe~Nk~I~rI~~~~~~-~~~~t~~~  298 (390)
T PTZ00103        237 LPRKTHRGLRKVACIGAWHPARVQYTVPRAGQHGYHHRTELNKKIYRIGVAEDP-NNATTEAD  298 (390)
T ss_pred             CCccccCCCCCCCccCCCCCCcccCCCccCcCCCCceEEEeccEEEEEcCCCCc-cccccccc
Confidence            998899999999999999999999999999999999999999999999986544 57777776

>PRK04231 rpl3p 50S ribosomal protein L3P; Reviewed Back     alignment and domain information
>TIGR03626 L3_arch archaeal ribosomal protein L3 Back     alignment and domain information
>KOG0746 consensus 60S ribosomal protein L3 and related proteins [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF00297 Ribosomal_L3: Ribosomal protein L3; InterPro: IPR000597 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>COG0087 RplC Ribosomal protein L3 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR03625 L3_bact 50S ribosomal protein L3, bacterial Back     alignment and domain information
>CHL00143 rpl3 ribosomal protein L3; Validated Back     alignment and domain information
>PRK00001 rplC 50S ribosomal protein L3; Validated Back     alignment and domain information
>KOG3141 consensus Mitochondrial/chloroplast ribosomal protein L3 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG0746 consensus 60S ribosomal protein L3 and related proteins [Translation, ribosomal structure and biogenesis] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query323
3izr_C389 Localization Of The Large Subunit Ribosomal Protein 1e-149
2zkr_b 403 Structure Of A Mammalian Ribosomal 60s Subunit With 1e-112
3o58_C387 Yeast 80s Ribosome. This Entry Consists Of The 60s 1e-104
3izs_C388 Localization Of The Large Subunit Ribosomal Protein 1e-104
1s1i_C386 Structure Of The Ribosomal 80s-Eef2-Sordarin Comple 1e-103
3jyw_C362 Structure Of The 60s Proteins For Eukaryotic Riboso 1e-101
3zf7_f 429 High-resolution Cryo-electron Microscopy Structure 1e-94
4a17_B391 T.Thermophila 60s Ribosomal Subunit In Complex With 1e-89
1s72_B338 Refined Crystal Structure Of The Haloarcula Marismo 9e-41
1jj2_B337 Fully Refined Crystal Structure Of The Haloarcula M 1e-40
1ml5_e338 Crystal Structure Of The Ribosome At 5.5 A Resoluti 2e-40
1ffk_B337 Crystal Structure Of The Large Ribosomal Subunit Fr 2e-40
3j21_C365 Promiscuous Behavior Of Proteins In Archaeal Riboso 3e-38
>pdb|3IZR|C Chain C, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 389 Back     alignment and structure 
Iteration: 1

