Citrus Sinensis ID: 028473

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------21
Protein Sequence
MAKSLTKTPKFPRNKETNQRVSFNNKALFDAPSAVEMQRLCNKLRTLTLSSSRRLLFQSHAPIHRPFHSAPSSKWRLSPLFNYPSSSSSHITRCCSYPSPSLAAAPSLCSFRLPLSFIQVRHVSSRDRKKRRKPVTPVTSKVKKIKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKLNFCG
Secondary Structure (PSIPRED)
ccccccccccccccccccccEEccccccccccHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccHHccccccccccccccccHHccccccccccccEEEcccccEEEEccccccccccccHHHHHHccccccccHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccEEEEcccHccccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEHcHHHHHcccccccccccEEEEEEEcccccHHHHEEEcccccEEEcccccccccccccHHHHHHHcccccHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
maksltktpkfprnketnqrVSFNnkalfdapsAVEMQRLCNKLRTLTLsssrrllfqshapihrpfhsapsskwrlsplfnypssssshitrccsypspslaaapslcsfrlplsFIQVRHVssrdrkkrrkpvtpvtsKVKKIKMKSYSSYKSrfrtmndgqvrrwhegkrhnahlkskkskrrlrqpalVPLAYAKVMKKLNFCG
Flexible Loop (DISEMBL)
maksltktpkfprnketnqrvsfnnKALFDAPSAVEMQRLCNKLRTLTLSSSRRLLFQSHAPIHRPFHSAPSSKWRLSPLFNYPSSSSSHITRCCSYPSPSLAAAPSLCSFRLPLSFIQVrhvssrdrkkrrkpvtpvtskvkkikmksyssyksrfrtmndgqvrrwhegkrhnahlkskkskrrlrqpalvplAYAKVMKKLNFCG
Low Complexity Region (SEG)
MAKSLTKTPKFPRNKETNQRVSFNNKALFDAPSAVEMQRLCNKlrtltlsssrrllFQSHAPIHRPFHSAPSSKWRLSPLFNYPsssssHITRccsypspslaaapslcsFRLPLSFIQVRHVSSRDRKKRRkpvtpvtskvkkikmksyssyksRFRTMNDGQVRRWHEGKRHNAHlkskkskrrlrQPALVPLAYAKVMKKLNFCG
Disordered region (IsUnstruct)
****************************F****AVEMQRLCNKLRTLTLSSSRRLLFQSH****************L**LFN*******HITRCCSYPSPSLAAAPSLCSFRLPLSFIQVRH*********************************************************************LVPLAYAKVMKKL****
Disordered Region (DISOPRED)
*********************SFNNKALFDAPSAVEMQRLCNKLRTLTLSSSRR*********************R*SPLFNY**********************************************************************KSRFRTMNDGQVRR*************************VPLAYAKVMKKLNFC*
Disordered Region (DISEMBL)
*********KFPRNKETNQRVSFNNKALFDAPSAVEMQRLCNKLRTLTLSSSRRLLFQSHAPIHRPFHSAPSSKWRLSPLFNY**********CCSYPSPSLAAAPSLCSFRLPLSFIQVR**********************KIKMKSYSSYKSRFRTMNDGQVRRWH*****************LRQPALVPLAYAKVMKKLNFCG
Disordered Region (DISPRO)
*******TPKFPRNKETNQRVSFNNKALFDAPSAVEMQRLCNKLRTLTLSSSRRLLFQSHAPIHRPFHSAPSSKWRLSPLFNYPSSSSSHITRCCSYPSPSLAAAPSLCSFRLPLSFIQVRHVSSRDRKKRRKPVTPVTSKVKKIKMKSYSSYKSRFRTMNDGQVRRWHE*************KRRLRQPALVPLAYAKVMKKLNFCG
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAKSLTKTPKFPRNKETNQRVSFNNKALFDAPSAVEMQRLCNKLRTLTLSSSRRLLFQSHAPIHRPFHSAPSSKWRLSPLFNYPSSSSSHITRCCSYPSPSLAAAPSLCSFRLPLSFIQVRHVSSRDRKKRRKPVTPVTSKVKKIKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKLNFCG
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	208
224071431	167	predicted protein [Populus trichocarpa]	0.788	0.982	0.64	3e-46
440583722	196	similar to 50S ribosomal protein L35 [Lu	0.745	0.790	0.528	3e-36
357484741	157	50S ribosomal protein L35 [Medicago trun	0.716	0.949	0.614	3e-36
358248355	156	uncharacterized protein LOC100814427 [Gl	0.668	0.891	0.591	5e-36
224138324	123	predicted protein [Populus trichocarpa]	0.447	0.756	0.795	8e-36
297791165	170	structural constituent of ribosome [Arab	0.783	0.958	0.502	1e-35
18422571	173	Ribosomal protein L35 [Arabidopsis thali	0.798	0.959	0.502	2e-35
356531483	155	PREDICTED: uncharacterized protein LOC10	0.677	0.909	0.543	4e-33
255647366	155	unknown [Glycine max]	0.677	0.909	0.538	1e-32
225463238	165	PREDICTED: uncharacterized protein LOC10	0.735	0.927	0.565	2e-31

>gi|224071431|ref|XP_002303456.1| predicted protein [Populus trichocarpa] gi|222840888|gb|EEE78435.1| predicted protein [Populus trichocarpa]

 Score =  190 bits (483), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 112/175 (64%), Positives = 126/175 (72%), Gaps = 11/175 (6%)

Query: 37  MQRLCNKLRTL-TLSSSRRLLFQSHAPIHRPFH-SAPSSKWRLSP-LFNYPSSSSSHITR 93
           MQRLC KLR+L ++SSS RLL       HR  H +A S KW L+  L N  SS    +  
Sbjct: 1   MQRLCTKLRSLASVSSSHRLLHPPPQSYHRHLHFAAASRKWNLNGSLLNTSSSLPIQL-- 58

Query: 94  CCSYPSPSLAAAPSLCSFRLPLSFIQVRHVSSRDRKKRRKPVTPVTSKVKKIKMKSYSSY 153
                 PS+AA  S    +LP S +QVRHVSSR+RKKRRKP+TP TSKVKKIKMK+YSSY
Sbjct: 59  ------PSVAAMSSSRLSQLPHSLVQVRHVSSRERKKRRKPMTPRTSKVKKIKMKAYSSY 112

Query: 154 KSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKLNFCG 208
           K RFRTMNDG +RRW EGK HNAH KSKKSKRRLRQP+ VP AYAKVMKKLNFCG
Sbjct: 113 KERFRTMNDGTIRRWREGKNHNAHSKSKKSKRRLRQPSTVPAAYAKVMKKLNFCG 167

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|440583722|emb|CCH47224.1| similar to 50S ribosomal protein L35 [Lupinus angustifolius]

 Score =  157 bits (397), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 94/178 (52%), Positives = 112/178 (62%), Gaps = 23/178 (12%)

Query: 37  MQRLCNKLRTLTLSSSRRLL-------FQSHAPIHRPFHSAPSSKWRLSPLFNYPSSSSS 89
           MQR   KLR+  ++ SR+ L       F  HAP     HS  S+     P+FN+ SS S 
Sbjct: 1   MQRCATKLRSFAVNYSRQSLPTPSPRRFFHHAPPQPFIHSLASTNLISRPIFNF-SSFSP 59

Query: 90  HITRCCSYPSPSLAAAPSLCSFRLPLSFIQVRHVSSRDRKKRRKPVTPVTSKVKKIKMKS 149
              R   +P+  L               +QVRHVSSR+RKKRRKP+TPVTSK+KK KMKS
Sbjct: 60  QSFRPSPFPTSLL---------------VQVRHVSSRERKKRRKPMTPVTSKLKKTKMKS 104

Query: 150 YSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKLNFC 207
           YSS+K RFR MNDG +RRW EGKRHNAHLKSK SKRRLR+P +VP AYAK +K L  C
Sbjct: 105 YSSFKLRFRVMNDGNIRRWKEGKRHNAHLKSKISKRRLRKPGIVPAAYAKFLKGLKGC 162

Source: Lupinus angustifolius

Species: Lupinus angustifolius

Genus: Lupinus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357484741|ref|XP_003612658.1| 50S ribosomal protein L35 [Medicago truncatula] gi|355513993|gb|AES95616.1| 50S ribosomal protein L35 [Medicago truncatula]

 Score =  157 bits (396), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 110/179 (61%), Positives = 124/179 (69%), Gaps = 30/179 (16%)

Query: 37  MQRLCNKLRTLTLSS----SRRLLFQSHAPIHRPFHSA---PSSKWRLSPLFNYPSSSSS 89
           MQRL  KLR+L + S    SRR L   H  + +P HSA   P S+    PLFN+ S SS 
Sbjct: 2   MQRLLPKLRSLAVQSLQPSSRRFL---HHSLPQPLHSASINPISR----PLFNF-SPSSL 53

Query: 90  HITRCCSYPSPSLAAAPSLCSFRLPLSFIQVRHVSSRDRKKRRKPVTPVTSKVKKIKMKS 149
           H     S PSP    +PSL         +QVRHVSSR+RKK+RKP+TPV SK+KK KMKS
Sbjct: 54  H----KSLPSP---FSPSLV--------LQVRHVSSRERKKKRKPMTPVKSKLKKTKMKS 98

Query: 150 YSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKLNFCG 208
           YSSYKSRFR MNDG  RRW EGKRHNAHLKSK +KRRLR PALVP+AYAKVMKKL FCG
Sbjct: 99  YSSYKSRFRLMNDGTFRRWREGKRHNAHLKSKIAKRRLRLPALVPVAYAKVMKKLGFCG 157

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358248355|ref|NP_001240123.1| uncharacterized protein LOC100814427 [Glycine max] gi|255647090|gb|ACU24013.1| unknown [Glycine max]

 Score =  156 bits (394), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 97/164 (59%), Positives = 112/164 (68%), Gaps = 25/164 (15%)

Query: 45  RTLTLSSSRRLLFQSHAPIHRPFHSAPSSKWRLSPLFNYPSSSSSHITRCCSYPSPSLAA 104
           + L+  SSRRLL   H+P  +P HSA  S +R+S     PS  SS      S+PSPSL  
Sbjct: 18  QVLSPPSSRRLLH--HSPPPQPLHSA--SNFRIS----RPSFISSSWPLHASHPSPSL-- 67

Query: 105 APSLCSFRLPLSFIQVRHVSSRDRKKRRKPVTPVTSKVKKIKMKSYSSYKSRFRTMNDGQ 164
                        +QVRH SS++RK  RKPV P  SKVKK KMKSYSS+KSRFRTMNDG 
Sbjct: 68  -------------VQVRHASSKERK--RKPVPPTVSKVKKTKMKSYSSFKSRFRTMNDGN 112

Query: 165 VRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKLNFCG 208
           +RRW EGKRHNAHLKSKKSKRRLR+P +VP+AYAKVMKKLNF  
Sbjct: 113 IRRWKEGKRHNAHLKSKKSKRRLRKPGIVPVAYAKVMKKLNFSA 156

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224138324|ref|XP_002326574.1| predicted protein [Populus trichocarpa] gi|222833896|gb|EEE72373.1| predicted protein [Populus trichocarpa]

 Score =  155 bits (393), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 74/93 (79%), Positives = 83/93 (89%)

Query: 115 LSFIQVRHVSSRDRKKRRKPVTPVTSKVKKIKMKSYSSYKSRFRTMNDGQVRRWHEGKRH 174
           L  +QVRHVSSR+RKK RKP+TP+TSKVKK KMK+YSSYK RFRTMNDG +RRW EGK H
Sbjct: 30  LQLVQVRHVSSRERKKNRKPMTPLTSKVKKFKMKAYSSYKDRFRTMNDGTIRRWREGKNH 89

Query: 175 NAHLKSKKSKRRLRQPALVPLAYAKVMKKLNFC 207
           NAHLKSKKS+RRLRQP+ VP AYAKVMKKL+FC
Sbjct: 90  NAHLKSKKSRRRLRQPSTVPAAYAKVMKKLSFC 122

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297791165|ref|XP_002863467.1| structural constituent of ribosome [Arabidopsis lyrata subsp. lyrata] gi|297309302|gb|EFH39726.1| structural constituent of ribosome [Arabidopsis lyrata subsp. lyrata]

 Score =  155 bits (392), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 89/177 (50%), Positives = 120/177 (67%), Gaps = 14/177 (7%)

Query: 37  MQRLCNKLRTLTLSSSRRLLFQSHAPIHRPFHSAPSSKWRLSPLFNYPSSSSSHITRCCS 96
           MQR C KLR+++L S+R L F   AP HR  H +P+    L+    + +S     T+   
Sbjct: 1   MQRFCTKLRSISLQSNRNLSFSGAAP-HRLIHHSPTR--HLTTTLGFANS-----TKWSF 52

Query: 97  YPSPSLA--AAPSLCSFRLPLSFIQVRHVSSRDRKKRR----KPVTPVTSKVKKIKMKSY 150
            P+  ++     S+ S  +P  F+QVR+++S+++  +     +P TP+TSKVKK+K+K Y
Sbjct: 53  LPAAGVSPLNISSMGSTFVPHHFVQVRNITSKEKMAKWKKKWRPRTPITSKVKKVKIKFY 112

Query: 151 SSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKLNFC 207
           SS+K RF+ +NDG +RRW EGKRHNAHLKSKKSKRRLRQP LVP AYAKVMKKLNFC
Sbjct: 113 SSFKDRFKPLNDGTIRRWKEGKRHNAHLKSKKSKRRLRQPGLVPPAYAKVMKKLNFC 169

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18422571|ref|NP_568647.1| Ribosomal protein L35 [Arabidopsis thaliana] gi|21593524|gb|AAM65491.1| unknown [Arabidopsis thaliana] gi|26450411|dbj|BAC42320.1| unknown protein [Arabidopsis thaliana] gi|28827502|gb|AAO50595.1| unknown protein [Arabidopsis thaliana] gi|332007889|gb|AED95272.1| Ribosomal protein L35 [Arabidopsis thaliana]

 Score =  154 bits (389), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 89/177 (50%), Positives = 121/177 (68%), Gaps = 11/177 (6%)

Query: 37  MQRLCNKLRTLTLSSSRRLLFQSHAPIHRPFHSAPS-SKWRLSPLFNYPSSSS-SHITRC 94
           MQR C KLR+++L S+R L F   +P HR  H +PS S+   +    + +S+  S +   
Sbjct: 1   MQRFCTKLRSISLQSNRNLSFYGASP-HRLIHHSPSPSRHLTTTTLGFANSTKWSFVPAA 59

Query: 95  CSYPSPSLAAAPSLCSFRLPLSFIQVRHVSSRDRKKRR----KPVTPVTSKVKKIKMKSY 150
             +PS       S+ +  +P  F+QVR+++S+++  +     +P TP+TSKVKK+K+K Y
Sbjct: 60  GVFPS----NVSSMGTTFVPHHFVQVRNITSKEKMAKWKKKWRPRTPITSKVKKVKIKFY 115

Query: 151 SSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKLNFC 207
           SS+K RF+ +NDG +RRW EGKRHNAHLKSKKSKRRLRQP LVP AYAKVMKKLNFC
Sbjct: 116 SSFKDRFKPLNDGTIRRWKEGKRHNAHLKSKKSKRRLRQPGLVPPAYAKVMKKLNFC 172

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356531483|ref|XP_003534307.1| PREDICTED: uncharacterized protein LOC100808184 [Glycine max]

 Score =  146 bits (369), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 99/182 (54%), Positives = 109/182 (59%), Gaps = 41/182 (22%)

Query: 37  MQRLCNKLRTLTLSS--------SRRLLFQSHAPIHRPFHSAPSSKWRLSPLFNYPSSSS 88
           M R   KLR L + S        SRRLL   H P  +  HSA           N+  SS 
Sbjct: 1   MLRSLTKLRCLAVQSRQVLSPPSSRRLLH--HLPPPQSLHSAS----------NFRISSP 48

Query: 89  SHITRCC----SYPSPSLAAAPSLCSFRLPLSFIQVRHVSSRDRKKRRKPVTPVTSKVKK 144
           S I   C    S PSPSL               +QVRH SS++RK  RKPV P  SKVKK
Sbjct: 49  SFIFSWCPPHASQPSPSL---------------VQVRHASSKERK--RKPVPPTVSKVKK 91

Query: 145 IKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL 204
            KMKSYSS+KSRFR MNDG +RRW EGKRHNAHLKSKKSKRRLR+P +VP AYAKVMKKL
Sbjct: 92  TKMKSYSSFKSRFRAMNDGNIRRWKEGKRHNAHLKSKKSKRRLRKPGIVPAAYAKVMKKL 151

Query: 205 NF 206
           NF
Sbjct: 152 NF 153

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255647366|gb|ACU24149.1| unknown [Glycine max]

 Score =  145 bits (365), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 98/182 (53%), Positives = 108/182 (59%), Gaps = 41/182 (22%)

Query: 37  MQRLCNKLRTLTLSS--------SRRLLFQSHAPIHRPFHSAPSSKWRLSPLFNYPSSSS 88
           M R   KLR L + S        SRRLL   H P  +  HSA           N+  SS 
Sbjct: 1   MLRSLTKLRCLAVQSRQVLSPPSSRRLLH--HLPPPQSLHSAS----------NFRISSP 48

Query: 89  SHITRCC----SYPSPSLAAAPSLCSFRLPLSFIQVRHVSSRDRKKRRKPVTPVTSKVKK 144
           S I   C    S PSPSL               +QVRH SS++RK  RKPV P  SKVKK
Sbjct: 49  SFIFSWCPPHASQPSPSL---------------VQVRHASSKERK--RKPVPPTVSKVKK 91

Query: 145 IKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL 204
            KMKSYSS+KSRFR MNDG +RRW EGKRHNAHLKSKKSKRRLR+P +VP AY KVMKKL
Sbjct: 92  TKMKSYSSFKSRFRAMNDGNIRRWKEGKRHNAHLKSKKSKRRLRKPGIVPAAYTKVMKKL 151

Query: 205 NF 206
           NF
Sbjct: 152 NF 153

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225463238|ref|XP_002273609.1| PREDICTED: uncharacterized protein LOC100240778 [Vitis vinifera]

 Score =  141 bits (355), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 104/184 (56%), Positives = 116/184 (63%), Gaps = 31/184 (16%)

Query: 37  MQRLCNKLRTLTLSSS---------RRLLFQSHAP-IHRPFHSAPSSKWRLSPLFNYPSS 86
           MQR C KL +L  S           RRLL   H+P  HR   SA  +     PLFN  +S
Sbjct: 1   MQRWCAKLGSLATSWQNQPFMAPQWRRLL--HHSPQFHRSLPSASITTSNFVPLFNAAAS 58

Query: 87  SSS--HITRCCSYPSPSLAAAPSLCSFRLPLSFIQVRHVSSRDRKKRRKPVTPVTSKVKK 144
           SS   H  R                S  LPL  + VRH SS+D+ KRR P+TPVTSK+KK
Sbjct: 59  SSMAAHFFR----------------SSLLPLYVVPVRHFSSKDKNKRR-PITPVTSKIKK 101

Query: 145 IKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL 204
           IKMKSYSS+K RFR MNDG +RRW EGKRHNAHLKSKK+KRRLRQPALVP AYAKVMKKL
Sbjct: 102 IKMKSYSSFKMRFRVMNDGNIRRWREGKRHNAHLKSKKAKRRLRQPALVPAAYAKVMKKL 161

Query: 205 NFCG 208
           NFC 
Sbjct: 162 NFCA 165

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	208
TAIR|locus:2157151	173	AT5G45590 [Arabidopsis thalian	0.456	0.549	0.414	1.2e-19

TAIR|locus:2157151 AT5G45590 [Arabidopsis thaliana (taxid:3702)]

 Score = 196 (74.1 bits), Expect = 1.2e-19, Sum P(2) = 1.2e-19
 Identities = 41/99 (41%), Positives = 53/99 (53%)

Query:   113 LPLSFIQVRHVSSRDR----KKRRXXXXXXXXXXXXXXXXXXXXXXXRFRTMNDGQVRRW 168
             +P  F+QVR+++S+++    KK+                        RF+ +NDG +RRW
Sbjct:    74 VPHHFVQVRNITSKEKMAKWKKKWRPRTPITSKVKKVKIKFYSSFKDRFKPLNDGTIRRW 133

Query:   169 HEGKRHNAHXXXXXXXXXXXQPALVPLAYAKVMKKLNFC 207
              EGKRHNAH           QP LVP AYAKVMKKLNFC
Sbjct:   134 KEGKRHNAHLKSKKSKRRLRQPGLVPPAYAKVMKKLNFC 172

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

GO:0005622 "intracellular" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	208
PRK00172	65	PRK00172, rpmI, 50S ribosomal protein L35; Reviewe	2e-09
COG0291	65	COG0291, RpmI, Ribosomal protein L35 [Translation,	6e-08
TIGR00001	63	TIGR00001, rpmI_bact, ribosomal protein L35	1e-05
pfam01632	61	pfam01632, Ribosomal_L35p, Ribosomal protein L35	7e-05

>gnl|CDD|234676 PRK00172, rpmI, 50S ribosomal protein L35; Reviewed

 Score = 51.7 bits (125), Expect = 2e-09
 Identities = 26/59 (44%), Positives = 35/59 (59%)

Query: 146 KMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL 204
           KMK+ S    RF+    G+V+R H GKRH    KS K KR+LR   +V  A AK +K++
Sbjct: 3   KMKTKSGAAKRFKVTGSGKVKRKHAGKRHILTKKSTKRKRQLRGTTVVSKADAKRVKRM 61

Length = 65

>gnl|CDD|223368 COG0291, RpmI, Ribosomal protein L35 [Translation, ribosomal structure and biogenesis]

 Score = 47.6 bits (114), Expect = 6e-08
 Identities = 25/59 (42%), Positives = 34/59 (57%)

Query: 146 KMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL 204
           KMK+      RF+    G+++R H GKRH    KS K KR LR+ A+V  A  K +K+L
Sbjct: 3   KMKTKKGAAKRFKITGTGKIKRKHAGKRHILTKKSTKRKRHLRKTAVVSKADLKRVKRL 61

Length = 65

>gnl|CDD|129113 TIGR00001, rpmI_bact, ribosomal protein L35

 Score = 41.5 bits (98), Expect = 1e-05
 Identities = 23/59 (38%), Positives = 33/59 (55%)

Query: 146 KMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL 204
           KMK++ +   RF+    G+++R   GKRH    KS K KR LR+ A+V     K +K L
Sbjct: 2   KMKTHKAAAKRFKITGSGKIKRKKAGKRHLLTKKSSKRKRNLRKKAIVSAGDLKRVKLL 60

This ribosomal protein is found in bacteria and organelles only. It is not closely related to any eukaryotic or archaeal ribosomal protein [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 63

>gnl|CDD|145004 pfam01632, Ribosomal_L35p, Ribosomal protein L35

 Score = 39.2 bits (92), Expect = 7e-05
 Identities = 25/59 (42%), Positives = 34/59 (57%)

Query: 146 KMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL 204
           KMK+  +   RF+    G+++R   GKRH    KS K KRRLR+  LV  + AK + KL
Sbjct: 2   KMKTVKAAAKRFKRTASGKIKRRKAGKRHLLTKKSTKRKRRLRKKVLVSKSDAKRVDKL 60

Length = 61

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	208
CHL00103	65	rpl35 ribosomal protein L35	99.89
PRK00172	65	rpmI 50S ribosomal protein L35; Reviewed	99.89
COG0291	65	RpmI Ribosomal protein L35 [Translation, ribosomal	99.88
TIGR00001	63	rpmI_bact ribosomal protein L35. This ribosomal pr	99.88
PF01632	61	Ribosomal_L35p: Ribosomal protein L35; InterPro: I	99.85
KOG4316	172	consensus Uncharacterized conserved protein [Funct	87.56

>CHL00103 rpl35 ribosomal protein L35

Probab=99.89  E-value=6.2e-24  Score=153.94  Aligned_cols=61  Identities=28%  Similarity=0.331  Sum_probs=59.8

Q ss_pred             ccCcccCcccccceEeccCccEEeecCCcccccCCCChHHHhhcCCCeeeChhcHHHHHhc
Q 028473          144 KIKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL  204 (208)
Q Consensus       144 mpKMKThKgAkKRFKVTgSGKIKRkrAGKrHlLtKKSsKRKRrLRK~~~VskaD~KrIKkm  204 (208)
                      |||||||+||+|||+|||+|||+|.+||++|++++||.+++|+|+++.+|+++|+++|++|
T Consensus         1 MpKmKT~k~a~KRFKvT~sGKvkr~~a~k~H~l~kKs~krkR~L~~~~~v~~~d~~~ik~~   61 (65)
T CHL00103          1 MPKLKTRKAAAKRYKKTGNGKFLRRKAFKSHLLQKKSSKQKRKLSQTVCVSKGDSKSIKLM   61 (65)
T ss_pred             CCccccchhhhheeEecCCCCEEeccCCccccccCCCHHHHHhcCCCeeECHHHHHHHHHh
Confidence            6999999999999999999999999999999999999999999999999999999999886

>PRK00172 rpmI 50S ribosomal protein L35; Reviewed

Probab=99.89  E-value=1.6e-23  Score=151.08  Aligned_cols=61  Identities=43%  Similarity=0.546  Sum_probs=59.6

Q ss_pred             ccCcccCcccccceEeccCccEEeecCCcccccCCCChHHHhhcCCCeeeChhcHHHHHhc
Q 028473          144 KIKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL  204 (208)
Q Consensus       144 mpKMKThKgAkKRFKVTgSGKIKRkrAGKrHlLtKKSsKRKRrLRK~~~VskaD~KrIKkm  204 (208)
                      |||||||+||+|||++||+|||+|++||++|++++||.+++|+|+++.+|+++|+++|++|
T Consensus         1 MpKmKT~k~akKRFk~T~~GKi~r~~a~k~H~~~~Ks~k~kR~lr~~~~v~~~~~k~ik~~   61 (65)
T PRK00172          1 MPKMKTKSGAAKRFKVTGSGKVKRKHAGKRHILTKKSTKRKRQLRGTTVVSKADAKRVKRM   61 (65)
T ss_pred             CCCcccchhhhheeEEcCCCCEEeccCCCccccccCCHHHHHhcCCCeeECHHHHHHHHHh
Confidence            6999999999999999999999999999999999999999999999999999999999974

>COG0291 RpmI Ribosomal protein L35 [Translation, ribosomal structure and biogenesis]

Probab=99.88  E-value=1.7e-23  Score=152.66  Aligned_cols=61  Identities=41%  Similarity=0.532  Sum_probs=59.6

Q ss_pred             ccCcccCcccccceEeccCccEEeecCCcccccCCCChHHHhhcCCCeeeChhcHHHHHhc
Q 028473          144 KIKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL  204 (208)
Q Consensus       144 mpKMKThKgAkKRFKVTgSGKIKRkrAGKrHlLtKKSsKRKRrLRK~~~VskaD~KrIKkm  204 (208)
                      ||||||++||+|||++||+|||+|++||++|++++|+.+++|+||+..+|+++|.++|++|
T Consensus         1 MPKmKT~k~aaKRFK~T~~Gkikr~~A~k~H~l~kKs~k~kR~Lr~~~~v~~~d~k~v~~~   61 (65)
T COG0291           1 MPKMKTKKGAAKRFKITGTGKIKRKHAGKRHILTKKSTKRKRHLRKTAVVSKADLKRVKRL   61 (65)
T ss_pred             CCccchhhhhHhheeecCCCcEEecccccccccccCCHHHHHhccCCceeCHHHHHHHHHh
Confidence            7999999999999999999999999999999999999999999999999999999999875

>TIGR00001 rpmI_bact ribosomal protein L35

Probab=99.88  E-value=4.6e-23  Score=148.06  Aligned_cols=60  Identities=38%  Similarity=0.491  Sum_probs=58.9

Q ss_pred             cCcccCcccccceEeccCccEEeecCCcccccCCCChHHHhhcCCCeeeChhcHHHHHhc
Q 028473          145 IKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL  204 (208)
Q Consensus       145 pKMKThKgAkKRFKVTgSGKIKRkrAGKrHlLtKKSsKRKRrLRK~~~VskaD~KrIKkm  204 (208)
                      ||||||+||+|||++||+|||+|++||++|++++|+.+++|+|+++++|+++|+++|++|
T Consensus         1 pKmKT~~~akKRFK~T~tGKvkr~~a~k~H~l~~Ks~k~kR~L~~~~~v~~~~~~~ik~~   60 (63)
T TIGR00001         1 PKMKTHKAAAKRFKITGSGKIKRKKAGKRHLLTKKSSKRKRNLRKKAIVSAGDLKRVKLL   60 (63)
T ss_pred             CCcccchhhhhheEEcCCCCEEecccCcccccccCCHHHHHhcCCCeeECHHHHHHHHHh
Confidence            799999999999999999999999999999999999999999999999999999999986

This ribosomal protein is found in bacteria and organelles only. It is not closely related to any eukaryotic or archaeal ribosomal protein.

>PF01632 Ribosomal_L35p: Ribosomal protein L35; InterPro: IPR021137 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.85  E-value=2.1e-22  Score=142.99  Aligned_cols=60  Identities=45%  Similarity=0.565  Sum_probs=54.3

Q ss_pred             cCcccCcccccceEeccCccEEeecCCcccccCCCChHHHhhcCCCeeeChhcHHHHHhc
Q 028473          145 IKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL  204 (208)
Q Consensus       145 pKMKThKgAkKRFKVTgSGKIKRkrAGKrHlLtKKSsKRKRrLRK~~~VskaD~KrIKkm  204 (208)
                      ||||||+|++|||++||||+|+|++||++|++++||.+++|+|++..+|+++|++.|++|
T Consensus         1 pKmKT~k~a~KRFk~t~sGkikr~~agk~H~~~~Ks~krkr~Lr~~~~v~~~~~k~ikkl   60 (61)
T PF01632_consen    1 PKMKTHKSAAKRFKVTGSGKIKRKRAGKRHLLTKKSSKRKRRLRKTTLVHKADVKRIKKL   60 (61)
T ss_dssp             ---S-HHHHHTTEEEESSSEEEEE-SSSSSSSSSSSCHCTTTTSCEEESSSHHHHHHTTT
T ss_pred             CCccchhhhHhheeEcCCCeEEeccCCcccccccCCHHHHHHcCCCEEECHHHHHHHHHh
Confidence            799999999999999999999999999999999999999999999999999999999986

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. L35 is a basic protein of 60 to 70 amino-acid residues from the large subunit []. Like many basic polypeptides, L35 completely inhibits ornithine decarboxylase when present unbound in the cell, but the inhibitory function is abolished upon its incorporation into ribosomes []. It belongs to a family of ribosomal proteins, including L35 from bacteria, plant chloroplast, red algae chloroplasts and cyanelles. In plants it is a nuclear encoded gene product, which suggests a chloroplast-to-nucleus relocation during the evolution of higher plants [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2QBE_3 2QBG_3 3SGF_7 2QOV_3 3J0Y_6 3I22_3 3E1D_W 1VS6_3 2VHN_3 1VS8_3 ....

>KOG4316 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.56  E-value=0.18  Score=43.28  Aligned_cols=61  Identities=21%  Similarity=0.265  Sum_probs=56.8

Q ss_pred             ccCcccCcccccceEeccCccEEeecCCcccccCCCChHHHhhcCCCeeeChhcHHHHHhc
Q 028473          144 KIKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL  204 (208)
Q Consensus       144 mpKMKThKgAkKRFKVTgSGKIKRkrAGKrHlLtKKSsKRKRrLRK~~~VskaD~KrIKkm  204 (208)
                      +.|.||-+++-+||+-...|--.|.++|+.-++-+|+.-.+++|.....-++++-+.+.+|
T Consensus        77 kGkrktvkaVldRFkRL~~G~WIr~h~Gr~Kkl~kK~~a~~krl~~~vfcnktQs~lLDKm  137 (172)
T KOG4316|consen   77 KGKRKTVKAVLDRFKRLHCGLWIRAHPGRHKKLYKKDEAWQKRLLYYVFCNKTQSELLDKM  137 (172)
T ss_pred             hcccccHHHHHHHHHhcccCeeeeecCchhhhhhhcCHHHHHHHHHhheechHHHHHHHHH
Confidence            5788999999999999999999999999999999999999999999999999988888776

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	208
3bbo_5	159	Ribosomal protein L35; large ribosomal subunit, sp	4e-09
3r8s_3	64	50S ribosomal protein L35; protein biosynthesis, R	4e-09
3v2d_8	65	50S ribosomal protein L35; ribosome associated inh	1e-08
2zjr_3	66	50S ribosomal protein L35; ribosome, large ribosom	2e-04

>3bbo_5 Ribosomal protein L35; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 159

 Score = 52.8 bits (126), Expect = 4e-09
 Identities = 23/107 (21%), Positives = 47/107 (43%)

Query: 98  PSPSLAAAPSLCSFRLPLSFIQVRHVSSRDRKKRRKPVTPVTSKVKKIKMKSYSSYKSRF 157
            + +L+++ S+ S ++    ++ + +S+ D        +      K  KMK++ +   RF
Sbjct: 43  STLNLSSSSSISSSKVQPIVLKNKRISTVDSSVSTSSPSFTVFAAKGYKMKTHKASAKRF 102

Query: 158 RTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL 204
           R    G++ R   GK+H    K+ K K RL +   V  +    +   
Sbjct: 103 RVTGKGKIVRRRAGKQHLLAKKNTKRKNRLSKLIQVDRSDYDNVIGA 149

>3r8s_3 50S ribosomal protein L35; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 2awb_3 2aw4_3 2i2v_3 2j28_3 2i2t_3* 2qao_3* 2qba_3* 2qbc_3* 2qbe_3 2qbg_3 2qbi_3* 2qbk_3* 2qov_3 2qox_3 2qoz_3* 2qp1_3* 2rdo_3 2vhm_3 2vhn_3 2wwq_7* ... Length = 64

 Score = 50.3 bits (121), Expect = 4e-09
 Identities = 16/59 (27%), Positives = 24/59 (40%)

Query: 146 KMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL 204
           K+K+      RF+    G  +  H   RH    K+ K KR LR  A+V      ++   
Sbjct: 2   KIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIAC 60

>3v2d_8 50S ribosomal protein L35; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_a 2hgj_7 2hgq_7 2hgu_7 1vsa_a 2j03_8 2jl6_8 2jl8_8 2v47_8 2v49_8 2wdi_8 2wdj_8 2wdl_8 2wdn_8 2wh2_8 2wh4_8 2wrj_8 2wrl_8 2wro_8 2wrr_8 ... Length = 65

 Score = 48.8 bits (117), Expect = 1e-08
 Identities = 18/59 (30%), Positives = 28/59 (47%)

Query: 146 KMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL 204
           KMK++   K R +    G+V     GKRH    KS K  R+  +  ++    A+ +K L
Sbjct: 3   KMKTHKGAKKRVKITASGKVVAMKTGKRHLNWQKSGKEIRQKGRKFVLAKPEAERIKLL 61

>2zjr_3 50S ribosomal protein L35; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.301.1.1 PDB: 2zjp_3* 1sm1_3 2zjq_3 3cf5_3* 3dll_3* 3pio_3* 3pip_3* 1nwy_3* 1nwx_3* 1xbp_3* 1nkw_3 1yl3_8 2b66_8 2b9n_8 2b9p_8 1pnu_3 1pny_3 1vor_5 1vou_5 1vow_5 ... Length = 66

 Score = 37.6 bits (87), Expect = 2e-04
 Identities = 17/59 (28%), Positives = 26/59 (44%)

Query: 146 KMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL 204
           KMK++   K R +    G+V  +  GKRH    KS    R   +  ++  A    MK +
Sbjct: 3   KMKTHKMAKRRIKITGTGKVMAFKSGKRHQNTGKSGDEIRGKGKGFVLAKAEWARMKLM 61

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	208
3v2d_8	65	50S ribosomal protein L35; ribosome associated inh	99.9
2zjr_3	66	50S ribosomal protein L35; ribosome, large ribosom	99.9
3r8s_3	64	50S ribosomal protein L35; protein biosynthesis, R	99.89
3bbo_5	159	Ribosomal protein L35; large ribosomal subunit, sp	99.84

>3v2d_8 50S ribosomal protein L35; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_a 2hgj_7 2hgq_7 2hgu_7 1vsa_a 2j03_8 2jl6_8 2jl8_8 2v47_8 2v49_8 2wdi_8 2wdj_8 2wdl_8 2wdn_8 2wh2_8 2wh4_8 2wrj_8 2wrl_8 2wro_8 2wrr_8 ...

Probab=99.90  E-value=5.7e-25  Score=158.30  Aligned_cols=61  Identities=30%  Similarity=0.292  Sum_probs=59.1

Q ss_pred             ccCcccCcccccceEeccCccEEeecCCcccccCCCChHHHhhcCCCeeeChhcHHHHHhc
Q 028473          144 KIKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL  204 (208)
Q Consensus       144 mpKMKThKgAkKRFKVTgSGKIKRkrAGKrHlLtKKSsKRKRrLRK~~~VskaD~KrIKkm  204 (208)
                      |||||||+||+|||++||+|||+|++||++|++++||.+++|+|++..+|+++|++.|++|
T Consensus         1 MPKmKT~~ga~KRFk~TgsGKikr~~a~k~H~l~kKs~krkR~Lr~~~~v~~~d~k~vk~l   61 (65)
T 3v2d_8            1 MPKMKTHKGAKKRVKITASGKVVAMKTGKRHLNWQKSGKEIRQKGRKFVLAKPEAERIKLL   61 (65)
T ss_dssp             -CCCCCCHHHHTTEEECTTSCEEEECSSCSSCCTTSCHHHHHHTTSEEECCHHHHHHHHHT
T ss_pred             CCCcccchhhhheeEEcCCCCEEeccCCCCCCccCCCHHHHHhcCCCEEECHHHHHHHHHh
Confidence            7999999999999999999999999999999999999999999999999999999999886

>2zjr_3 50S ribosomal protein L35; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.301.1.1 PDB: 2zjp_3* 1sm1_3 2zjq_3 3cf5_3* 3dll_3* 3pio_3* 3pip_3* 1nwy_3* 1nwx_3* 1xbp_3* 1nkw_3 1yl3_8 2b66_8 2b9n_8 2b9p_8 1pnu_3 1pny_3 1vor_5 1vou_5 1vow_5 ...

Probab=99.90  E-value=6.8e-25  Score=158.47  Aligned_cols=61  Identities=28%  Similarity=0.262  Sum_probs=59.8

Q ss_pred             ccCcccCcccccceEeccCccEEeecCCcccccCCCChHHHhhcCCCeeeChhcHHHHHhc
Q 028473          144 KIKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL  204 (208)
Q Consensus       144 mpKMKThKgAkKRFKVTgSGKIKRkrAGKrHlLtKKSsKRKRrLRK~~~VskaD~KrIKkm  204 (208)
                      |||||||+||+|||++||+|||+|++||++|++++||.+++|+|+++.+|+++|+++|++|
T Consensus         1 MPKmKT~~gaaKRFk~TgsGKikr~~a~k~H~l~kKs~krkR~Lr~~~~v~~~d~k~ik~l   61 (66)
T 2zjr_3            1 MPKMKTHKMAKRRIKITGTGKVMAFKSGKRHQNTGKSGDEIRGKGKGFVLAKAEWARMKLM   61 (66)
T ss_pred             CCCcccchhhhheeEEcCCCcEEeccCCCccCcccCCHHHHHhcCCCeeECHHHHHHHHHh
Confidence            7999999999999999999999999999999999999999999999999999999999885

>3r8s_3 50S ribosomal protein L35; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 2awb_3 2aw4_3 2i2v_3 2j28_3 2i2t_3* 2qao_3* 2qba_3* 2qbc_3* 2qbe_3 2qbg_3 2qbi_3* 2qbk_3* 2qov_3 2qox_3 2qoz_3* 2qp1_3* 2rdo_3 2vhm_3 2vhn_3 2wwq_7* ...

Probab=99.89  E-value=4.4e-24  Score=153.14  Aligned_cols=60  Identities=27%  Similarity=0.328  Sum_probs=58.8

Q ss_pred             cCcccCcccccceEeccCccEEeecCCcccccCCCChHHHhhcCCCeeeChhcHHHHHhc
Q 028473          145 IKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL  204 (208)
Q Consensus       145 pKMKThKgAkKRFKVTgSGKIKRkrAGKrHlLtKKSsKRKRrLRK~~~VskaD~KrIKkm  204 (208)
                      ||||||+||+|||++||+|||+|++||++|++++||.+++|+|++..+|+++|++.|++|
T Consensus         1 PKmKT~~~a~KRFk~TgsGKikr~~a~k~H~l~kKs~krkR~Lr~~~~v~~~d~k~vk~l   60 (64)
T 3r8s_3            1 PKIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIAC   60 (64)
T ss_dssp             CCCCCCTTTTTTCEECSSSCEEEECSSCSSSCTTSCHHHHHHTSSEEECCTTTHHHHHHH
T ss_pred             CCCccchhhhheeEEcCCCCEEeccCCCCCCccCCCHHHHHhcCCCEEECHHHHHHHHHH
Confidence            799999999999999999999999999999999999999999999999999999999886

>3bbo_5 Ribosomal protein L35; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=99.84  E-value=1.4e-22  Score=167.44  Aligned_cols=61  Identities=28%  Similarity=0.303  Sum_probs=58.1

Q ss_pred             ccCcccCcccccceEeccCccEEeecCCcccccCCCChHHHhhcCCCeeeChhcHHHHHhc
Q 028473          144 KIKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL  204 (208)
Q Consensus       144 mpKMKThKgAkKRFKVTgSGKIKRkrAGKrHlLtKKSsKRKRrLRK~~~VskaD~KrIKkm  204 (208)
                      |||||||+||+||||+||+|||+|++||++|++++|+.++||+||++.+|+++|+++|++|
T Consensus        89 MPKMKThsgAaKRFKvTgSGKiKR~kAgkrHiLtkKS~KrKR~LRk~~~V~~aD~k~IKrl  149 (159)
T 3bbo_5           89 GYKMKTHKASAKRFRVTGKGKIVRRRAGKQHLLAKKNTKRKNRLSKLIQVDRSDYDNVIGA  149 (159)
T ss_dssp             --CCCCCHHHHTTCCBCSSSCBEEECSSCTTCCSSCCSSCTTSCSEEECCSTHHHHTTTTT
T ss_pred             CcccccchhhhheeEEcCCccEEeccCCCCCCcCcCCHHHHHhcCCCeeECHHHHHHHHHh
Confidence            8999999999999999999999999999999999999999999999999999999999885

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	208
d2j0181	64	d.301.1.1 (8:2-65) Ribosomal protein L35p {Thermus	6e-12
d2qam31	64	d.301.1.1 (3:1-64) Ribosomal protein L35p {Escheri	5e-11

>d2j0181 d.301.1.1 (8:2-65) Ribosomal protein L35p {Thermus thermophilus [TaxId: 274]} Length = 64

class: Alpha and beta proteins (a+b)
fold: L35p-like
superfamily: L35p-like
family: Ribosomal protein L35p
domain: Ribosomal protein L35p
species: Thermus thermophilus [TaxId: 274]

 Score = 56.6 bits (137), Expect = 6e-12
 Identities = 18/59 (30%), Positives = 28/59 (47%)

Query: 146 KMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL 204
           KMK++   K R +    G+V     GKRH    KS K  R+  +  ++    A+ +K L
Sbjct: 2   KMKTHKGAKKRVKITASGKVVAMKTGKRHLNWQKSGKEIRQKGRKFVLAKPEAERIKLL 60

>d2qam31 d.301.1.1 (3:1-64) Ribosomal protein L35p {Escherichia coli [TaxId: 562]} Length = 64

class: Alpha and beta proteins (a+b)
fold: L35p-like
superfamily: L35p-like
family: Ribosomal protein L35p
domain: Ribosomal protein L35p
species: Escherichia coli [TaxId: 562]

 Score = 54.3 bits (131), Expect = 5e-11
 Identities = 16/59 (27%), Positives = 24/59 (40%)

Query: 146 KMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL 204
           K+K+      RF+    G  +  H   RH    K+ K KR LR  A+V      ++   
Sbjct: 2   KIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIAC 60

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	208
d2zjr31	63	Ribosomal protein L35p {Deinococcus radiodurans [T	99.88
d2qam31	64	Ribosomal protein L35p {Escherichia coli [TaxId: 5	99.88
d2j0181	64	Ribosomal protein L35p {Thermus thermophilus [TaxI	99.87

>d2zjr31 d.301.1.1 (3:2-64) Ribosomal protein L35p {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a+b)
fold: L35p-like
superfamily: L35p-like
family: Ribosomal protein L35p
domain: Ribosomal protein L35p
species: Deinococcus radiodurans [TaxId: 1299]

Probab=99.88  E-value=1.1e-23  Score=149.23  Aligned_cols=60  Identities=28%  Similarity=0.274  Sum_probs=58.9

Q ss_pred             cCcccCcccccceEeccCccEEeecCCcccccCCCChHHHhhcCCCeeeChhcHHHHHhc
Q 028473          145 IKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL  204 (208)
Q Consensus       145 pKMKThKgAkKRFKVTgSGKIKRkrAGKrHlLtKKSsKRKRrLRK~~~VskaD~KrIKkm  204 (208)
                      ||||||+||+|||++||+|||++++||++|++++||.+++|+|+++.+|+++|++.|++|
T Consensus         1 PKmKT~k~a~KRFk~T~sGKv~r~~agk~H~l~kKs~krkR~lr~~~~v~~~~~k~ik~~   60 (63)
T d2zjr31           1 PKMKTHKMAKRRIKITGTGKVMAFKSGKRHQNTGKSGDEIRGKGKGFVLAKAEWARMKLM   60 (63)
T ss_pred             CCcccchhhhhheeECCCCCEeeccCCcccccccCCHHHHHhcCCCceeCHHHHHHHHHH
Confidence            799999999999999999999999999999999999999999999999999999999986

>d2qam31 d.301.1.1 (3:1-64) Ribosomal protein L35p {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: L35p-like
superfamily: L35p-like
family: Ribosomal protein L35p
domain: Ribosomal protein L35p
species: Escherichia coli [TaxId: 562]

Probab=99.88  E-value=8.4e-24  Score=149.54  Aligned_cols=60  Identities=27%  Similarity=0.328  Sum_probs=58.9

Q ss_pred             cCcccCcccccceEeccCccEEeecCCcccccCCCChHHHhhcCCCeeeChhcHHHHHhc
Q 028473          145 IKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL  204 (208)
Q Consensus       145 pKMKThKgAkKRFKVTgSGKIKRkrAGKrHlLtKKSsKRKRrLRK~~~VskaD~KrIKkm  204 (208)
                      ||||||+||+|||++||+|||+|++||++|++++||.+++|+|+++.+|+++|++.|++|
T Consensus         1 PKmKT~k~akKRfkvT~sGKi~r~~agk~H~l~~Ks~krkR~lr~~~~v~~~d~k~ik~l   60 (64)
T d2qam31           1 PKIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIAC   60 (64)
T ss_dssp             CCCCCCTTTTTTCCCCSSSCCCBCCSSSSSCCTTSCHHHHHTTSSCBCCCSSSHHHHHHH
T ss_pred             CCCccchhhhhheeECCCCCEeeccCCCCcccccCCHHHHHhcCCCeeECHHHHHHHHHh
Confidence            799999999999999999999999999999999999999999999999999999999875

>d2j0181 d.301.1.1 (8:2-65) Ribosomal protein L35p {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: L35p-like
superfamily: L35p-like
family: Ribosomal protein L35p
domain: Ribosomal protein L35p
species: Thermus thermophilus [TaxId: 274]

Probab=99.87  E-value=1.1e-23  Score=149.12  Aligned_cols=60  Identities=30%  Similarity=0.305  Sum_probs=58.8

Q ss_pred             cCcccCcccccceEeccCccEEeecCCcccccCCCChHHHhhcCCCeeeChhcHHHHHhc
Q 028473          145 IKMKSYSSYKSRFRTMNDGQVRRWHEGKRHNAHLKSKKSKRRLRQPALVPLAYAKVMKKL  204 (208)
Q Consensus       145 pKMKThKgAkKRFKVTgSGKIKRkrAGKrHlLtKKSsKRKRrLRK~~~VskaD~KrIKkm  204 (208)
                      ||||||+||+|||++||+|||+|++||++|++++||.+++|+||++.+|+++|++.|++|
T Consensus         1 PKmKT~k~a~KRFk~T~sGKikr~~ag~~H~l~~Ks~k~kR~lr~~~~v~~~~~k~ik~l   60 (64)
T d2j0181           1 PKMKTHKGAKKRVKITASGKVVAMKTGKRHLNWQKSGKEIRQKGRKFVLAKPEAERIKLL   60 (64)
T ss_dssp             CCCCCCHHHHHHCEECSSSCEEECCTTTTTCSSCSCCSTTTSCSCEECCSSHHHHHHTTT
T ss_pred             CCCccchhhhhheeEcCCCCEEecccCCccccccCCHHHHHhcCCCeeECHHHHHHHHHh
Confidence            799999999999999999999999999999999999999999999999999999999875