Citrus Sinensis ID: 022012

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----
MAAVRLLLSQARRHCLTKPHASPSVTFQRTLCSSTAVQDDDESQNPPKQPIPVVSYASKPKDESNAPIENAQQQQNELQSDNPPHDFQAEEARTGLTREDIRYLKDVPTITPVSYPSRVAPLPEAGEPASGEAEGEGDGERRRIQSEKKTLRFMRVPEQAQVSVPYPLLIKPESKKKESRPVLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDKKAVRVAFFAEGADAEEARAAGADIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLFKISKILNQHGLMPNPK
cHHHHHHHHHHHHHccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccHHHHHHcccccccccHHHHcccccccccHHHHHHHHHHHccccccccHHHHHHccccccccccEEccEEEcccccccEEEEEEEEccccHHHHHHcccccccHHHHHHHHHHccccccEEEEEccccHHHHHHHHHcccccccccccc
cHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccccccccccccccccHHHHHHHHHHHccccEEEccccEEEcccHHHHHHHHccccccccEcHHHHHHHHHcccccccccEEEEEEEEccccccHHHccEEEEEccccccccccEEEEcccHHHHHHHHccccEEEcHHHHHHHHHcccccccEEEEcccHHHHHccHcHEccccccccccc
MAAVRLLLSQARRhcltkphaspsvtfqrtlcsstavqdddesqnppkqpipvvsyaskpkdesnapiENAQQQQnelqsdnpphdfqaeeartgltredirylkdvptitpvsypsrvaplpeagepasgeaegegdgerRRIQSEKKTLrfmrvpeqaqvsvpypllikpeskkkesrpvLDLMDAIKQVKANAKATFDETVEAHVRlaipprktelivrgtmnlphgdkKAVRVAFFAEGADAEEARAAGADIVGGLELIEEIASsgkldvekcfstrqfMPRLFKISKILnqhglmpnpk
MAAVRLLLSQARrhcltkphaspsvtfqrTLCSSTavqdddesqnppkqpiPVVSYASKPKDESNAPIENAQQQQNELQSDNPPHDFQAEEArtgltredirylkdvptitpvsypsrvaplpeagepasgeaegegdgerrRIQSEkktlrfmrvpeqaqvsvpypllikpeskkkesrpvLDLMDAIKQVKANAKATFDETVEAhvrlaipprktelivrgtmnlphgdKKAVRVAFFAEGADAEEARAAGADIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLFKISkilnqhglmpnpk
MAAVRLLLSQARRHCLTKPHASPSVTFQRTLCSSTAVQDDDESQNPPKQPIPVVSYASKPKDESNAPIENAQQQQNELQSDNPPHDFQAEEARTGLTREDIRYLKDVPTITPVSYPSRVaplpeagepasgeaegegdgeRRRIQSEKKTLRFMRVPEQAQVSVPYPLLIKPESKKKESRPVLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDKKAVRVaffaegadaeearaagadIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLFKISKILNQHGLMPNPK
****************************************************************************************************IRYLKDVPTIT************************************************************************DLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDKKAVRVAFFAEGADAEEARAAGADIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLFKISKILN*********
**AVRLLLSQARR****************************************************************************************RYLKDVPTITPVSYPSRV*********************************************************KESRPVLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDKKAVRVAFFAEGADAEEARAAGADIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLFKISKILNQHGLMP***
MAAVRLLLSQARRHCLTKPHASPSVTFQRTLCSS*************KQPIPVVSY**************************PPHDFQAEEARTGLTREDIRYLKDVPTITPVSYPSRVAPL********************RIQSEKKTLRFMRVPEQAQVSVPYPLLIKPESKKKESRPVLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDKKAVRVAFFAEGADAEEARAAGADIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLFKISKILNQHGLMPNPK
***********RRHCLTKPHASP***********************PKQPIPVVSYASKPK**********************************LTRED*RYLKDVPTITPVSYPSRVAPLP*********************QSEKKTLRFMRVPEQAQVSVPYPLLIKPESKKKESRPVLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDKKAVRVAFFAEGADAEEARAAGADIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLFKISKILNQHGLMP***
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooo
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MAAVRLLLSQARRHCLTKPHASPSVTFQRTLCSSTAVQDDDESQNPPKQPIPVVSYASKPKDESNAPIENAQQQQNELQSDNPPHDFQAEEARTGLTREDIRYLKDVPTITPVSYPSRVAPLPEAGEPASGEAEGEGDGERRRIQSEKKTLRFMRVPEQAQVSVPYPLLIKPESKKKESRPVLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDKKAVRVAFFAEGADAEEARAAGADIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLFKISKILNQHGLMPNPK
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 ?
Query304 2.2.26 [Sep-21-2011]
B0UHY1235 50S ribosomal protein L1 yes no 0.401 0.519 0.495 8e-28
B9JDR8232 50S ribosomal protein L1 yes no 0.391 0.512 0.5 4e-27
A6U848232 50S ribosomal protein L1 yes no 0.391 0.512 0.475 5e-27
Q92QI0232 50S ribosomal protein L1 yes no 0.391 0.512 0.483 5e-27
B8IS73235 50S ribosomal protein L1 yes no 0.401 0.519 0.487 6e-27
C3MAW8232 50S ribosomal protein L1 yes no 0.401 0.525 0.471 6e-27
Q8UE05231 50S ribosomal protein L1 yes no 0.391 0.515 0.5 8e-27
B9JVM5231 50S ribosomal protein L1 yes no 0.401 0.528 0.479 1e-26
Q89J70230 50S ribosomal protein L1 yes no 0.391 0.517 0.466 2e-26
B3PW56233 50S ribosomal protein L1 yes no 0.391 0.510 0.475 7e-26
>sp|B0UHY1|RL1_METS4 50S ribosomal protein L1 OS=Methylobacterium sp. (strain 4-46) GN=rplA PE=3 SV=1 Back     alignment and function desciption
 Score =  124 bits (311), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 61/123 (49%), Positives = 81/123 (65%), Gaps = 1/123 (0%)

Query: 182 VLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDKKAVRVAFFA 241
           V  L DA+K +K  +KA FDET E  + L + PR  + +VRG  NLP+G  + VRVA FA
Sbjct: 20  VYSLTDAVKMIKDRSKAKFDETFEISMNLGVDPRHADQMVRGVCNLPNGSGRTVRVAVFA 79

Query: 242 EGADAEEARAAGADIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLFKISKILNQHGLMP 301
            GA A+EARAAGADIVG  +L+E I   G +D ++C +T   MP + ++ K+L   GLMP
Sbjct: 80  RGAKADEARAAGADIVGAEDLLETI-QGGTIDFDRCIATPDMMPLVGRLGKVLGPRGLMP 138

Query: 302 NPK 304
           NPK
Sbjct: 139 NPK 141
Protein L1 is also a translational repressor protein, it controls the translation of the L11 operon by binding to its mRNA.
Methylobacterium sp. (strain 4-46) (taxid: 426117)
>sp|B9JDR8|RL1_AGRRK 50S ribosomal protein L1 OS=Agrobacterium radiobacter (strain K84 / ATCC BAA-868) GN=rplA PE=3 SV=1 Back     alignment and function description
>sp|A6U848|RL1_SINMW 50S ribosomal protein L1 OS=Sinorhizobium medicae (strain WSM419) GN=rplA PE=3 SV=1 Back     alignment and function description
>sp|Q92QI0|RL1_RHIME 50S ribosomal protein L1 OS=Rhizobium meliloti (strain 1021) GN=rplA PE=3 SV=1 Back     alignment and function description
>sp|B8IS73|RL1_METNO 50S ribosomal protein L1 OS=Methylobacterium nodulans (strain ORS2060 / LMG 21967) GN=rplA PE=3 SV=1 Back     alignment and function description
>sp|C3MAW8|RL1_RHISN 50S ribosomal protein L1 OS=Rhizobium sp. (strain NGR234) GN=rplA PE=3 SV=1 Back     alignment and function description
>sp|Q8UE05|RL1_AGRT5 50S ribosomal protein L1 OS=Agrobacterium tumefaciens (strain C58 / ATCC 33970) GN=rplA PE=3 SV=2 Back     alignment and function description
>sp|B9JVM5|RL1_AGRVS 50S ribosomal protein L1 OS=Agrobacterium vitis (strain S4 / ATCC BAA-846) GN=rplA PE=3 SV=1 Back     alignment and function description
>sp|Q89J70|RL1_BRAJA 50S ribosomal protein L1 OS=Bradyrhizobium japonicum (strain USDA 110) GN=rplA PE=3 SV=1 Back     alignment and function description
>sp|B3PW56|RL1_RHIE6 50S ribosomal protein L1 OS=Rhizobium etli (strain CIAT 652) GN=rplA 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 ?
Query304
297824237401 ribosomal protein L1 family protein [Ara 0.944 0.715 0.522 3e-73
30689119 415 ribosomal protein .1/L10 family protein 0.950 0.696 0.5 3e-71
449468920 424 PREDICTED: 50S ribosomal protein L1-like 0.970 0.695 0.513 2e-65
255580108372 50S ribosomal protein L1p, putative [Ric 0.848 0.693 0.485 1e-60
224128760356 predicted protein [Populus trichocarpa] 0.684 0.584 0.572 5e-60
225446639 429 PREDICTED: 50S ribosomal protein L1-like 0.967 0.685 0.501 5e-58
388505910 407 unknown [Medicago truncatula] 0.957 0.714 0.509 5e-55
357474637 407 50S ribosomal protein L1 [Medicago trunc 0.957 0.714 0.512 8e-55
4512681286 hypothetical protein [Arabidopsis thalia 0.835 0.888 0.484 1e-54
356517326399 PREDICTED: 50S ribosomal protein L1-like 0.934 0.711 0.507 2e-53
>gi|297824237|ref|XP_002880001.1| ribosomal protein L1 family protein [Arabidopsis lyrata subsp. lyrata] gi|297325840|gb|EFH56260.1| ribosomal protein L1 family protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
 Score =  281 bits (718), Expect = 3e-73,   Method: Compositional matrix adjust.
 Identities = 163/312 (52%), Positives = 214/312 (68%), Gaps = 25/312 (8%)

Query: 1   MAAVRLLLSQARRHCLTKPHASPSVTFQRTLCSSTAVQDDDESQNPPKQPIPVVSYASKP 60
           MAA++LLLSQARR  L KP +SP     R   SS++   ++  + P    I  VSYA+KP
Sbjct: 1   MAAMKLLLSQARRQGLIKPFSSPFQQIPRLFSSSSSSDSNESRKKP--VTIEPVSYAAKP 58

Query: 61  KDESNAPIENAQQQQNELQSDNPPHDFQAEEARTGLTREDIRYLKDVPTITPVSYPSRVA 120
           KD  + P  N +  +N           Q+ E+ +  TRE+IRY+KD P+I PVSY  RVA
Sbjct: 59  KDPKSEPT-NVESTEN----------LQSPES-SNWTREEIRYVKDSPSINPVSYAQRVA 106

Query: 121 PLPEAGEPASGEAEGE-----GDGERRRIQSEKKTLR-FMRVP--EQAQVSVPYPLLIKP 172
           PLPE  +  +GE EGE      + ER+RI+ E +  R F+R    E+   S+P P L+KP
Sbjct: 107 PLPE--DRVAGENEGERTPEEMERERKRIELENRARRKFLRANAVEEDTSSLPLPTLLKP 164

Query: 173 ESKKKESRPVLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDK 232
           E K  + +P+ DLM+AI+++KANAKA FDET+EAHVRL I   ++ELIVRGT+ LPH  K
Sbjct: 165 ELKHGK-KPIFDLMEAIREIKANAKAKFDETLEAHVRLGIEKGRSELIVRGTLALPHSVK 223

Query: 233 KAVRVAFFAEGADAEEARAAGADIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLFKISK 292
           K V+VAFFAEGADAE+A+AAGAD+VGGLELIEEI  SGK+D ++C +T + MPR++KIS+
Sbjct: 224 KDVKVAFFAEGADAEDAKAAGADVVGGLELIEEILKSGKIDFDRCLATPKMMPRVYKISR 283

Query: 293 ILNQHGLMPNPK 304
           ILN HGLMPNPK
Sbjct: 284 ILNNHGLMPNPK 295

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|30689119|ref|NP_850375.1| ribosomal protein .1/L10 family protein [Arabidopsis thaliana] gi|20268740|gb|AAM14073.1| unknown protein [Arabidopsis thaliana] gi|21280899|gb|AAM45043.1| unknown protein [Arabidopsis thaliana] gi|26451659|dbj|BAC42926.1| unknown protein [Arabidopsis thaliana] gi|330255065|gb|AEC10159.1| ribosomal protein .1/L10 family protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|449468920|ref|XP_004152169.1| PREDICTED: 50S ribosomal protein L1-like [Cucumis sativus] gi|449484790|ref|XP_004156980.1| PREDICTED: 50S ribosomal protein L1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|255580108|ref|XP_002530886.1| 50S ribosomal protein L1p, putative [Ricinus communis] gi|223529539|gb|EEF31492.1| 50S ribosomal protein L1p, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|224128760|ref|XP_002320415.1| predicted protein [Populus trichocarpa] gi|222861188|gb|EEE98730.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225446639|ref|XP_002281125.1| PREDICTED: 50S ribosomal protein L1-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|388505910|gb|AFK41021.1| unknown [Medicago truncatula] Back     alignment and taxonomy information
>gi|357474637|ref|XP_003607603.1| 50S ribosomal protein L1 [Medicago truncatula] gi|355508658|gb|AES89800.1| 50S ribosomal protein L1 [Medicago truncatula] Back     alignment and taxonomy information
>gi|4512681|gb|AAD21735.1| hypothetical protein [Arabidopsis thaliana] gi|20198079|gb|AAM15388.1| hypothetical protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|356517326|ref|XP_003527339.1| PREDICTED: 50S ribosomal protein L1-like [Glycine max] 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 ?
Query304
TAIR|locus:2041519 415 AT2G42710 [Arabidopsis thalian 0.957 0.701 0.440 4.8e-55
TIGR_CMR|SPO_3513232 SPO_3513 "ribosomal protein L1 0.398 0.521 0.377 1.6e-17
TIGR_CMR|CJE_0525233 CJE_0525 "ribosomal protein L1 0.440 0.575 0.362 3.7e-16
UNIPROTKB|P96932235 rplA "50S ribosomal protein L1 0.388 0.502 0.361 6e-16
TIGR_CMR|DET_0992237 DET_0992 "ribosomal protein L1 0.384 0.493 0.372 6e-16
TIGR_CMR|ECH_0955220 ECH_0955 "ribosomal protein L1 0.414 0.572 0.370 8.8e-15
TIGR_CMR|GSU_2866234 GSU_2866 "ribosomal protein L1 0.391 0.508 0.375 2.3e-14
TIGR_CMR|CBU_0227232 CBU_0227 "ribosomal protein L1 0.437 0.573 0.320 6.2e-14
TIGR_CMR|CHY_2322231 CHY_2322 "ribosomal protein L1 0.427 0.562 0.343 1e-13
TIGR_CMR|APH_1027216 APH_1027 "ribosomal protein L1 0.388 0.546 0.338 5.6e-13
TAIR|locus:2041519 AT2G42710 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 568 (205.0 bits), Expect = 4.8e-55, P = 4.8e-55
 Identities = 142/322 (44%), Positives = 187/322 (58%)

Query:     1 MAAVRLLLSQARRHCLTKPHASPSVTFQRTLCSSTAVQDDDESQ---NP-P------KQP 50
             MAA++LLLSQARR  L KP +SP     R   SS++      S    NP P      K+ 
Sbjct:     1 MAAMKLLLSQARRQGLIKPFSSPFQQIPRLFSSSSSSSSSSSSSSDSNPSPDSNESRKKA 60

Query:    51 IPV--VSYASKPKDESNAPIENAQQQQNELQSDNPPHDFQAEEARTGLTREDIRYLKDVP 108
             + +  VSYA+KPKD+ + P +N +  +N LQS  P      E A    TRE+IRY+KD P
Sbjct:    61 VTIEPVSYAAKPKDQKSEP-KNVESTEN-LQS--P------ESANW--TREEIRYVKDSP 108

Query:   109 TITPVSYPSRVX---XXXXXXXXXXXXXXXXXXXXRRRIQSEKKTLR-FMRVP--EQAQV 162
             +I PVSY  RV                        R+RI+ E +  R F+R    E+   
Sbjct:   109 SINPVSYAQRVAPLPEDRVAGENEGDRTPEEMERERKRIELENRARRRFLRANAVEEDTS 168

Query:   163 SVPYPLLIKPESKKKESRPVLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVR 222
             S+P P L+KPE K  + +P+ DLM+AI+++K NAKA FDET+EAHVRL I   ++ELIVR
Sbjct:   169 SLPLPTLLKPELKHGK-KPIFDLMEAIREIKGNAKAKFDETLEAHVRLGIEKGRSELIVR 227

Query:   223 GTMNLPHGDKKAVRVXXXXXXXXXXXXXXXXXXIVGGLELIEEIASSGKLDVEKCFSTRQ 282
             GT+ LPH  KK V+V                  +VGGLELIEEI  SGK+D ++C +T +
Sbjct:   228 GTLALPHSVKKDVKVAFFAEGADAEDAKAAGADVVGGLELIEEILKSGKIDFDRCLATPK 287

Query:   283 FMPRLFKISKILNQHGLMPNPK 304
              MPR++KIS+ILN HGLMPNPK
Sbjct:   288 MMPRVYKISRILNNHGLMPNPK 309
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;ISS
GO:0006412 "translation" evidence=IEA;ISS
GO:0009507 "chloroplast" evidence=ISM
GO:0015934 "large ribosomal subunit" evidence=IEA;ISS
GO:0006354 "DNA-dependent transcription, elongation" evidence=RCA
TIGR_CMR|SPO_3513 SPO_3513 "ribosomal protein L1" [Ruegeria pomeroyi DSS-3 (taxid:246200)] Back     alignment and assigned GO terms
TIGR_CMR|CJE_0525 CJE_0525 "ribosomal protein L1" [Campylobacter jejuni RM1221 (taxid:195099)] Back     alignment and assigned GO terms
UNIPROTKB|P96932 rplA "50S ribosomal protein L1" [Mycobacterium tuberculosis (taxid:1773)] Back     alignment and assigned GO terms
TIGR_CMR|DET_0992 DET_0992 "ribosomal protein L1" [Dehalococcoides ethenogenes 195 (taxid:243164)] Back     alignment and assigned GO terms
TIGR_CMR|ECH_0955 ECH_0955 "ribosomal protein L1" [Ehrlichia chaffeensis str. Arkansas (taxid:205920)] Back     alignment and assigned GO terms
TIGR_CMR|GSU_2866 GSU_2866 "ribosomal protein L1" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
TIGR_CMR|CBU_0227 CBU_0227 "ribosomal protein L1" [Coxiella burnetii RSA 493 (taxid:227377)] Back     alignment and assigned GO terms
TIGR_CMR|CHY_2322 CHY_2322 "ribosomal protein L1" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] Back     alignment and assigned GO terms
TIGR_CMR|APH_1027 APH_1027 "ribosomal protein L1" [Anaplasma phagocytophilum HZ (taxid:212042)] 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

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query304
PRK05424230 PRK05424, rplA, 50S ribosomal protein L1; Validate 9e-46
TIGR01169227 TIGR01169, rplA_bact, ribosomal protein L1, bacter 4e-40
COG0081228 COG0081, RplA, Ribosomal protein L1 [Translation, 6e-37
CHL00129229 CHL00129, rpl1, ribosomal protein L1; Reviewed 9e-31
cd00403208 cd00403, Ribosomal_L1, Ribosomal protein L1 2e-28
pfam00687200 pfam00687, Ribosomal_L1, Ribosomal protein L1p/L10 1e-22
TIGR01170141 TIGR01170, rplA_mito, ribosomal protein L1, mitoch 3e-12
PRK04203215 PRK04203, rpl1P, 50S ribosomal protein L1P; Review 7e-10
pfam03739354 pfam03739, YjgP_YjgQ, Predicted permease YjgP/YjgQ 7e-04
>gnl|CDD|180071 PRK05424, rplA, 50S ribosomal protein L1; Validated Back     alignment and domain information 
 Score =  154 bits (391), Expect = 9e-46
 Identities = 65/130 (50%), Positives = 83/130 (63%), Gaps = 1/130 (0%)

Query: 175 KKKESRPVLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDKKA 234
           +K +   +  L +AI  VK  A A FDETV+  V L + PRK +  VRG + LPHG  K 
Sbjct: 12  EKVDRTKLYSLEEAIALVKETATAKFDETVDVAVNLGVDPRKADQQVRGAVVLPHGTGKT 71

Query: 235 VRVAFFAEGADAEEARAAGADIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLFKISKIL 294
           VRVA FA+G  AEEA+AAGADIVGG +LIE+I   G LD +   +T   M ++ K+ +IL
Sbjct: 72  VRVAVFAKGEKAEEAKAAGADIVGGEDLIEKIK-GGWLDFDVVIATPDMMGKVGKLGRIL 130

Query: 295 NQHGLMPNPK 304
              GLMPNPK
Sbjct: 131 GPRGLMPNPK 140

Length = 230
>gnl|CDD|211630 TIGR01169, rplA_bact, ribosomal protein L1, bacterial/chloroplast Back     alignment and domain information
>gnl|CDD|223159 COG0081, RplA, Ribosomal protein L1 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|177051 CHL00129, rpl1, ribosomal protein L1; Reviewed Back     alignment and domain information
>gnl|CDD|238235 cd00403, Ribosomal_L1, Ribosomal protein L1 Back     alignment and domain information
>gnl|CDD|216061 pfam00687, Ribosomal_L1, Ribosomal protein L1p/L10e family Back     alignment and domain information
>gnl|CDD|233298 TIGR01170, rplA_mito, ribosomal protein L1, mitochondrial Back     alignment and domain information
>gnl|CDD|235254 PRK04203, rpl1P, 50S ribosomal protein L1P; Reviewed Back     alignment and domain information
>gnl|CDD|217705 pfam03739, YjgP_YjgQ, Predicted permease YjgP/YjgQ family Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 304
CHL00129229 rpl1 ribosomal protein L1; Reviewed 100.0
PRK05424230 rplA 50S ribosomal protein L1; Validated 100.0
COG0081228 RplA Ribosomal protein L1 [Translation, ribosomal 100.0
TIGR01169227 rplA_bact ribosomal protein L1, bacterial/chloropl 100.0
TIGR01170141 rplA_mito ribosomal protein L1, mitochondrial. Thi 100.0
PRK04203215 rpl1P 50S ribosomal protein L1P; Reviewed 100.0
PTZ00225214 60S ribosomal protein L10a; Provisional 99.97
PTZ00029216 60S ribosomal protein L10a; Provisional 99.96
cd00403208 Ribosomal_L1 Ribosomal protein L1. The L1 protein, 99.92
KOG1569 323 consensus 50S ribosomal protein L1 [Translation, r 99.89
PF00687220 Ribosomal_L1: Ribosomal protein L1p/L10e family; I 99.79
KOG1570218 consensus 60S ribosomal protein L10A [Translation, 99.62
PF13003133 MRL1: Ribosomal protein L1; InterPro: IPR024663 Th 96.64
KOG1685 343 consensus Uncharacterized conserved protein [Funct 85.83
PTZ00029216 60S ribosomal protein L10a; Provisional 82.67
>CHL00129 rpl1 ribosomal protein L1; Reviewed Back     alignment and domain information 
Probab=100.00  E-value=1.5e-40  Score=303.55  Aligned_cols=126  Identities=41%  Similarity=0.671  Sum_probs=122.1

Q ss_pred             cCCCCccCHHHHHHHHHHHcccCCCccEEEEEEEccCCCCCCceeeeEEEcCCCCCCCcEEEEEcCchhHHHHHHcCCCe
Q 022012          177 KESRPVLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDKKAVRVAFFAEGADAEEARAAGADI  256 (304)
Q Consensus       177 ~ek~~~ysl~EAIr~lke~a~rkF~ETVEL~I~LnvD~kK~d~~~rGsV~LPh~~gK~~KIlVFadgd~aeeAkeAGAd~  256 (304)
                      .+ ...|++.|||+.+++.+.++|+||||++|+||+|++|++++|||+|.|||++|++.||||||+++++++|++|||++
T Consensus        15 ~~-~~~y~l~eAi~~~k~~~~~kF~esvel~i~L~id~kk~~~~irg~v~LP~~~gk~~kV~Vfa~~~~~~eAk~aGad~   93 (229)
T CHL00129         15 IE-KKLYSPEEAINLLKETATAKFIETAEAHISLNIDPKYADQQLRTTVTLPKGTGKTIRIAVLTNEEKITEAKNAGADI   93 (229)
T ss_pred             cc-ccccCHHHHHHHHHHhCcCCCCccEEEEEEECCCCCCCCCceeeEEECCCCCCCCcEEEEECChHhHHHHHHcCCCE
Confidence            44 67899999999999988999999999999999999999999999999999999999999999999999999999999


Q ss_pred             echHHHHHHHHhCCcccccEEEEcCcchhHHHhhhhccCCCCCCCCCC
Q 022012          257 VGGLELIEEIASSGKLDVEKCFSTRQFMPRLFKISKILNQHGLMPNPK  304 (304)
Q Consensus       257 VGgeELIeKIkk~gkLdFD~~IATpdmMpkL~kLGriLGPRGLMPnpK  304 (304)
                      ||++|||++|+ ++|++||+||||+|||++|++|||+|||||||||||
T Consensus        94 vg~edLi~~ik-~~~~~fd~~iAt~d~m~~l~kLgriLGprGlMP~pk  140 (229)
T CHL00129         94 VGSDDLIEEIT-KGNLDFDLLIATPDMMPKLAKLGRVLGPRGLMPSPK  140 (229)
T ss_pred             eCHHHHHHHHH-cCcccCCEEEECHHHHHHHHHhcCcccccCCCCCCC
Confidence            99999999998 699999999999999999999999999999999997

>PRK05424 rplA 50S ribosomal protein L1; Validated Back     alignment and domain information
>COG0081 RplA Ribosomal protein L1 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR01169 rplA_bact ribosomal protein L1, bacterial/chloroplast Back     alignment and domain information
>TIGR01170 rplA_mito ribosomal protein L1, mitochondrial Back     alignment and domain information
>PRK04203 rpl1P 50S ribosomal protein L1P; Reviewed Back     alignment and domain information
>PTZ00225 60S ribosomal protein L10a; Provisional Back     alignment and domain information
>PTZ00029 60S ribosomal protein L10a; Provisional Back     alignment and domain information
>cd00403 Ribosomal_L1 Ribosomal protein L1 Back     alignment and domain information
>KOG1569 consensus 50S ribosomal protein L1 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF00687 Ribosomal_L1: Ribosomal protein L1p/L10e family; InterPro: IPR002143 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>KOG1570 consensus 60S ribosomal protein L10A [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF13003 MRL1: Ribosomal protein L1; InterPro: IPR024663 This entry represents a ribosomal protein L1 domain found mainly in chordates Back     alignment and domain information
>KOG1685 consensus Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>PTZ00029 60S ribosomal protein L10a; Provisional 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 ?
Query304
2j01_C229 Structure Of The Thermus Thermophilus 70s Ribosome 3e-15
1ml5_c228 Crystal Structure Of The Ribosome At 5.5 A Resoluti 7e-15
3umy_A228 Crystal Structure Of Mutant Ribosomal Protein T217a 7e-15
4f9t_A229 Ribosomal Protein L1 From Thermus Thermophilus With 8e-15
3tg8_A228 Mutant Ribosomal Protein L1 Lacking Ala158 From The 8e-15
2hgj_C229 Fitting Of Components With Known Structure Into An 8e-15
3u42_A229 Mutant Ribosomal Protein L1 From Thermus Thermophil 8e-15
487d_H224 Seven Ribosomal Proteins Fitted To A Cryo-Electron 8e-15
1ad2_A228 Ribosomal Protein L1 Mutant With Serine 179 Replace 8e-15
3zvp_C229 Crystal Structure Of The Hybrid State Of Ribosome I 9e-15
3bbo_D352 Homology Model For The Spinach Chloroplast 50s Subu 1e-14
2v49_C229 Structure Of The Ribosome Recycling Factor Bound To 2e-14
3qoy_A242 Crystal Structure Of Ribosomal Protein L1 From Aqui 6e-14
2hw8_A228 Structure Of Ribosomal Protein L1-Mrna Complex At 2 9e-14
1zho_A228 The Structure Of A Ribosomal Protein L1 In Complex 1e-13
2gya_2222 Structure Of The 50s Subunit Of A Pre-Translocation 2e-09
2rdo_9233 50s Subunit With Ef-G(Gdpnp) And Rrf Bound Length = 2e-09
3fik_5234 Ternary Complex-Bound E.Coli 70s Ribosome. This Ent 2e-09
3fin_C191 T. Thermophilus 70s Ribosome In Complex With Mrna, 3e-09
2ov7_A137 The First Domain Of The Ribosomal Protein L1 From T 6e-07
>pdb|2J01|C Chain C, 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 = 229 Back     alignment and structure 
Iteration: 1

 Score = 79.3 bits (194), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 48/124 (38%), Positives = 67/124 (54%), Gaps = 2/124 (1%)
Query: 182 VLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDKKAVRVXXXX 241
           V  + +A + VK  A A FDETVE H +L I PR+++  VRGT++LPHG  K VRV    
Sbjct: 20  VYTIDEAARLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIA 79
Query: 242 XXXXXXXXXXXXXXIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLF-KISKILNQHGLM 300
                          VGG E+I++I   G +D +   +T   M  +  K+ +IL   GL+
Sbjct: 80  KGEKIKEAEEAGADYVGGEEIIQKIL-DGWMDFDAVVATPDVMGAVGSKLGRILGPRGLL 138
Query: 301 PNPK 304
           PNPK
Sbjct: 139 PNPK 142
>pdb|1ML5|CC Chain c, Structure Of The E. Coli Ribosomal Termination Complex With Release Factor 2 Length = 228 Back     alignment and structure
>pdb|3UMY|A Chain A, Crystal Structure Of Mutant Ribosomal Protein T217a Tthl1 In Complex With 80nt 23s Rna From Thermus Thermophilus Length = 228 Back     alignment and structure
>pdb|4F9T|A Chain A, Ribosomal Protein L1 From Thermus Thermophilus With Substitution Thr217ala Length = 229 Back     alignment and structure
>pdb|3TG8|A Chain A, Mutant Ribosomal Protein L1 Lacking Ala158 From Thermus Thermophilus Length = 228 Back     alignment and structure
>pdb|2HGJ|C Chain C, Crystal Structure Of The 70s Thermus Thermophilus Ribosome Showing How The 16s 3'-End Mimicks Mrna E And P Codons. This Entry 2hgj Contains 50s Ribosomal Subunit. The 30s Ribosomal Subunit Can Be Found In Pdb Entry 2hgi. Length = 229 Back     alignment and structure
>pdb|3U42|A Chain A, Mutant Ribosomal Protein L1 From Thermus Thermophilus With Threonine 217 Replaced By Valine Length = 229 Back     alignment and structure
>pdb|487D|H Chain H, Seven Ribosomal Proteins Fitted To A Cryo-Electron Microscopic Map Of The Large 50s Subunit At 7.5 Angstroms Resolution Length = 224 Back     alignment and structure
>pdb|1AD2|A Chain A, Ribosomal Protein L1 Mutant With Serine 179 Replaced By Cysteine Length = 228 Back     alignment and structure
>pdb|3ZVP|C Chain C, Crystal Structure Of The Hybrid State Of Ribosome In Complex With The Guanosine Triphosphatase Release Factor 3 Length = 229 Back     alignment and structure
>pdb|3BBO|D Chain D, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 352 Back     alignment and structure
>pdb|2V49|C Chain C, Structure Of The Ribosome Recycling Factor Bound To The Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And Trna-Fmet (Part 4 Of 4). This File Contains The 50s Subunit Of Molecule 2 Length = 229 Back     alignment and structure
>pdb|3QOY|A Chain A, Crystal Structure Of Ribosomal Protein L1 From Aquifex Aeolicus Length = 242 Back     alignment and structure
>pdb|2HW8|A Chain A, Structure Of Ribosomal Protein L1-Mrna Complex At 2.1 Resolution Length = 228 Back     alignment and structure
>pdb|1ZHO|A Chain A, The Structure Of A Ribosomal Protein L1 In Complex With Mrna Length = 228 Back     alignment and structure
>pdb|2GYA|2 Chain 2, 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 = 222 Back     alignment and structure
>pdb|2RDO|9 Chain 9, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound Length = 233 Back     alignment and structure
>pdb|3FIK|5 Chain 5, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry Consists Of The 50s Subunit. Length = 234 Back     alignment and structure
>pdb|3FIN|C Chain C, 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 = 191 Back     alignment and structure
>pdb|2OV7|A Chain A, The First Domain Of The Ribosomal Protein L1 From Thermus Thermophilus Length = 137 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 ?
Query304
2wwq_5234 50S ribosomal protein L1; ribosomal protein, ribon 8e-43
3bbo_D352 Ribosomal protein L1; large ribosomal subunit, spi 2e-42
3qoy_A242 50S ribosomal protein L1; beta-alpha-beta, structu 1e-41
4f9t_A229 50S ribosomal protein L1; rossman fold, RNA; HET: 1e-41
1mzp_A217 50S ribosomal protein L1P; ribosome, RNA-protein c 1e-34
1i2a_A219 50S ribosomal protein L1P; primary rRNA-binding pr 1e-32
3iz5_A216 60S ribosomal protein L1 (L1P); eukaryotic ribosom 3e-31
2zkr_5212 60S ribosomal protein L10A; protein-RNA complex, 6 1e-30
3o58_A217 L10A, 60S ribosomal protein L1; ribosomal RNA and 2e-30
2ftc_A189 Mitochondrial ribosomal protein L1; mitochondrial 1e-27
2ov7_A137 50S ribosomal protein L1; 2.30A {Thermus thermophi 4e-04
>2wwq_5 50S ribosomal protein L1; ribosomal protein, ribonucleoprotein, nucleotide-binding, protein biosynthesis, translation, zinc-finger; HET: 5MU; 5.80A {Escherichia coli} PDB: 3fik_5 3izt_C* 3izu_C* 3j01_5 3j0t_C* 3j0w_C* 3j0y_C* 3j11_C* 3j12_C* 3j14_C* 3kcr_5 2rdo_9 2gya_2 2gyc_2 Length = 234 Back     alignment and structure
 Score =  145 bits (369), Expect = 8e-43
 Identities = 50/131 (38%), Positives = 81/131 (61%), Gaps = 1/131 (0%)

Query: 174 SKKKESRPVLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDKK 233
            +K ++    D+ +AI  +K  A A F E+V+  V L I  RK++  VRG   LPHG  +
Sbjct: 12  REKVDATKQYDINEAIALLKELATAKFVESVDVAVNLGIDARKSDQNVRGATVLPHGTGR 71

Query: 234 AVRVAFFAEGADAEEARAAGADIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLFKISKI 293
           +VRVA F +GA+AE A+AAGA++VG  +L ++I   G+++ +   ++   M  + ++ ++
Sbjct: 72  SVRVAVFTQGANAEAAKAAGAELVGMEDLADQI-KKGEMNFDVVIASPDAMRVVGQLGQV 130

Query: 294 LNQHGLMPNPK 304
           L   GLMPNPK
Sbjct: 131 LGPRGLMPNPK 141
>3bbo_D Ribosomal protein L1; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 352 Back     alignment and structure
>3qoy_A 50S ribosomal protein L1; beta-alpha-beta, structural constituent of ribosome, rRNA BI regulation of translation, translation, ribosomal RNA; 2.10A {Aquifex aeolicus} Length = 242 Back     alignment and structure
>4f9t_A 50S ribosomal protein L1; rossman fold, RNA; HET: MPD; 1.46A {Thermus thermophilus} PDB: 3u4m_A 1eg0_N 1vsp_A 2hgj_C 2hgq_C 2hgu_C 1vsa_A 4abs_C 3zvp_C 1zho_A 1ml5_c* 1yl3_C 1giy_C 2hw8_A 2j01_C 2j03_C 2jl6_C 2jl8_C 2om7_K* 2v47_C ... Length = 229 Back     alignment and structure
>1mzp_A 50S ribosomal protein L1P; ribosome, RNA-protein complex; 2.65A {Sulfolobus acidocaldarius} SCOP: e.24.1.1 PDB: 1pnu_5 1pny_5 1vor_7 1vou_7 1vow_7 1voy_7 1vp0_7 3e1b_Z 3e1d_Z Length = 217 Back     alignment and structure
>1i2a_A 50S ribosomal protein L1P; primary rRNA-binding protein, translation repressor, ribosome; 1.85A {Methanocaldococcus jannaschii} SCOP: e.24.1.1 PDB: 1cjs_A 1u63_A 1dwu_A Length = 219 Back     alignment and structure
>2zkr_5 60S ribosomal protein L10A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 212 Back     alignment and structure
>3o58_A L10A, 60S ribosomal protein L1; ribosomal RNA and proteins, ribosome; 4.00A {Saccharomyces cerevisiae} PDB: 3izc_A 3izs_A 1s1i_A 3o5h_A 2noq_G 3j0l_B 3j0o_B 3j0p_B 3j0q_B 3jyw_A Length = 217 Back     alignment and structure
>2ftc_A Mitochondrial ribosomal protein L1; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} Length = 189 Back     alignment and structure
>2ov7_A 50S ribosomal protein L1; 2.30A {Thermus thermophilus} PDB: 2oum_A 2vpl_A Length = 137 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query304
3u42_A229 50S ribosomal protein L1; rossmann fold, rRNA bind 100.0
3qoy_A242 50S ribosomal protein L1; beta-alpha-beta, structu 100.0
2wwq_5234 50S ribosomal protein L1; ribosomal protein, ribon 100.0
3bbo_D352 Ribosomal protein L1; large ribosomal subunit, spi 100.0
2zkr_5212 60S ribosomal protein L10A; protein-RNA complex, 6 100.0
3j21_A216 50S ribosomal protein L1P; archaea, archaeal, KINK 100.0
1i2a_A219 50S ribosomal protein L1P; primary rRNA-binding pr 100.0
1mzp_A217 50S ribosomal protein L1P; ribosome, RNA-protein c 99.98
3iz5_A216 60S ribosomal protein L1 (L1P); eukaryotic ribosom 99.97
3o58_A217 L10A, 60S ribosomal protein L1; ribosomal RNA and 99.96
2ftc_A189 Mitochondrial ribosomal protein L1; mitochondrial 99.94
2ov7_A137 50S ribosomal protein L1; 2.30A {Thermus thermophi 99.24
>3u42_A 50S ribosomal protein L1; rossmann fold, rRNA binding, RNA binding; 1.35A {Thermus thermophilus} PDB: 3u56_A 3u4m_A 1eg0_N 1vsp_A 2hgj_C 2hgq_C 2hgu_C 1vsa_A 4f9t_A* 4abs_C 3zvp_C 1zho_A 1ml5_c* 1yl3_C 1giy_C 3umy_A 2hw8_A 2j01_C 2j03_C 2om7_K* ... Back     alignment and structure
Probab=100.00  E-value=1.7e-41  Score=308.38  Aligned_cols=129  Identities=43%  Similarity=0.671  Sum_probs=124.0

Q ss_pred             cccCCCCccCHHHHHHHHHHHcccCCCccEEEEEEEccCCCCCCceeeeEEEcCCCCCCCcEEEEEcCchhHHHHHHcCC
Q 022012          175 KKKESRPVLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDKKAVRVAFFAEGADAEEARAAGA  254 (304)
Q Consensus       175 ~k~ek~~~ysl~EAIr~lke~a~rkF~ETVEL~I~LnvD~kK~d~~~rGsV~LPh~~gK~~KIlVFadgd~aeeAkeAGA  254 (304)
                      .+.+....|++.|||+++|+.+.++|+||||++|+|++|++|++++|||+|.|||++|++.||||||+++.+++|++|||
T Consensus        13 ~~~d~~k~y~~~eAi~~lk~~~~~kF~etvel~i~L~vd~~k~dq~vrg~v~LP~g~gk~~kV~Vfa~~~~~~eAk~aGA   92 (229)
T 3u42_A           13 EKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGA   92 (229)
T ss_dssp             GSSCTTCCBCHHHHHHHHHHHCCSSSCCEEEEEEEESSCTTCGGGCCEEEEECSSSCSTTSCEEEECCTHHHHHHHHTTC
T ss_pred             hccCccCCCCHHHHHHHHHHhCCCCCCccEEEEEEEccCCCCCCCceeEEEECCCCCCCceEEEEecChHhHHHHHhcCC
Confidence            45567788999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeechHHHHHHHHhCCcccccEEEEcCcchhHHH-hhhhccCCCCCCCCCC
Q 022012          255 DIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLF-KISKILNQHGLMPNPK  304 (304)
Q Consensus       255 d~VGgeELIeKIkk~gkLdFD~~IATpdmMpkL~-kLGriLGPRGLMPnpK  304 (304)
                      ++||++|||++|+ +||++||+||||||||++|+ +||++|||||||||||
T Consensus        93 d~vG~~dLi~kIk-~g~~~fD~~iAtpd~m~~vg~~LG~iLGPrGlMPnpk  142 (229)
T 3u42_A           93 DYVGGEEIIQKIL-DGWMDFDAVVATPDVMGAVGSKLGRILGPRGLLPNPK  142 (229)
T ss_dssp             SEEECTHHHHHHH-TTCCCCSEEEECGGGHHHHHHHHHHHHHHHTCCCCGG
T ss_pred             ceeCcHHHHHHHh-cCCccccEEEEchHHHHHHHHhhccccccccccccCC
Confidence            9999999999998 79999999999999999998 5999999999999986
>3qoy_A 50S ribosomal protein L1; beta-alpha-beta, structural constituent of ribosome, rRNA BI regulation of translation, translation, ribosomal RNA; 2.10A {Aquifex aeolicus} Back     alignment and structure
>2wwq_5 50S ribosomal protein L1; ribosomal protein, ribonucleoprotein, nucleotide-binding, protein biosynthesis, translation, zinc-finger; HET: 5MU; 5.80A {Escherichia coli} PDB: 3fik_5 3izt_C* 3izu_C* 3j01_5 3j0t_C* 3j0w_C* 3j0y_C* 3j11_C* 3j12_C* 3j14_C* 3kcr_5 2rdo_9 2gya_2 2gyc_2 Back     alignment and structure
>3bbo_D Ribosomal protein L1; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Back     alignment and structure
>2zkr_5 60S ribosomal protein L10A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Back     alignment and structure
>3j21_A 50S ribosomal protein L1P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>1i2a_A 50S ribosomal protein L1P; primary rRNA-binding protein, translation repressor, ribosome; 1.85A {Methanocaldococcus jannaschii} SCOP: e.24.1.1 PDB: 1cjs_A 1u63_A 1dwu_A Back     alignment and structure
>1mzp_A 50S ribosomal protein L1P; ribosome, RNA-protein complex; 2.65A {Sulfolobus acidocaldarius} SCOP: e.24.1.1 PDB: 1pnu_5 1pny_5 1vor_7 1vou_7 1vow_7 1voy_7 1vp0_7 3e1b_Z 3e1d_Z Back     alignment and structure
>3o58_A L10A, 60S ribosomal protein L1; ribosomal RNA and proteins, ribosome; 4.00A {Saccharomyces cerevisiae} PDB: 3izc_A 1s1i_A 3izs_A 3o5h_A 2noq_G 3j0l_B 3j0o_B 3j0p_B 3j0q_B 3jyw_A Back     alignment and structure
>2ftc_A Mitochondrial ribosomal protein L1; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} Back     alignment and structure
>2ov7_A 50S ribosomal protein L1; 2.30A {Thermus thermophilus} PDB: 2oum_A 2vpl_A 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 304
d1ad2a_224 e.24.1.1 (A:) Ribosomal protein L1 {Thermus thermo 8e-23
d1mzpa_217 e.24.1.1 (A:) Ribosomal protein L1 {Archaeon Sulfo 1e-16
d1i2aa_212 e.24.1.1 (A:) Ribosomal protein L1 {Archaeon Metha 1e-15
>d1ad2a_ e.24.1.1 (A:) Ribosomal protein L1 {Thermus thermophilus [TaxId: 274]} Length = 224 Back     information, alignment and structure

class: Multi-domain proteins (alpha and beta)
fold: Ribosomal protein L1
superfamily: Ribosomal protein L1
family: Ribosomal protein L1
domain: Ribosomal protein L1
species: Thermus thermophilus [TaxId: 274]

 Score = 92.0 bits (228), Expect = 8e-23
 Identities = 54/131 (41%), Positives = 75/131 (57%), Gaps = 2/131 (1%)

Query: 175 KKKESRPVLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDKKA 234
           +K +   +  + +A   VK  A A FDETVE H +L I PR+++  VRGT++LPHG  K 
Sbjct: 8   EKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQ 67

Query: 235 VRVAFFAEGADAEEARAAGADIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLFK-ISKI 293
           VRV   A+G   +EA  AGAD VGG E I +    G +D +   +T   M  +   + +I
Sbjct: 68  VRVLAIAKGEKIKEAEEAGADYVGG-EEIIQKILDGWMDFDAVVATPDVMGAVGSKLGRI 126

Query: 294 LNQHGLMPNPK 304
           L   GL+PNPK
Sbjct: 127 LGPRGLLPNPK 137
>d1mzpa_ e.24.1.1 (A:) Ribosomal protein L1 {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Length = 217 Back     information, alignment and structure
>d1i2aa_ e.24.1.1 (A:) Ribosomal protein L1 {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 212 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 ?
Query304
d1ad2a_224 Ribosomal protein L1 {Thermus thermophilus [TaxId: 100.0
d1i2aa_212 Ribosomal protein L1 {Archaeon Methanococcus janna 100.0
d1mzpa_217 Ribosomal protein L1 {Archaeon Sulfolobus acidocal 100.0
>d1ad2a_ e.24.1.1 (A:) Ribosomal protein L1 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
class: Multi-domain proteins (alpha and beta)
fold: Ribosomal protein L1
superfamily: Ribosomal protein L1
family: Ribosomal protein L1
domain: Ribosomal protein L1
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=7.7e-39  Score=285.94  Aligned_cols=130  Identities=42%  Similarity=0.653  Sum_probs=123.9

Q ss_pred             ccccCCCCccCHHHHHHHHHHHcccCCCccEEEEEEEccCCCCCCceeeeEEEcCCCCCCCcEEEEEcCchhHHHHHHcC
Q 022012          174 SKKKESRPVLDLMDAIKQVKANAKATFDETVEAHVRLAIPPRKTELIVRGTMNLPHGDKKAVRVAFFAEGADAEEARAAG  253 (304)
Q Consensus       174 s~k~ek~~~ysl~EAIr~lke~a~rkF~ETVEL~I~LnvD~kK~d~~~rGsV~LPh~~gK~~KIlVFadgd~aeeAkeAG  253 (304)
                      .++.+....|++.|||+.+|+.+.++|+||||++|+|++|.+|++++|+|+|.|||+++++.+|||||+++.+++|+++|
T Consensus         7 ~~~~d~~k~ysi~EAi~~lk~~~~~kF~esvel~i~L~~~~~k~~~~i~g~v~LP~~~~k~~ki~v~~~~e~~~~Ak~aG   86 (224)
T d1ad2a_           7 LEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAG   86 (224)
T ss_dssp             TTSCCTTCCBCHHHHHHHHHTTCCSSSCCEEEEEEEESSCTTCGGGCCEEEEECSSSCSTTSCEEEECCTHHHHHHHHTT
T ss_pred             hhccCccCCcCHHHHHHHHHHcCCCCCCceEEEEEEEcccccccccccceeEEeccccccceeEEEecchHHHHHHHhcC
Confidence            35556677899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeechHHHHHHHHhCCcccccEEEEcCcchhHHHh-hhhccCCCCCCCCCC
Q 022012          254 ADIVGGLELIEEIASSGKLDVEKCFSTRQFMPRLFK-ISKILNQHGLMPNPK  304 (304)
Q Consensus       254 Ad~VGgeELIeKIkk~gkLdFD~~IATpdmMpkL~k-LGriLGPRGLMPnpK  304 (304)
                      |++|||+|||++|+ ++|++||+||||++||++|++ ||++|||||||||||
T Consensus        87 a~~vg~~eli~ki~-~~~~~fd~~ia~~~~m~~v~~~lgriLGprGlMP~pk  137 (224)
T d1ad2a_          87 ADYVGGEEIIQKIL-DGWMDFDAVVATPDVMGAVGSKLGRILGPRGLLPNPK  137 (224)
T ss_dssp             CSEEECGGGHHHHH-TTCCCCSEEEECGGGHHHHHHHHHHHHHHHTCSCCTT
T ss_pred             ccccCcHHHHHHHh-cCCccchhHHhHHHHHHHHHHhhhhccCcccCCCCCC
Confidence            99999999999998 799999999999999999975 999999999999997
>d1i2aa_ e.24.1.1 (A:) Ribosomal protein L1 {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure
>d1mzpa_ e.24.1.1 (A:) Ribosomal protein L1 {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Back     information, alignment and structure