 Score =  525 bits (1351), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 247/303 (81%), Positives = 268/303 (88%)
Query: 21  MSHRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDV 80
           MSHRKFEHPRHGSLGFLPRKR +RHRGKVK+FPKDD  KPC LTAFLGYKAGMTHIVR+V
Sbjct: 1   MSHRKFEHPRHGSLGFLPRKRCSRHRGKVKSFPKDDQQKPCHLTAFLGYKAGMTHIVREV 60
Query: 81  EKPGSKLHKKETCEAVTIIETXXXXXXXXXXYVKTPRGLRSLNTVWAQHLSEEVRRRFYK 140
           EKPGSKLHKKETCEAVTIIET          YVKTPRGLR+LN+VWAQHLSE+VRRRFYK
Sbjct: 61  EKPGSKLHKKETCEAVTIIETPPLVIVGLVAYVKTPRGLRTLNSVWAQHLSEDVRRRFYK 120
Query: 141 NWCXXXXXXXXXXXXQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAH 200
           NWC            +Y++D GKK IQ QLEK+KKYA++VRV+AHTQIRKMKGLKQKKAH
Sbjct: 121 NWCKSKKKAFTKYALKYDSDAGKKEIQLQLEKMKKYATIVRVIAHTQIRKMKGLKQKKAH 180
Query: 201 LMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTR 260
           LMEIQVNGGTIA+KVDY Y FFEK++PV+AVFQKDEM+DIIGVTKGKGYEGVVTRWGVTR
Sbjct: 181 LMEIQVNGGTIADKVDYGYKFFEKEVPVEAVFQKDEMVDIIGVTKGKGYEGVVTRWGVTR 240
Query: 261 LPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESHTGIT 320
           LPRKTHRGLRKVACIGAWHPARVS+TVARAGQNGYHHRTEMNKK+YK+GK GQESH   T
Sbjct: 241 LPRKTHRGLRKVACIGAWHPARVSYTVARAGQNGYHHRTEMNKKIYKMGKSGQESHEACT 300
Query: 321 EFD 323
           EFD
Sbjct: 301 EFD 303
>pdb|2ZKR|BB Chain b, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 403 Back     alignment and structure
>pdb|3O58|C Chain C, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit Of The First 80s In The Asymmetric Unit. Length = 387 Back     alignment and structure
>pdb|3IZS|C Chain C, Localization Of The Large Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 388 Back     alignment and structure
>pdb|1S1I|C Chain C, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is In File 1s1h Length = 386 Back     alignment and structure
>pdb|3JYW|C Chain C, Structure Of The 60s Proteins For Eukaryotic Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 362 Back     alignment and structure
>pdb|3ZF7|FF Chain f, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 429 Back     alignment and structure
>pdb|4A17|B Chain B, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 5s Rrna, 5.8s Rrna And Proteins Of Molecule 2. Length = 391 Back     alignment and structure
>pdb|1S72|B Chain B, Refined Crystal Structure Of The Haloarcula Marismortui Large Ribosomal Subunit At 2.4 Angstrom Resolution Length = 338 Back     alignment and structure
>pdb|1JJ2|B Chain B, Fully Refined Crystal Structure Of The Haloarcula Marismortui Large Ribosomal Subunit At 2.4 Angstrom Resolution Length = 337 Back     alignment and structure
>pdb|1ML5|EE Chain e, Structure Of The E. Coli Ribosomal Termination Complex With Release Factor 2 Length = 338 Back     alignment and structure
>pdb|1FFK|B Chain B, Crystal Structure Of The Large Ribosomal Subunit From Haloarcula Marismortui At 2.4 Angstrom Resolution Length = 337 Back     alignment and structure
>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 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query323
3iz5_C389 60S ribosomal protein L3 (L3P); eukaryotic ribosom 1e-126
2zkr_b403 60S ribosomal protein L3; protein-RNA complex, 60S 1e-119
3u5e_B387 60S ribosomal protein L3; translation, ribosome, r 1e-113
4a17_B391 RPL3, ribosomal protein L3; eukaryotic ribosome, r 1e-113
1vq8_B338 50S ribosomal protein L3P; ribosome 50S, protein-p 1e-105
2ftc_C211 L3MT, MRP-L3, mitochondrial 39S ribosomal protein 2e-08
3r8s_D209 50S ribosomal protein L3; protein biosynthesis, RN 3e-07
3v2d_E206 50S ribosomal protein L3; ribosome associated inhi 4e-07
2zjr_B211 50S ribosomal protein L3; ribosome, large ribosoma 6e-07
3bbo_F259 Ribosomal protein L3; large ribosomal subunit, spi 7e-07
>2zkr_b 60S ribosomal protein L3; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 403 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>2ftc_C L3MT, MRP-L3, mitochondrial 39S ribosomal protein L3; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} Length = 211 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>3bbo_F Ribosomal protein L3; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 259 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query323
3iz5_C389 60S ribosomal protein L3 (L3P); eukaryotic ribosom 100.0
3u5e_B387 60S ribosomal protein L3; translation, ribosome, r 100.0
4a17_B391 RPL3, ribosomal protein L3; eukaryotic ribosome, r 100.0
2zkr_b403 60S ribosomal protein L3; protein-RNA complex, 60S 100.0
3j21_C365 50S ribosomal protein L3P; archaea, archaeal, KINK 100.0
1vq8_B338 50S ribosomal protein L3P; ribosome 50S, protein-p 100.0
2zjr_B211 50S ribosomal protein L3; ribosome, large ribosoma 100.0
3bbo_F259 Ribosomal protein L3; large ribosomal subunit, spi 100.0
2ftc_C211 L3MT, MRP-L3, mitochondrial 39S ribosomal protein 100.0
3r8s_D209 50S ribosomal protein L3; protein biosynthesis, RN 100.0
3v2d_E206 50S ribosomal protein L3; ribosome associated inhi 100.0
>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 Back     alignment and structure
>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 Back     alignment and structure
>2zkr_b 60S ribosomal protein L3; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Back     alignment and structure
>3j21_C 50S ribosomal protein L3P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>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* ... Back     alignment and structure
>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 ... Back     alignment and structure
>3bbo_F Ribosomal protein L3; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Back     alignment and structure
>2ftc_C L3MT, MRP-L3, mitochondrial 39S ribosomal protein L3; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} Back     alignment and structure
>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 ... Back     alignment and structure
>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 ... Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 323
d1vqob1337 b.43.3.2 (B:1-337) Ribosomal protein L3 {Archaeon 3e-86
d2gycb1209 b.43.3.2 (B:1-209) Ribosomal protein L3 {Escherich 8e-19
d2j01e1205 b.43.3.2 (E:1-205) Ribosomal protein L3 {Thermus t 5e-14
d2j01e1205 b.43.3.2 (E:1-205) Ribosomal protein L3 {Thermus t 2e-05
d2zjrb1205 b.43.3.2 (B:1-205) Ribosomal protein L3 {Deinococc 4e-12
>d1vqob1 b.43.3.2 (B:1-337) Ribosomal protein L3 {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 337 Back     information, alignment and structure

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 =  260 bits (666), Expect = 3e-86
 Identities = 100/298 (33%), Positives = 150/298 (50%), Gaps = 21/298 (7%)

Query: 25  KFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPG 84
           +   PR GSLGF PRKR+     +  ++P DD      +  F GYKAGMTH+V   ++P 
Sbjct: 2   QPSRPRKGSLGFGPRKRSTSETPRFNSWPSDDGQP--GVQGFAGYKAGMTHVVLVNDEPN 59

Query: 85  SKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCK 144
           S     E    VT+IETPPM  V +  Y  TP G R L  VW      E+ R        
Sbjct: 60  SPREGMEETVPVTVIETPPMRAVALRAYEDTPYGQRPLTEVWTDEFHSELDRTLDVPEDH 119

Query: 145 SKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEI 204
               A  +    +E                     +R++ HT    +  + +KK  +ME 
Sbjct: 120 DPDAAEEQIRDAHE---------------AGDLGDLRLITHTVPDAVPSVPKKKPDVMET 164

Query: 205 QVNGGTIAEKVDYAYGFFE--KQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLP 262
           +V GG++++++D+A    E   +  ++ +F+  E  D+ GVTKGKG +G V RWGV +  
Sbjct: 165 RVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRK 224

Query: 263 RKTHRG--LRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESHTG 318
            K  R    R++  +G W+P+RV  TV + GQ GYH RTE+NK++  +G+G + +  G
Sbjct: 225 GKHARQGWRRRIGNLGPWNPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEGDEPTVDG 282
>d2gycb1 b.43.3.2 (B:1-209) Ribosomal protein L3 {Escherichia coli [TaxId: 562]} Length = 209 Back     information, alignment and structure
>d2j01e1 b.43.3.2 (E:1-205) Ribosomal protein L3 {Thermus thermophilus [TaxId: 274]} Length = 205 Back     information, alignment and structure
>d2j01e1 b.43.3.2 (E:1-205) Ribosomal protein L3 {Thermus thermophilus [TaxId: 274]} Length = 205 Back     information, alignment and structure
>d2zjrb1 b.43.3.2 (B:1-205) Ribosomal protein L3 {Deinococcus radiodurans [TaxId: 1299]} Length = 205 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query323
d1vqob1337 Ribosomal protein L3 {Archaeon Haloarcula marismor 100.0
d2gycb1209 Ribosomal protein L3 {Escherichia coli [TaxId: 562 100.0
d2zjrb1205 Ribosomal protein L3 {Deinococcus radiodurans [Tax 100.0
d2j01e1205 Ribosomal protein L3 {Thermus thermophilus [TaxId: 100.0
>d1vqob1 b.43.3.2 (B:1-337) Ribosomal protein L3 {Archaeon Haloarcula marismortui [TaxId: 2238]} Back     information, alignment and structure
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=2.8e-94  Score=692.91  Aligned_cols=273  Identities=36%  Similarity=0.637  Sum_probs=247.1

Q ss_pred             CCCCCCCCCCCcCCcccccccCCccccCCCCCCCCCceeeeeeEEeecceEEEeccCCCCCcCCCCcEEEeeEEEEeCCe
Q 038172           25 KFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPM  104 (323)
Q Consensus        25 kf~~PR~GSl~f~PrKRa~~~~~~vrs~P~~~~~~~~~l~gf~GyKaGMThv~~~ddr~~s~~~~kev~~pVTVlE~pP~  104 (323)
                      |+|+||||||||||||||++++|+|+|||+|+  .+|+|+||||||+||||||++||+++|+++|+|+++||||||+|||
T Consensus         2 k~~~PR~GSl~f~PRkRa~~~~~rv~s~p~~~--~~~~~~G~iG~KvGMT~v~~~d~~~~S~~~gk~i~vPVTVIe~~p~   79 (337)
T d1vqob1           2 QPSRPRKGSLGFGPRKRSTSETPRFNSWPSDD--GQPGVQGFAGYKAGMTHVVLVNDEPNSPREGMEETVPVTVIETPPM   79 (337)
T ss_dssp             CCCCCCSSCSSSCSCCCCSCSSCCCSCCCCSC--SSCEECCEEEEEEEEEEEEEECCCTTSTTTTSEEEEEEEEEECCCE
T ss_pred             CCCCCCcccCCcCccccccccCCCcccCcccC--CCcceEEEEEEccCceEEEEeCCCcCCcccCceeEeeeEEEEcCCc
Confidence            78999999999999999999999999999986  4689999999999999999999999999999999999999999999


Q ss_pred             EEEEEEeeeeCCCCcccceEEeccccchhHhhhhccccchhhhhhchhcccccccccchhhhHHHHHHhh--ccceEEEe
Q 038172          105 MVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIK--KYASVVRV  182 (323)
Q Consensus       105 ~Vvgi~gY~kt~~Gl~~~~~vwa~~l~~~~~Rr~~k~~y~s~~~~~~~~~k~~~~~~~~k~~~~~l~~~~--~~~~~irv  182 (323)
                      +|+|++.|.+|.+++.+|+++|++++++++.|++++.+....+.+                 .+.+..+.  +.|++||+
T Consensus        80 ~V~~vkt~e~dgy~a~qlg~~~~~~~~~~~~r~~~~~~~~~~k~~-----------------~~~~k~~~~~~~~~~vrv  142 (337)
T d1vqob1          80 RAVALRAYEDTPYGQRPLTEVWTDEFHSELDRTLDVPEDHDPDAA-----------------EEQIRDAHEAGDLGDLRL  142 (337)
T ss_dssp             EEEEEEEEEEETTEEEEEEEEECSCCCTTGGGTSCCCSSCCHHHH-----------------HHHHHHHHHHTCEEEEEE
T ss_pred             eEEEEEEEecCCCceEEEEEEEccccchhhhcccchhhccchhhc-----------------chhhhhhhhhcccceEEE
Confidence            999999999999999999999999999999998875432222111                 11222222  47899999


Q ss_pred             ehhhhhhhccCcccCCceEEEEEecCCcchhhhhhhhcCC--CcccCcccccCCCceEEEEEEecccccccceeeeccCC
Q 038172          183 LAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFF--EKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTR  260 (323)
Q Consensus       183 i~~tq~~k~~gl~~kk~~i~Ei~V~gg~~~~~~~~a~~~l--Gk~i~v~dvF~~Ge~VDVigvTKGKGFqGvvKRwG~~~  260 (323)
                      |+|||+.++.++++||+||+||+|+|++++++++||++.+  |++|+++|+|++||+|||+|+|||||||||||||||++
T Consensus       143 i~~tqp~~~~~~~~KKp~v~E~~v~Gg~~~e~~~~~~~~~~~G~ei~v~dvF~~G~~VDV~g~TKGKGFqGvvKR~gf~~  222 (337)
T d1vqob1         143 ITHTVPDAVPSVPKKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRWGVQK  222 (337)
T ss_dssp             EEECCGGGCTTSCCCSCCEEEEEEESSCHHHHHHHHHHHHHHTCEECGGGTCCTTCEEEEEEECCCCCEECHHHHHCCCC
T ss_pred             EeeeccccccccccccchheeeeccCCchhhhhhhhhhhhccccEEEeeheecCCCEEEEEEEecccccccceEeeeecc
Confidence            9999999999999999999999999999999999999987  89999999999999999999999999999999999999


Q ss_pred             CCCCCC---CCCCCCccccCCCCCCccCCCCCCCCCCCceEEEeeeEEEEEcCCCCccCCC
Q 038172          261 LPRKTH---RGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESHTG  318 (323)
Q Consensus       261 ~prkth---k~~RkvGsiG~~~P~rV~~~v~~aGQmG~h~rTe~NkrI~kIg~~~~~~~~~  318 (323)
                      +|+ +|   +.||++||||+|+|+|||||++||||||||+||++||+|++|+++ ++|||.
T Consensus       223 ~p~-sHg~~~~hR~~GsiG~~~PgRV~kg~kmaGqmG~~~rT~~Nl~IvkI~~~-~~i~~~  281 (337)
T d1vqob1         223 RKG-KHARQGWRRRIGNLGPWNPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEG-DEPTVD  281 (337)
T ss_dssp             CCG-GGGSSSCSSCCSCSCCSSSSSCCTTSCCCEECSCCEEEEEEEEEEEEEEE-STTCCT
T ss_pred             ccc-ccCCCccccCCcccCCCCCCceecccccCCccCCccEEEeCcEEEEEccc-cccccc
Confidence            995 55   469999999999999999999999999999999999999999863 344553
>d2gycb1 b.43.3.2 (B:1-209) Ribosomal protein L3 {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2zjrb1 b.43.3.2 (B:1-205) Ribosomal protein L3 {Deinococcus radiodurans [TaxId: 1299]} Back     information, alignment and structure
>d2j01e1 b.43.3.2 (E:1-205) Ribosomal protein L3 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure