Citrus Sinensis ID: 027746

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-------22
MALCRVRSASSTLFNRLLCPSVLNNNTTYRYQSSETELVGDPSKQEKPKKETVRDKIMRQMAHVDINSQIGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVRLPSGNEKLIDTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGGGEGRSKSSGNHGRCSLTPWGKPCKSGYKTASPKKKKKLAF
ccEEEEEcccccccccccccccccEEEccccccccEEcccccccEEcccccccccEEEcccccccccccccccccccccccccEEEEEEEccccccHHHHccccEEEEEEcccccEEEEEcccccEEEEcccccEEEEEEEcccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
cccEEEEEEEEEcccccccccEEEEEEEccccccEEEEcccEEEEEcccccccccEEEEcccccccccccccccccccccccEEEEEEEEcccccHHHHHHHcHHHHHEEcccccEEEEEcccccEEEEccccEEEEccEccccHHHcccccHHccccccccccccHHHccHHHccccccccccccccccccccccccccccccccccccccccccEEc
malcrvrsasstlfnrllcpsvlnnnttyryqssetelvgdpskqekpkkeTVRDKIMRQMAHVdinsqigscmplacmrigtiihnievnpgqggklVRAAgtsakilkeptssfclvrlpsgneklidtrcratigtvsnpshgAKKLRKAgqsrwlgrrpvvrgvamnpvdhphgggegrskssgnhgrcsltpwgkpcksgyktaspkkkkklaf
malcrvrsasstlfnrllcpsvlnNNTTYRyqssetelvgdpskqekpkketVRDKIMRQMAHvdinsqigSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSakilkeptssfclvrlpsgnekliDTRCRATigtvsnpshgakklrkagqsrwlgrrpvvrgvamnpvdhphgggegrskssgnhGRCSltpwgkpcksgyktaspkkkkklaf
MALCRVRSASSTLFNRLLCPSVLNNNTTYRYQSSETELVGDPSKQEKPKKETVRDKIMRQMAHVDINSQIGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVRLPSGNEKLIDTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGGGEGRSKSSGNHGRCSLTPWGKPCKSGYKTASPkkkkkLAF
**********STLFNRLLCPSVLNNNTTYRY****************************QMAHVDINSQIGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVRLPSGNEKLIDTRCRATIGTV*****************WL****V*******************************************************
*ALCRVRSASSTLFNRLLCPSVLNNNTTYRYQSSETELVGDPSKQEKPKKETVRDKIMRQMAHVDINSQIGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVRLPSGNEKLIDTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPH********************WGKPCKSGY**ASPK****LAF
*********SSTLFNRLLCPSVLNNNTTYRYQ*********************RDKIMRQMAHVDINSQIGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVRLPSGNEKLIDTRCRATIGTVS***************RWLGRRPVVRGVAMNPVDHPHG*************RCSLTPWGKPCK****************
*ALCRVRSASSTLFNRLLCPSVLNNNTTYRYQSSETELVGDPSKQEKPKKETVRDKIMRQMAHVDINSQIGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVRLPSGNEKLIDTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPH***************CSLTPWGKPCKSGYKT***********
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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SSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MALCRVRSASSTLFNRLLCPSVLNNNTTYRYQSSETELVGDPSKQEKPKKETVRDKIMRQMAHVDINSQIGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVRLPSGNEKLIDTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGGGEGRSKSSGNHGRCSLTPWGKPCKSGYKTASPKKKKKLAF
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 ?
Query219 2.2.26 [Sep-21-2011]
P92812502 60S ribosomal protein L2, yes no 0.680 0.296 0.629 1e-49
Q2F969502 60S ribosomal protein L2, N/A no 0.680 0.296 0.629 1e-49
P0C8K6502 60S ribosomal protein L2, yes no 0.680 0.296 0.629 1e-49
P26859501 60S ribosomal protein L2, N/A no 0.643 0.281 0.616 8e-44
B1YGV3276 50S ribosomal protein L2 yes no 0.662 0.525 0.526 2e-38
Q6HPQ5276 50S ribosomal protein L2 yes no 0.662 0.525 0.532 3e-38
Q63H87276 50S ribosomal protein L2 yes no 0.662 0.525 0.532 3e-38
B7HQU7276 50S ribosomal protein L2 yes no 0.662 0.525 0.532 3e-38
C1ET42276 50S ribosomal protein L2 yes no 0.662 0.525 0.532 3e-38
Q73F93276 50S ribosomal protein L2 yes no 0.662 0.525 0.532 3e-38
>sp|P92812|RM02_ORYSJ 60S ribosomal protein L2, mitochondrial OS=Oryza sativa subsp. japonica GN=RPL2 PE=2 SV=2 Back     alignment and function desciption
 Score =  196 bits (497), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 97/154 (62%), Positives = 122/154 (79%), Gaps = 5/154 (3%)

Query: 64  VDINSQIGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVRLPS 123
           +D+NS++G+ +PLA +R+GT +H+IE +PGQG KL RAAGT AKI+KEP S  CLVRLPS
Sbjct: 354 LDLNSKVGNSIPLADIRMGTWVHDIECHPGQGAKLARAAGTYAKIIKEPASQ-CLVRLPS 412

Query: 124 GNEKLIDTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGGGEGR 183
           G EKLID+RCRATIG VSNP+HGA+KLRKAGQSRW GRRP+VRGVAMNPVDHPH    G 
Sbjct: 413 GVEKLIDSRCRATIGIVSNPNHGARKLRKAGQSRWSGRRPIVRGVAMNPVDHPH----GG 468

Query: 184 SKSSGNHGRCSLTPWGKPCKSGYKTASPKKKKKL 217
            +     GR S++PWGKP K+G++      K+++
Sbjct: 469 GEGRTKGGRPSVSPWGKPTKAGFRAGVGVGKRRI 502

Oryza sativa subsp. japonica (taxid: 39947)
>sp|Q2F969|RM02_ORYSI 60S ribosomal protein L2, mitochondrial OS=Oryza sativa subsp. indica GN=RPL2 PE=2 SV=2 Back     alignment and function description
>sp|P0C8K6|RM02_ORYSA 60S ribosomal protein L2, mitochondrial OS=Oryza sativa GN=RPL2 PE=2 SV=1 Back     alignment and function description
>sp|P26859|RM02_MARPO 60S ribosomal protein L2, mitochondrial OS=Marchantia polymorpha GN=RPL2 PE=3 SV=2 Back     alignment and function description
>sp|B1YGV3|RL2_EXIS2 50S ribosomal protein L2 OS=Exiguobacterium sibiricum (strain DSM 17290 / JCM 13490 / 255-15) GN=rplB PE=3 SV=1 Back     alignment and function description
>sp|Q6HPQ5|RL2_BACHK 50S ribosomal protein L2 OS=Bacillus thuringiensis subsp. konkukian (strain 97-27) GN=rplB PE=3 SV=1 Back     alignment and function description
>sp|Q63H87|RL2_BACCZ 50S ribosomal protein L2 OS=Bacillus cereus (strain ZK / E33L) GN=rplB PE=3 SV=1 Back     alignment and function description
>sp|B7HQU7|RL2_BACC7 50S ribosomal protein L2 OS=Bacillus cereus (strain AH187) GN=rplB PE=3 SV=1 Back     alignment and function description
>sp|C1ET42|RL2_BACC3 50S ribosomal protein L2 OS=Bacillus cereus (strain 03BB102) GN=rplB PE=3 SV=1 Back     alignment and function description
>sp|Q73F93|RL2_BACC1 50S ribosomal protein L2 OS=Bacillus cereus (strain ATCC 10987) GN=rplB 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 ?
Query219
296084340204 unnamed protein product [Vitis vinifera] 0.931 1.0 0.725 1e-80
225434185193 PREDICTED: 60S ribosomal protein L2, mit 0.876 0.994 0.738 8e-78
17644114191 ribosomal protein L2 [Gossypium arboreum 0.867 0.994 0.717 9e-73
255586439241 50S ribosomal protein L2, putative [Rici 0.894 0.813 0.648 2e-70
297824397214 ribosomal protein L2 family protein [Ara 0.885 0.906 0.620 3e-68
21592449214 unknown [Arabidopsis thaliana] 0.885 0.906 0.620 1e-67
17644112202 ribosomal protein L2 [Solanum lycopersic 0.913 0.990 0.645 1e-67
18406440214 ribosomal protein L2-like protein [Arabi 0.885 0.906 0.620 2e-67
388502526192 unknown [Lotus japonicus] 0.821 0.937 0.675 8e-67
224141127159 predicted protein [Populus trichocarpa] 0.726 1.0 0.773 3e-66
>gi|296084340|emb|CBI24728.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  305 bits (780), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 156/215 (72%), Positives = 173/215 (80%), Gaps = 11/215 (5%)

Query: 1   MALCRVRSASSTLFNRLLCPSVLNNNTTYRYQSSETELVGDPSKQEKPKKETVRDKIMRQ 60
           MAL R R+ASSTL  RLL PSV N   ++R  SS          ++ P  +  R+ +M Q
Sbjct: 1   MALVRARAASSTLLKRLLFPSVAN--PSHRNLSSVA--------KDSPH-DAFRESMMNQ 49

Query: 61  MAHVDINSQIGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVR 120
           M  +DINSQIGSCMPLA MRIGTIIHNIE+NPGQGGKLVRAAGTSAK+LKEPTS + LVR
Sbjct: 50  MFSLDINSQIGSCMPLAAMRIGTIIHNIEINPGQGGKLVRAAGTSAKLLKEPTSRYVLVR 109

Query: 121 LPSGNEKLIDTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGGG 180
           +PSG +KLIDTRCRATIGTVSNP HGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGGG
Sbjct: 110 MPSGVQKLIDTRCRATIGTVSNPGHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGGG 169

Query: 181 EGRSKSSGNHGRCSLTPWGKPCKSGYKTASPKKKK 215
           EGRSKS G+HGR SLTPWGKP K GYKT   K++K
Sbjct: 170 EGRSKSGGSHGRGSLTPWGKPTKCGYKTGPLKRRK 204

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225434185|ref|XP_002279271.1| PREDICTED: 60S ribosomal protein L2, mitochondrial-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|17644114|gb|AAK95391.1| ribosomal protein L2 [Gossypium arboreum] Back     alignment and taxonomy information
>gi|255586439|ref|XP_002533864.1| 50S ribosomal protein L2, putative [Ricinus communis] gi|223526186|gb|EEF28514.1| 50S ribosomal protein L2, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|297824397|ref|XP_002880081.1| ribosomal protein L2 family protein [Arabidopsis lyrata subsp. lyrata] gi|297325920|gb|EFH56340.1| ribosomal protein L2 family protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|21592449|gb|AAM64400.1| unknown [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|17644112|gb|AAK95390.1| ribosomal protein L2 [Solanum lycopersicum] Back     alignment and taxonomy information
>gi|18406440|ref|NP_566007.1| ribosomal protein L2-like protein [Arabidopsis thaliana] gi|42571223|ref|NP_973685.1| ribosomal protein L2-like protein [Arabidopsis thaliana] gi|17380714|gb|AAL36187.1| unknown protein [Arabidopsis thaliana] gi|20197074|gb|AAM14906.1| Expressed protein [Arabidopsis thaliana] gi|20259009|gb|AAM14220.1| unknown protein [Arabidopsis thaliana] gi|330255274|gb|AEC10368.1| ribosomal protein L2-like protein [Arabidopsis thaliana] gi|330255275|gb|AEC10369.1| ribosomal protein L2-like protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|388502526|gb|AFK39329.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|224141127|ref|XP_002323926.1| predicted protein [Populus trichocarpa] gi|222866928|gb|EEF04059.1| predicted protein [Populus trichocarpa] 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 ?
Query219
TAIR|locus:505006316214 AT2G44065 [Arabidopsis thalian 0.885 0.906 0.630 8.5e-65
UNIPROTKB|P0C8K6502 RPL2 "60S ribosomal protein L2 0.634 0.276 0.708 8e-53
UNIPROTKB|P92812502 RPL2 "60S ribosomal protein L2 0.634 0.276 0.708 8e-53
UNIPROTKB|Q2F969502 RPL2 "60S ribosomal protein L2 0.634 0.276 0.708 8e-53
TIGR_CMR|BA_0113276 BA_0113 "ribosomal protein L2" 0.689 0.547 0.546 3.4e-38
TIGR_CMR|NSE_0269279 NSE_0269 "ribosomal protein L2 0.616 0.483 0.574 2.4e-37
TIGR_CMR|CHY_2306274 CHY_2306 "ribosomal protein L2 0.643 0.514 0.536 2.1e-36
TIGR_CMR|GSU_2854274 GSU_2854 "ribosomal protein L2 0.671 0.536 0.519 1.9e-35
TIGR_CMR|CBU_0241275 CBU_0241 "ribosomal protein L2 0.602 0.48 0.543 5.8e-34
TIGR_CMR|SPO_0484280 SPO_0484 "ribosomal protein L2 0.694 0.542 0.484 9.5e-34
TAIR|locus:505006316 AT2G44065 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 660 (237.4 bits), Expect = 8.5e-65, P = 8.5e-65
 Identities = 133/211 (63%), Positives = 160/211 (75%)

Query:     1 MALCRVR-SASSTLFNRLLCPSVLNNNTTYRYQSSETELVGDPSKQEKPKKETVRDKIMR 59
             +ALCR R SASS+LFN ++ P+  N +T +    ++T+            K  V  ++  
Sbjct:     5 VALCRARASASSSLFNSVIRPAFRNFSTGF----ADTQ-----------NKSLVA-QMKE 48

Query:    60 QMAHVDINSQIGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLV 119
             +M H+DINS IGS MPL  MRIGTIIHNIE+NPGQG K+VRAAGT+AKILKEP    CL+
Sbjct:    49 EMLHMDINSMIGSSMPLGMMRIGTIIHNIEMNPGQGAKMVRAAGTNAKILKEPAKGKCLI 108

Query:   120 RLPSGNEKLIDTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGG 179
             +LPSG+ K I+ +CRATIGTVSNPSHG KKL KAGQSRWLG RP VRGVAMNP DHPHGG
Sbjct:   109 KLPSGDTKWINAKCRATIGTVSNPSHGTKKLYKAGQSRWLGIRPKVRGVAMNPCDHPHGG 168

Query:   180 GEGRSKSSGNHGRCSLTPWGKPCKSGYKTAS 210
             GEG+SKSSG+ GR S++PWGKPCK GYK+AS
Sbjct:   169 GEGKSKSSGSRGRTSVSPWGKPCKGGYKSAS 199
GO:0003723 "RNA binding" evidence=IEA
GO:0003735 "structural constituent of ribosome" evidence=IEA;ISS
GO:0005622 "intracellular" evidence=IEA
GO:0005840 "ribosome" evidence=IEA
GO:0006412 "translation" evidence=IEA;ISS
GO:0009507 "chloroplast" evidence=ISM
GO:0015934 "large ribosomal subunit" evidence=IEA;ISS
GO:0016740 "transferase activity" evidence=IEA
GO:0006354 "DNA-dependent transcription, elongation" evidence=RCA
GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=RCA
GO:0009853 "photorespiration" evidence=RCA
GO:0051788 "response to misfolded protein" evidence=RCA
GO:0080129 "proteasome core complex assembly" evidence=RCA
UNIPROTKB|P0C8K6 RPL2 "60S ribosomal protein L2, mitochondrial" [Oryza sativa (taxid:4530)] Back     alignment and assigned GO terms
UNIPROTKB|P92812 RPL2 "60S ribosomal protein L2, mitochondrial" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
UNIPROTKB|Q2F969 RPL2 "60S ribosomal protein L2, mitochondrial" [Oryza sativa Indica Group (taxid:39946)] Back     alignment and assigned GO terms
TIGR_CMR|BA_0113 BA_0113 "ribosomal protein L2" [Bacillus anthracis str. Ames (taxid:198094)] Back     alignment and assigned GO terms
TIGR_CMR|NSE_0269 NSE_0269 "ribosomal protein L2" [Neorickettsia sennetsu str. Miyayama (taxid:222891)] Back     alignment and assigned GO terms
TIGR_CMR|CHY_2306 CHY_2306 "ribosomal protein L2" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] Back     alignment and assigned GO terms
TIGR_CMR|GSU_2854 GSU_2854 "ribosomal protein L2" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
TIGR_CMR|CBU_0241 CBU_0241 "ribosomal protein L2" [Coxiella burnetii RSA 493 (taxid:227377)] Back     alignment and assigned GO terms
TIGR_CMR|SPO_0484 SPO_0484 "ribosomal protein L2" [Ruegeria pomeroyi DSS-3 (taxid:246200)] 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

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

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:
GSVIVG00034728001
SubName- Full=Chromosome chr5 scaffold_72, whole genome shotgun sequence; (204 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00026943001
SubName- Full=Chromosome chr15 scaffold_40, whole genome shotgun sequence; (265 aa)
• ••• • 0.987
GSVIVG00035271001
SubName- Full=Chromosome chr10 scaffold_76, whole genome shotgun sequence; (140 aa)
•  •• • 0.983
GSVIVG00023012001
SubName- Full=Chromosome chr6 scaffold_28, whole genome shotgun sequence; (213 aa)
• ••• • 0.981
GSVIVG00028331001
SubName- Full=Chromosome chr10 scaffold_43, whole genome shotgun sequence; (166 aa)
• ••• • 0.976
rps3
SubName- Full=Chromosome undetermined scaffold_3592, whole genome shotgun sequence; (207 aa)
• ••  • 0.976
GSVIVG00026031001
SubName- Full=Chromosome chr12 scaffold_36, whole genome shotgun sequence; (117 aa)
•  •• • 0.976
GSVIVG00019749001
SubName- Full=Putative uncharacterized protein (Chromosome chr5 scaffold_2, whole genome shotgu [...] (161 aa)
•  •• • 0.974
GSVIVG00011509001
SubName- Full=Chromosome chr10 scaffold_312, whole genome shotgun sequence; (129 aa)
•  •• • 0.973
GSVIVG00033342001
SubName- Full=Chromosome chr19 scaffold_66, whole genome shotgun sequence; (203 aa)
•  •  • 0.967
GSVIVG00015322001
SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (167 aa)
• ••  • 0.967

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 ?
Query219
PRK09374276 PRK09374, rplB, 50S ribosomal protein L2; Validate 1e-69
pfam03947130 pfam03947, Ribosomal_L2_C, Ribosomal Proteins L2, 3e-64
TIGR01171273 TIGR01171, rplB_bact, ribosomal protein L2, bacter 7e-61
CHL00052273 CHL00052, rpl2, ribosomal protein L2 4e-60
COG0090275 COG0090, RplB, Ribosomal protein L2 [Translation, 1e-59
PTZ00031317 PTZ00031, PTZ00031, ribosomal protein L2; Provisio 2e-40
PRK09612238 PRK09612, rpl2p, 50S ribosomal protein L2P; Valida 2e-30
PTZ00180260 PTZ00180, PTZ00180, 60S ribosomal protein L8; Prov 1e-25
>gnl|CDD|236488 PRK09374, rplB, 50S ribosomal protein L2; Validated Back     alignment and domain information 
 Score =  213 bits (546), Expect = 1e-69
 Identities = 86/168 (51%), Positives = 109/168 (64%), Gaps = 11/168 (6%)

Query: 48  PKKETVRDKIMRQMAHVDINSQIGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAK 107
           PK   V D ++      DI  + G+ +PL  + +GT +HNIE+ PG+GG+L R+AGTSA+
Sbjct: 107 PKGLKVGDTVV-SGPDADI--KPGNALPLRNIPVGTTVHNIELKPGKGGQLARSAGTSAQ 163

Query: 108 IL-KEPTSSFCLVRLPSGNEKLIDTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVR 166
           ++ KE    +  +RLPSG  + +   CRATIG V N  H    L KAG+SRWLG RP VR
Sbjct: 164 LVAKE--GKYATLRLPSGEVRKVLAECRATIGEVGNEEHSNISLGKAGRSRWLGIRPTVR 221

Query: 167 GVAMNPVDHPHGGGEGRSKSSGNHGRCSLTPWGKPCKSGYKTASPKKK 214
           GVAMNPVDHPHGGGEGR+      GR  +TPWGKP K GYKT    K+
Sbjct: 222 GVAMNPVDHPHGGGEGRTSG----GRHPVTPWGKPTK-GYKTRKKNKR 264

Length = 276
>gnl|CDD|202823 pfam03947, Ribosomal_L2_C, Ribosomal Proteins L2, C-terminal domain Back     alignment and domain information
>gnl|CDD|162234 TIGR01171, rplB_bact, ribosomal protein L2, bacterial/organellar Back     alignment and domain information
>gnl|CDD|176993 CHL00052, rpl2, ribosomal protein L2 Back     alignment and domain information
>gnl|CDD|223168 COG0090, RplB, Ribosomal protein L2 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|173329 PTZ00031, PTZ00031, ribosomal protein L2; Provisional Back     alignment and domain information
>gnl|CDD|236589 PRK09612, rpl2p, 50S ribosomal protein L2P; Validated Back     alignment and domain information
>gnl|CDD|173464 PTZ00180, PTZ00180, 60S ribosomal protein L8; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 219
TIGR01171273 rplB_bact ribosomal protein L2, bacterial/organell 100.0
PRK09374276 rplB 50S ribosomal protein L2; Validated 100.0
PTZ00031317 ribosomal protein L2; Provisional 100.0
CHL00052273 rpl2 ribosomal protein L2 100.0
COG0090275 RplB Ribosomal protein L2 [Translation, ribosomal 100.0
PF03947130 Ribosomal_L2_C: Ribosomal Proteins L2, C-terminal 100.0
PRK09612238 rpl2p 50S ribosomal protein L2P; Validated 100.0
PTZ00180260 60S ribosomal protein L8; Provisional 100.0
KOG0438312 consensus Mitochondrial/chloroplast ribosomal prot 100.0
KOG2309248 consensus 60s ribosomal protein L2/L8 [Translation 100.0
PF039918 Prion_octapep: Copper binding octapeptide repeat; 80.66
>TIGR01171 rplB_bact ribosomal protein L2, bacterial/organellar Back     alignment and domain information 
Probab=100.00  E-value=1.1e-68  Score=478.94  Aligned_cols=174  Identities=49%  Similarity=0.837  Sum_probs=157.8

Q ss_pred             eccceeecC--C-----CCCCCCCCchHHHHHHhhhcccccccCCCCceecCCCCCCcceEeeeeeccCCCCceeecCCC
Q 027746           32 QSSETELVG--D-----PSKQEKPKKETVRDKIMRQMAHVDINSQIGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGT  104 (219)
Q Consensus        32 ~~~~~~lv~--~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~k~GN~lPL~~IP~GT~I~NIEl~PG~GgklaRSAGt  104 (219)
                      +++.||||-  |     .+++|.++.+|+|+..      .++++++||+|||.+||+||+|||||+.||+||||||||||
T Consensus        85 Rsa~IAlv~~~~g~~~YIlap~gl~~Gd~I~~g------~~~~i~~Gn~lpL~~IP~Gt~I~NIE~~pg~Ggkl~RsAGt  158 (273)
T TIGR01171        85 RSARIALLHYADGEKRYILAPKGLKVGDTVISG------PEAPIKPGNALPLRNIPVGTTVHNIELKPGKGGQLARSAGT  158 (273)
T ss_pred             CCcCEEEEEecCCcEEEEEccCCCCCCCEEEEC------CCCCCCCcCCcccccCCCCCEEEEEEecCCCCceEEEecCC
Confidence            667777774  2     2388999998888754      24578999999999999999999999999999999999999


Q ss_pred             cEEEeeecCCCeEEEEecCCceEeeccccceeeeeecCCCcCccccccccccccCCCCCccceeecCCCCCCCCCCCCCC
Q 027746          105 SAKILKEPTSSFCLVRLPSGNEKLIDTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGGGEGRS  184 (219)
Q Consensus       105 ~A~Ii~k~~~~~v~IKLPSGe~r~i~~~C~AtIG~vsn~~~~~~~lgKAG~~R~lG~RP~VRGvAMNpvDHPHGGGeGks  184 (219)
                      ||+|+.+ ++++++|||||||+|+|+++|+||||+|||.+|.+++++|||++||+|+||+|||||||||||||||||||+
T Consensus       159 ~A~ii~k-~~~~~~vkLPSGe~r~i~~~c~AtiG~Vsn~~~~~~~~gKAG~~r~lg~rP~VRGvAMNpvDHPHGGGegk~  237 (273)
T TIGR01171       159 SAQILAK-EGGYVTLRLPSGEMRMVLKECRATIGEVGNEDHNNIVLGKAGRSRWLGIRPTVRGVAMNPVDHPHGGGEGRT  237 (273)
T ss_pred             eEEEEEe-cCCEEEEECCCCCeEEECCcCeEEEEEccCCchhccEeccchhheeCCCCCccccEecCcccCCCCCCCCcC
Confidence            9999977 579999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             CCCCCCCCCCCCCCCcccCCccccCCCCc-cccC
Q 027746          185 KSSGNHGRCSLTPWGKPCKSGYKTASPKK-KKKL  217 (219)
Q Consensus       185 ~~~~~~gr~~~sPWG~~tk~g~kTr~~~~-~~~~  217 (219)
                      +    +|++|+||||++|| |+|||+++| +++|
T Consensus       238 ~----~g~~~~spwG~~~k-g~kTr~~~k~~~~~  266 (273)
T TIGR01171       238 P----GGRHPVTPWGKPTK-GYKTRKKKKYSDKF  266 (273)
T ss_pred             C----CCCCCCCCCeeecc-ccccCCCCCCCCce
Confidence            6    46899999999999 999996544 6665

This model distinguishes bacterial and organellar ribosomal protein L2 from its counterparts in the archaea nad in the eukaryotic cytosol. Plant mitochondrial examples tend to have long, variable inserts.
>PRK09374 rplB 50S ribosomal protein L2; Validated Back     alignment and domain information
>PTZ00031 ribosomal protein L2; Provisional Back     alignment and domain information
>CHL00052 rpl2 ribosomal protein L2 Back     alignment and domain information
>COG0090 RplB Ribosomal protein L2 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF03947 Ribosomal_L2_C: Ribosomal Proteins L2, C-terminal domain; InterPro: IPR022669 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>PRK09612 rpl2p 50S ribosomal protein L2P; Validated Back     alignment and domain information
>PTZ00180 60S ribosomal protein L8; Provisional Back     alignment and domain information
>KOG0438 consensus Mitochondrial/chloroplast ribosomal protein L2 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2309 consensus 60s ribosomal protein L2/L8 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF03991 Prion_octapep: Copper binding octapeptide repeat; InterPro: IPR020949 Prion protein (PrP-c) [, , ] is a small glycoprotein found in high quantity in the brain of animals infected with certain degenerative neurological diseases, such as sheep scrapie and bovine spongiform encephalopathy (BSE), and the human dementias Creutzfeldt-Jacob disease (CJD) and Gerstmann-Straussler syndrome (GSS) 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 ?
Query219
3fin_D272 T. Thermophilus 70s Ribosome In Complex With Mrna, 5e-33
3mrz_C275 Recognition Of The Amber Stop Codon By Release Fact 5e-33
2j01_D276 Structure Of The Thermus Thermophilus 70s Ribosome 6e-33
3pyo_C271 Crystal Structure Of A Complex Containing Domain 3 6e-33
3bbo_E269 Homology Model For The Spinach Chloroplast 50s Subu 1e-32
2gya_A227 Structure Of The 50s Subunit Of A Pre-Translocation 3e-31
3fik_C271 Ternary Complex-Bound E.Coli 70s Ribosome. This Ent 3e-31
1p85_A272 Real Space Refined Coordinates Of The 50s Subunit F 3e-31
2aw4_C273 Crystal Structure Of The Bacterial Ribosome From Es 3e-31
3e1b_N270 Structure Of The 50s Subunit Of E. Coli Ribosome In 4e-31
2j28_C267 Model Of E. Coli Srp Bound To 70s Rncs Length = 267 4e-31
1nkw_A275 Crystal Structure Of The Large Ribosomal Subunit Fr 2e-28
1pnu_A270 Crystal Structure Of A Streptomycin Dependent Ribos 2e-28
1nwx_A274 Complex Of The Large Ribosomal Subunit From Deinoco 2e-28
2b66_D173 50s Ribosomal Subunit From A Crystal Structure Of R 7e-25
1ml5_d178 Crystal Structure Of The Ribosome At 5.5 A Resoluti 1e-23
1ffk_A239 Crystal Structure Of The Large Ribosomal Subunit Fr 5e-18
3ow2_A237 Crystal Structure Of Enhanced Macrolide Bound To 50 5e-18
1s72_A240 Refined Crystal Structure Of The Haloarcula Marismo 5e-18
2otl_A239 Girodazole Bound To The Large Subunit Of Haloarcula 6e-18
3g4s_A237 Co-Crystal Structure Of Tiamulin Bound To The Large 7e-18
3j21_B239 Promiscuous Behavior Of Proteins In Archaeal Riboso 2e-17
1rl2_A137 Ribosomal Protein L2 Rna-Binding Domain From Bacill 6e-16
1s1i_B253 Structure Of The Ribosomal 80s-Eef2-Sordarin Comple 3e-15
3izs_B254 Localization Of The Large Subunit Ribosomal Protein 3e-15
487d_I135 Seven Ribosomal Proteins Fitted To A Cryo-Electron 3e-15
4a17_A264 T.Thermophila 60s Ribosomal Subunit In Complex With 3e-15
3jyw_B243 Structure Of The 60s Proteins For Eukaryotic Riboso 3e-15
3zf7_e260 High-resolution Cryo-electron Microscopy Structure 4e-15
3izr_B261 Localization Of The Large Subunit Ribosomal Protein 5e-15
2zkr_a257 Structure Of A Mammalian Ribosomal 60s Subunit With 2e-13
2ftc_B136 Structural Model For The Large Subunit Of The Mamma 2e-10
>pdb|3FIN|D Chain D, 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 = 272 Back     alignment and structure 
Iteration: 1

 Score =  137 bits (344), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 73/148 (49%), Positives = 94/148 (63%), Gaps = 6/148 (4%)
Query: 61  MAHVDINSQIGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVR 120
           +A  D   Q+G+ +PL  + +GT++H +E+ P +G KL RAAGTSA+I       + ++R
Sbjct: 117 VAGPDAPIQVGNALPLRFIPVGTVVHAVELEPKKGAKLARAAGTSAQIQGR-EGDYVILR 175
Query: 121 LPSGNEKLIDTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGGG 180
           LPSG  + +   C AT+G V N  H    L KAG+SRWLGRRP VRG AMNPVDHPHGGG
Sbjct: 176 LPSGELRKVHGECYATVGAVGNADHKNIVLGKAGRSRWLGRRPHVRGAAMNPVDHPHGGG 235
Query: 181 EGRSKSSGNHGRCSLTPWGKPCKSGYKT 208
           EGR+      GR   +PWG   K G KT
Sbjct: 236 EGRAP----RGRPPASPWGWQTK-GLKT 258
>pdb|3MRZ|C Chain C, Recognition Of The Amber Stop Codon By Release Factor Rf1. This Entry 3mrz Contains 50s Ribosomal Subunit. The 30s Ribosomal Subunit Can Be Found In Pdb Entry 3ms0. Molecule A In The Same Asymmetric Unit Is Deposited As 3mr8 (50s) And 3ms1 (30s). Length = 275 Back     alignment and structure
>pdb|2J01|D Chain D, 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 = 276 Back     alignment and structure
>pdb|3PYO|C Chain C, 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 = 271 Back     alignment and structure
>pdb|3BBO|E Chain E, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 269 Back     alignment and structure
>pdb|2GYA|A Chain A, Structure Of The 50s Subunit Of A Pre-Translocational E. Coli Ribosome Obtained By Fitting Atomic Models For Rna And Protein Components Into Cryo-Em Map Emd-1056 Length = 227 Back     alignment and structure
>pdb|3FIK|C Chain C, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry Consists Of The 50s Subunit. Length = 271 Back     alignment and structure
>pdb|1P85|A Chain A, 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 = 272 Back     alignment and structure
>pdb|2AW4|C Chain C, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli At 3.5 A Resolution. This File Contains The 50s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 273 Back     alignment and structure
>pdb|3E1B|N Chain N, Structure Of The 50s Subunit Of E. Coli Ribosome In Pre-Accommodation State Length = 270 Back     alignment and structure
>pdb|2J28|C Chain C, Model Of E. Coli Srp Bound To 70s Rncs Length = 267 Back     alignment and structure
>pdb|1NKW|A Chain A, Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans Length = 275 Back     alignment and structure
>pdb|1PNU|A Chain A, 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 = 270 Back     alignment and structure
>pdb|1NWX|A Chain A, Complex Of The Large Ribosomal Subunit From Deinococcus Radiodurans With Abt-773 Length = 274 Back     alignment and structure
>pdb|2B66|D Chain D, 50s Ribosomal Subunit From A Crystal Structure Of Release Factor Rf1, Trnas And Mrna Bound To The Ribosome. This File Contains The 50s Subunit From A Crystal Structure Of Release Factor Rf1, Trnas And Mrna Bound To The Ribosome And Is Described In Remark 400 Length = 173 Back     alignment and structure
>pdb|1ML5|DD Chain d, Structure Of The E. Coli Ribosomal Termination Complex With Release Factor 2 Length = 178 Back     alignment and structure
>pdb|1FFK|A Chain A, Crystal Structure Of The Large Ribosomal Subunit From Haloarcula Marismortui At 2.4 Angstrom Resolution Length = 239 Back     alignment and structure
>pdb|3OW2|A Chain A, Crystal Structure Of Enhanced Macrolide Bound To 50s Ribosomal Subunit Length = 237 Back     alignment and structure
>pdb|1S72|A Chain A, Refined Crystal Structure Of The Haloarcula Marismortui Large Ribosomal Subunit At 2.4 Angstrom Resolution Length = 240 Back     alignment and structure
>pdb|2OTL|A Chain A, Girodazole Bound To The Large Subunit Of Haloarcula Marismortui Length = 239 Back     alignment and structure
>pdb|3G4S|A Chain A, Co-Crystal Structure Of Tiamulin Bound To The Large Ribosomal Subunit Length = 237 Back     alignment and structure
>pdb|3J21|B Chain B, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (50s Ribosomal Proteins) Length = 239 Back     alignment and structure
>pdb|1RL2|A Chain A, Ribosomal Protein L2 Rna-Binding Domain From Bacillus Stearothermophilus Length = 137 Back     alignment and structure
>pdb|1S1I|B Chain B, 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 = 253 Back     alignment and structure
>pdb|3IZS|B Chain B, Localization Of The Large Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 254 Back     alignment and structure
>pdb|487D|I Chain I, Seven Ribosomal Proteins Fitted To A Cryo-Electron Microscopic Map Of The Large 50s Subunit At 7.5 Angstroms Resolution Length = 135 Back     alignment and structure
>pdb|4A17|A Chain A, 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 = 264 Back     alignment and structure
>pdb|3JYW|B Chain B, Structure Of The 60s Proteins For Eukaryotic Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 243 Back     alignment and structure
>pdb|3ZF7|EE Chain e, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 260 Back     alignment and structure
>pdb|3IZR|B Chain B, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 261 Back     alignment and structure
>pdb|2ZKR|AA Chain a, 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 = 257 Back     alignment and structure
>pdb|2FTC|B Chain B, Structural Model For The Large Subunit Of The Mammalian Mitochondrial Ribosome Length = 136 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 ?
Query219
3bbo_E269 Ribosomal protein L2; large ribosomal subunit, spi 8e-68
3v2d_D276 50S ribosomal protein L2; ribosome associated inhi 1e-67
3r8s_C271 50S ribosomal protein L2; protein biosynthesis, RN 2e-66
1vq8_A240 50S ribosomal protein L2P; ribosome 50S, protein-p 1e-60
4a17_A264 RPL8; eukaryotic ribosome, ribosome, eukaryotic in 3e-59
3iz5_B261 60S ribosomal protein L2 (L2P); eukaryotic ribosom 2e-58
3jyw_B243 60S ribosomal protein L2; eukaryotic ribosome, RAC 2e-56
1giy_D178 50S ribosomal protein L2; ribosome assembly, prote 9e-54
2ftc_B136 Mitochondrial ribosomal protein L2; mitochondrial 5e-34
1rl2_A137 Protein (ribosomal protein L2); RNA-binding domain 3e-29
>3bbo_E Ribosomal protein L2; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 269 Back     alignment and structure
 Score =  208 bits (531), Expect = 8e-68
 Identities = 76/168 (45%), Positives = 99/168 (58%), Gaps = 10/168 (5%)

Query: 48  PKKETVRDKIMRQMAHVDINSQIGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAK 107
           P+   + D I+     V I  ++G+ +PL  M +GT IHNIE+  G+GG+L RAAG  AK
Sbjct: 103 PRGAIIGDTIVSG-TEVPI--KMGNALPLTDMPLGTAIHNIEITLGRGGQLARAAGAVAK 159

Query: 108 IL-KEPTSSFCLVRLPSGNEKLIDTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVR 166
           ++ KE       ++LPSG  +LI   C AT+G V N     K+L +AG  RWLG+RPVVR
Sbjct: 160 LIAKE--GKSATLKLPSGEVRLISKNCSATVGQVGNVGVNQKRLGRAGSKRWLGKRPVVR 217

Query: 167 GVAMNPVDHPHGGGEGRSKSSGNHGRCSLTPWGKPCKSGYKTASPKKK 214
           GV MNPVDHPHGGGEGR+           TPWG P   G ++    K 
Sbjct: 218 GVVMNPVDHPHGGGEGRAPIGRKS---PTTPWGYPAL-GRRSRKRNKY 261
>3v2d_D 50S ribosomal protein L2; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_B 2hgj_D 2hgq_D 2hgu_D 1vsa_B 2j03_D 2jl6_D 2jl8_D 2v47_D 2v49_D 2wdi_D 2wdj_D 2wdl_D 2wdn_D 2wh2_D 2wh4_D 2wrj_D 2wrl_D 2wro_D 2wrr_D ... Length = 276 Back     alignment and structure
>3r8s_C 50S ribosomal protein L2; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_C 2wwq_C 3oat_C* 3oas_C* 3ofd_C 3ofc_C 3ofr_C* 3ofz_C* 3og0_C 3ofq_C 3r8t_C 3i1n_C 1vs8_C 1vs6_C 2aw4_C 2awb_C 2vhm_C 2vhn_C 3bbx_C 3df2_C ... Length = 271 Back     alignment and structure
>1vq8_A 50S ribosomal protein L2P; 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.34.5.3 b.40.4.5 PDB: 1vq4_A* 1vq5_A* 1vq6_A* 1vq7_A* 1s72_A* 1vq9_A* 1vqk_A* 1vql_A* 1vqm_A* 1vqn_A* 1vqo_A* 1vqp_A* 1yhq_A* 1yi2_A* 1yij_A* 1yit_A* 1yj9_A* 1yjn_A* 1yjw_A* 2otj_A* ... Length = 240 Back     alignment and structure
>4a17_A RPL8; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_A 4a1c_A 4a1e_A Length = 264 Back     alignment and structure
>3jyw_B 60S ribosomal protein L2; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 3izc_B 3izs_B 3o58_B 3o5h_B 3u5e_A 3u5i_A 1s1i_B Length = 243 Back     alignment and structure
>2ftc_B Mitochondrial ribosomal protein L2; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_B Length = 136 Back     alignment and structure
>1rl2_A Protein (ribosomal protein L2); RNA-binding domain, peptidyltransferease center, X-RAY diffraction; 2.30A {Geobacillus stearothermophilus} SCOP: b.34.5.3 b.40.4.5 PDB: 1c04_A 487d_I Length = 137 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query219
3r8s_C271 50S ribosomal protein L2; protein biosynthesis, RN 100.0
3v2d_D276 50S ribosomal protein L2; ribosome associated inhi 100.0
3bbo_E269 Ribosomal protein L2; large ribosomal subunit, spi 100.0
3j21_B239 50S ribosomal protein L2P; archaea, archaeal, KINK 100.0
1vq8_A240 50S ribosomal protein L2P; ribosome 50S, protein-p 100.0
3jyw_B243 60S ribosomal protein L2; eukaryotic ribosome, RAC 100.0
3iz5_B261 60S ribosomal protein L2 (L2P); eukaryotic ribosom 100.0
1giy_D178 50S ribosomal protein L2; ribosome assembly, prote 100.0
4a17_A264 RPL8; eukaryotic ribosome, ribosome, eukaryotic in 100.0
2ftc_B136 Mitochondrial ribosomal protein L2; mitochondrial 100.0
1rl2_A137 Protein (ribosomal protein L2); RNA-binding domain 100.0
>3r8s_C 50S ribosomal protein L2; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_C 3j19_C 2wwq_C 3oat_C* 3oas_C* 3ofd_C 3ofc_C 3ofr_C* 3ofz_C* 3og0_C 3ofq_C 3r8t_C 3i1n_C 1vs8_C 1vs6_C 2aw4_C 2awb_C 2vhm_C 2vhn_C 3bbx_C ... Back     alignment and structure
Probab=100.00  E-value=1.5e-70  Score=488.77  Aligned_cols=174  Identities=42%  Similarity=0.751  Sum_probs=159.5

Q ss_pred             eccceeecC--CC-----CCCCCCCchHHHHHHhhhcccccccCCCCceecCCCCCCcceEeeeeeccCCCCceeecCCC
Q 027746           32 QSSETELVG--DP-----SKQEKPKKETVRDKIMRQMAHVDINSQIGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGT  104 (219)
Q Consensus        32 ~~~~~~lv~--~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~k~GN~lPL~~IP~GT~I~NIEl~PG~GgklaRSAGt  104 (219)
                      +++.||||-  |+     +++|.++.+|+|+...      ++++++||+|||.+||+||+|||||++||+||||||||||
T Consensus        86 RsA~IAlv~~~dg~k~YIlAp~gl~~Gd~I~sg~------~a~i~~GN~lPL~~IP~GT~IhNIE~~pG~Gg~laRsAGt  159 (271)
T 3r8s_C           86 RSANIALVLYKDGERRYILAPKGLKAGDQIQSGV------DAAIKPGNTLPMRNIPVGSTVHNVEMKPGKGGQLARSAGT  159 (271)
T ss_dssp             SSSEEEEEEETTSCEEEEECBTTCCSSCBCCBSS------SSCSSTTCEEEGGGSCTTCEEESCCSSTTTCCCSCCSTTC
T ss_pred             CceeEEEEEecCCCEEEEEeeCCCcCCCEEEECC------CCCCCcCcEeehhhCCCCCEEEEEEecCCCCceEEEeCCC
Confidence            567788764  33     3789999988886543      4678999999999999999999999999999999999999


Q ss_pred             cEEEeeecCCCeEEEEecCCceEeeccccceeeeeecCCCcCccccccccccccCCCCCccceeecCCCCCCCCCCCCCC
Q 027746          105 SAKILKEPTSSFCLVRLPSGNEKLIDTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGGGEGRS  184 (219)
Q Consensus       105 ~A~Ii~k~~~~~v~IKLPSGe~r~i~~~C~AtIG~vsn~~~~~~~lgKAG~~R~lG~RP~VRGvAMNpvDHPHGGGeGks  184 (219)
                      ||+|+.+ +++|++|||||||+|+|+.+|+||||+|||.+|.+++++|||++||+|+||+||||||||||||||||||| 
T Consensus       160 ~A~ii~k-~~~~~~vrLPSGe~r~i~~~c~ATIG~Vsn~~~~~~~lgKAGr~rw~g~rP~VRGVAMNPVDHPHGGGeGk-  237 (271)
T 3r8s_C          160 YVQIVAR-DGAYVTLRLRSGEMRKVEADCRATLGEVGNAEHMLRVLGKAGAARWRGVRPTVRGTAMNPVDHPHGGGEGR-  237 (271)
T ss_dssp             CEEEEEC-STTEEEEECTTSCEEEEETTCEEEESCBSCSGGGGCCCCSHHHHHTTTBCCCCCGGGSCTTTCSSCCCSSS-
T ss_pred             eEEEEEe-cCCEEEEECCCCCeEEEcccCeEEEEeecCcchhhcEecccccccCCCCCCccCeEeeCCccCCccCcCCC-
Confidence            9999987 68999999999999999999999999999999999999999999999999999999999999999999999 


Q ss_pred             CCCCCCCCCCCCCCCcccCCccccCCCCccccCC
Q 027746          185 KSSGNHGRCSLTPWGKPCKSGYKTASPKKKKKLA  218 (219)
Q Consensus       185 ~~~~~~gr~~~sPWG~~tk~g~kTr~~~~~~~~~  218 (219)
                      +    +|++|+||||++|| |+|||++|++++|.
T Consensus       238 ~----ggr~p~tPWG~~tk-G~kTr~~k~s~~~i  266 (271)
T 3r8s_C          238 N----FGKHPVTPWGVQTK-GKKTRSNKRTDKFI  266 (271)
T ss_dssp             C----CCSCCBCTTSCBCT-TCCCCCCSTTGGGE
T ss_pred             C----CCCCCCCccccccc-CcccCCCCCCCCEE
Confidence            4    35899999999999 99999988888764
>3v2d_D 50S ribosomal protein L2; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_B 2hgj_D 2hgq_D 2hgu_D 1vsa_B 2j03_D 2jl6_D 2jl8_D 2v47_D 2v49_D 2wdi_D 2wdj_D 2wdl_D 2wdn_D 2wh2_D 2wh4_D 2wrj_D 2wrl_D 2wro_D 2wrr_D ... Back     alignment and structure
>3bbo_E Ribosomal protein L2; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Back     alignment and structure
>3j21_B 50S ribosomal protein L2P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>1vq8_A 50S ribosomal protein L2P; 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.34.5.3 b.40.4.5 PDB: 1vq4_A* 1vq5_A* 1vq6_A* 1vq7_A* 1s72_A* 1vq9_A* 1vqk_A* 1vql_A* 1vqm_A* 1vqn_A* 1vqo_A* 1vqp_A* 1yhq_A* 1yi2_A* 1yij_A* 1yit_A* 1yj9_A* 1yjn_A* 1yjw_A* 2otj_A* ... Back     alignment and structure
>3jyw_B 60S ribosomal protein L2; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 3izc_B 3izs_B 3o58_B 3o5h_B 3u5e_A 3u5i_A 4b6a_A 1s1i_B Back     alignment and structure
>4a17_A RPL8; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_A 4a1c_A 4a1e_A Back     alignment and structure
>2ftc_B Mitochondrial ribosomal protein L2; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_B Back     alignment and structure
>1rl2_A Protein (ribosomal protein L2); RNA-binding domain, peptidyltransferease center, X-RAY diffraction; 2.30A {Geobacillus stearothermophilus} SCOP: b.34.5.3 b.40.4.5 PDB: 1c04_A 487d_I 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 219
d2j01d1147 b.34.5.3 (D:127-273) C-terminal domain of ribosoma 2e-43
d1vqoa1147 b.34.5.3 (A:91-237) C-terminal domain of ribosomal 3e-43
d2qamc1145 b.34.5.3 (C:125-269) C-terminal domain of ribosoma 2e-41
d1rl2a170 b.34.5.3 (A:126-195) C-terminal domain of ribosoma 1e-20
>d2j01d1 b.34.5.3 (D:127-273) C-terminal domain of ribosomal protein L2 {Thermus thermophilus [TaxId: 274]} Length = 147 Back     information, alignment and structure

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: C-terminal domain of ribosomal protein L2
domain: C-terminal domain of ribosomal protein L2
species: Thermus thermophilus [TaxId: 274]

 Score =  140 bits (355), Expect = 2e-43
 Identities = 71/144 (49%), Positives = 92/144 (63%), Gaps = 6/144 (4%)

Query: 70  IGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVRLPSGNEKLI 129
           +G+ +PL  + +GT++H +E+ P +G KL RAAGTSA+I       + ++RLPSG  + +
Sbjct: 1   VGNALPLRFIPVGTVVHAVELEPKKGAKLARAAGTSAQIQGR-EGDYVILRLPSGELRKV 59

Query: 130 DTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGGGEGRSKSSGN 189
              C AT+G V N  H    L KAG+SRWLGRRP VRG AMNPVDHPHGGGEGR+     
Sbjct: 60  HGECYATVGAVGNADHKNIVLGKAGRSRWLGRRPHVRGAAMNPVDHPHGGGEGRAP---- 115

Query: 190 HGRCSLTPWGKPCKSGYKTASPKK 213
            GR   +PWG   K G KT   +K
Sbjct: 116 RGRPPASPWGWQTK-GLKTRKRRK 138
>d1vqoa1 b.34.5.3 (A:91-237) C-terminal domain of ribosomal protein L2 {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 147 Back     information, alignment and structure
>d2qamc1 b.34.5.3 (C:125-269) C-terminal domain of ribosomal protein L2 {Escherichia coli [TaxId: 562]} Length = 145 Back     information, alignment and structure
>d1rl2a1 b.34.5.3 (A:126-195) C-terminal domain of ribosomal protein L2 {Bacillus stearothermophilus [TaxId: 1422]} Length = 70 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 ?
Query219
d2qamc1145 C-terminal domain of ribosomal protein L2 {Escheri 100.0
d2j01d1147 C-terminal domain of ribosomal protein L2 {Thermus 100.0
d1vqoa1147 C-terminal domain of ribosomal protein L2 {Archaeo 100.0
d1rl2a170 C-terminal domain of ribosomal protein L2 {Bacillu 99.97
>d2qamc1 b.34.5.3 (C:125-269) C-terminal domain of ribosomal protein L2 {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: C-terminal domain of ribosomal protein L2
domain: C-terminal domain of ribosomal protein L2
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.8e-69  Score=443.47  Aligned_cols=143  Identities=47%  Similarity=0.900  Sum_probs=137.4

Q ss_pred             CCceecCCCCCCcceEeeeeeccCCCCceeecCCCcEEEeeecCCCeEEEEecCCceEeeccccceeeeeecCCCcCccc
Q 027746           70 IGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVRLPSGNEKLIDTRCRATIGTVSNPSHGAKK  149 (219)
Q Consensus        70 ~GN~lPL~~IP~GT~I~NIEl~PG~GgklaRSAGt~A~Ii~k~~~~~v~IKLPSGe~r~i~~~C~AtIG~vsn~~~~~~~  149 (219)
                      +||+|||.+||+||+|||||+.||+|||||||||+||+|+.+ +++|++|||||||+|+|+.+|+||||+|||.+|.+++
T Consensus         1 pGN~lpL~~IP~Gt~I~NIE~~pg~Ggkl~RsAGt~a~vi~k-~~~~~~vkLPSGe~r~i~~~c~ATiG~vsn~~~~~~~   79 (145)
T d2qamc1           1 PGNTLPMRNIPVGSTVHNVEMKPGKGGQLARSAGTYVQIVAR-DGAYVTLRLRSGEMRKVEADCRATLGEVGNAEHMLRV   79 (145)
T ss_dssp             TTCCCBTTTSCSSCCCCSBCSSTTSCCCBSCSTTCCCEEEEE-ETTEEEEECTTSCEEEECSSCBCCSSCBSCCGGGGCC
T ss_pred             CcccCcHhhCCCCCeEEEEeccCCCCccEeeecccEEEEEEe-cCCEEEEEecCcceEEeccccceEeccccchhhhcch
Confidence            699999999999999999999999999999999999999977 6899999999999999999999999999999999999


Q ss_pred             cccccccccCCCCCccceeecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccCCccccCCCCccccCCC
Q 027746          150 LRKAGQSRWLGRRPVVRGVAMNPVDHPHGGGEGRSKSSGNHGRCSLTPWGKPCKSGYKTASPKKKKKLAF  219 (219)
Q Consensus       150 lgKAG~~R~lG~RP~VRGvAMNpvDHPHGGGeGks~~~~~~gr~~~sPWG~~tk~g~kTr~~~~~~~~~~  219 (219)
                      ++|||++||+|+||+||||||||||||||||||++     +|++|+||||++|| |+|||++|+.+++.+
T Consensus        80 ~gKAG~~r~~g~rP~VRGvaMNpvdHPhGGg~~~~-----~g~~p~tpwG~~~k-g~kTr~~k~~~~~i~  143 (145)
T d2qamc1          80 LGKAGAARWRGVRPTVRGTAMNPVDHPHGGGEGRN-----FGKHPVTPWGVQTK-GKKTRSNKRTDKFIV  143 (145)
T ss_dssp             CCSHHHHHTTTCCCCCCGGGSCGGGCTTCCCSSSC-----CCSCCBCTTSCBSS-SCCCCCCSSSGGGBS
T ss_pred             hchhhHHHhCCCCCceeeeeccCccCCCCCCCCCC-----CCCCCCCCCcccCC-CCcCCCCCCCCCEEE
Confidence            99999999999999999999999999999999996     35899999999999 999999998888763
>d2j01d1 b.34.5.3 (D:127-273) C-terminal domain of ribosomal protein L2 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1vqoa1 b.34.5.3 (A:91-237) C-terminal domain of ribosomal protein L2 {Archaeon Haloarcula marismortui [TaxId: 2238]} Back     information, alignment and structure
>d1rl2a1 b.34.5.3 (A:126-195) C-terminal domain of ribosomal protein L2 {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure