Citrus Sinensis ID: 028533

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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
MATLCTPTCVIFSSLQSSSSSSSFKTLNTGTTISSSTTPFLGFSVASAKSTSPLNTKRSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRKQ
Secondary Structure (PSIPRED)
ccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccccccccccEEEEEcccccHHHHHHHHHHHHccccccccccccccccEEEEEEcccEEEEcccccccEEEEccccccccccccHHHHHHHccHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEccccEEccccccccccccccccccccccccccccccccEcccccccccccccccEEEEEccccEEccHHHcHHEEcccccccccccccccccccccccEEEEEEEEEcccccHHHHHHHHHHHHHcccccccccccccccEEEEEEccEEEEEcccccccEEEEcccccccccHccHHHHHHcccHHHHHHHHHccccccccc
Coil and Loop (DISEMBL)
matlctptcvifsslqsssssssfktlntgttisssttpflGFSVAsakstsplntkrsfkvrccqnlslvpdnqrwmfeqsevngpdiwnntwypkaadhrhsdktwyvVDATDKILGRLASTIAIHIRgknlatytpsvdmGAYVIVVNAEKVAVSGKKRTQKIYrrhsgrpggmkeeTFDQLQHRIPERIIEHAVRgmlpkgrkq
Flexible Loop (DISEMBL)
MATLCTPTCVIFsslqsssssssfKTLNTGTTISSSTTPFLGFSVASakstsplntkrsfkVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAekvavsgkkrtqkiyrrhsgrpggmkeETFDQLQHRIPERIIEhavrgmlpkgrkq
Low Complexity Region (SEG)
MATLCTPTCVIFsslqsssssssFKTLNTGTTISSSTTPFLGFSVASAKSTSPLNTKRSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRKQ
Disordered region (IsUnstruct)
***LCTPTCVIF*********************************************RSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVS**************************************************
Disordered Region (DISOPRED)
**************************************PFLGFSV***************************************N**DIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRG*LPKG***
Disordered Region (DISEMBL)
MATLCTPTCVIFSS**************TGTTISSSTTPFLGFSVAS**********RSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRKQ
Disordered Region (DISPRO)
*AT*C**TCVIF*********************************************RSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MATLCTPTCVIFSSLQSSSSSSSFKTLNTGTTISSSTTPFLGFSVASAKSTSPLNTKRSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRKQ
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	208	2.2.26 [Sep-21-2011]
Q9SYL9	241	50S ribosomal protein L13	yes	no	0.812	0.701	0.724	5e-72
P12629	250	50S ribosomal protein L13	N/A	no	0.942	0.784	0.612	8e-67
Q3MF94	151	50S ribosomal protein L13	yes	no	0.480	0.662	0.76	3e-40
Q8YPK6	151	50S ribosomal protein L13	yes	no	0.480	0.662	0.75	1e-39
Q6H001	151	50S ribosomal protein L13	N/A	no	0.480	0.662	0.72	3e-39
Q8DMK8	152	50S ribosomal protein L13	yes	no	0.480	0.657	0.737	1e-38
B8HMT1	149	50S ribosomal protein L13	yes	no	0.533	0.744	0.675	1e-38
B0JY35	151	50S ribosomal protein L13	yes	no	0.495	0.682	0.688	7e-38
B7K221	151	50S ribosomal protein L13	yes	no	0.495	0.682	0.669	4e-37
B1XJI1	151	50S ribosomal protein L13	yes	no	0.480	0.662	0.72	8e-37

>sp|Q9SYL9|RK13_ARATH 50S ribosomal protein L13, chloroplastic OS=Arabidopsis thaliana GN=RPL13 PE=1 SV=1

 Score =  270 bits (690), Expect = 5e-72,   Method: Compositional matrix adjust.
 Identities = 129/178 (72%), Positives = 145/178 (81%), Gaps = 9/178 (5%)

Query: 38  TPFLGFSVASAKSTSP-----LNTKRSFKVRC----CQNLSLVPDNQRWMFEQSEVNGPD 88
           +PFLGFS+ +    S       N+KR  +V+C        SLVP NQRWMF++ E NGPD
Sbjct: 26  SPFLGFSLTAISKPSVRVGIYANSKRGLQVKCEAEPTTTTSLVPANQRWMFDEEEANGPD 85

Query: 89  IWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVI 148
           IWN TWYPKA+DH ++DK W+VVDATDKILGRLASTIA HIRGKNLA+YTPSVDMGA+VI
Sbjct: 86  IWNTTWYPKASDHVNTDKPWFVVDATDKILGRLASTIANHIRGKNLASYTPSVDMGAFVI 145

Query: 149 VVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           VVNAEKVAVSGKKR QK+YRRHSGRPGGM  ETFDQLQ RIPERI+EHAVRGMLPKGR
Sbjct: 146 VVNAEKVAVSGKKRNQKLYRRHSGRPGGMTVETFDQLQQRIPERIVEHAVRGMLPKGR 203

Arabidopsis thaliana (taxid: 3702)

>sp|P12629|RK13_SPIOL 50S ribosomal protein L13, chloroplastic OS=Spinacia oleracea GN=RPL13 PE=1 SV=1

 Score =  253 bits (645), Expect = 8e-67,   Method: Compositional matrix adjust.
 Identities = 136/222 (61%), Positives = 155/222 (69%), Gaps = 26/222 (11%)

Query: 1   MATLCTPTCVIFSSLQSSSSSSSFKTLNTGTTISSSTTPFLGFSVASA---------KST 51
           MAT+   + + F S Q+  S         GT +    TP L F   +          KST
Sbjct: 1   MATMACASSLTFPSAQTQKSF-------FGTNVKQ--TPVLSFPRPTVAAAVAVSARKST 51

Query: 52  SPLNTK-----RSFKVRCCQNLSL--VPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHS 104
           S  +TK     R  K    +  ++  VP +QRWMF   E  GPDIWN TWYPK+ADH  +
Sbjct: 52  S-ASTKCTEEWRQLKEAVKKEFAIPHVPLDQRWMFTLEEATGPDIWNTTWYPKSADHVPT 110

Query: 105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 164
           DK WYVVDATD ILGR+ASTIAIHIRGKNLA+YTPSVDMGA+VIVVNA+KVAVSGKKRTQ
Sbjct: 111 DKKWYVVDATDLILGRMASTIAIHIRGKNLASYTPSVDMGAFVIVVNADKVAVSGKKRTQ 170

Query: 165 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           K+YRRHSGRPGG+KEETFDQLQ RIPERIIEHAVRGMLPKGR
Sbjct: 171 KLYRRHSGRPGGLKEETFDQLQKRIPERIIEHAVRGMLPKGR 212

Spinacia oleracea (taxid: 3562)

>sp|Q3MF94|RL13_ANAVT 50S ribosomal protein L13 OS=Anabaena variabilis (strain ATCC 29413 / PCC 7937) GN=rplM PE=3 SV=1

 Score =  165 bits (417), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 76/100 (76%), Positives = 88/100 (88%)

Query: 105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 164
           ++ WYVVDATDK LGRLAS IA+ +RGKN A YTP +D G +VIVVNAEKVAV+GKKRTQ
Sbjct: 13  ERDWYVVDATDKRLGRLASEIAMILRGKNKAHYTPHLDTGDFVIVVNAEKVAVTGKKRTQ 72

Query: 165 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK 204
           K+YRRHSGRPGGMK ETF +LQ R+PERI+EHAV+GMLPK
Sbjct: 73  KLYRRHSGRPGGMKTETFAKLQQRLPERIVEHAVKGMLPK 112

This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.

Anabaena variabilis (strain ATCC 29413 / PCC 7937) (taxid: 240292)

>sp|Q8YPK6|RL13_NOSS1 50S ribosomal protein L13 OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=rplM PE=3 SV=1

 Score =  162 bits (411), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 75/100 (75%), Positives = 88/100 (88%)

Query: 105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 164
           ++ WYVVDATDK LGRLAS IA+ +RGKN A YTP +D G +VIVVNA+KVAV+GKKRTQ
Sbjct: 13  ERDWYVVDATDKRLGRLASEIAMILRGKNKAHYTPHLDTGDFVIVVNAKKVAVTGKKRTQ 72

Query: 165 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK 204
           K+YRRHSGRPGGMK ETF +LQ R+PERI+EHAV+GMLPK
Sbjct: 73  KLYRRHSGRPGGMKTETFAKLQQRLPERIVEHAVKGMLPK 112

This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.

Nostoc sp. (strain PCC 7120 / UTEX 2576) (taxid: 103690)

>sp|Q6H001|RL13_FREDI 50S ribosomal protein L13 OS=Fremyella diplosiphon GN=rplM PE=3 SV=2

 Score =  161 bits (407), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 72/100 (72%), Positives = 87/100 (87%)

Query: 105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 164
           ++ WY+VDATD+ LGRLAS IA+ +RGK  A YTP +D G +VIV+NAEK+AV+GKKRTQ
Sbjct: 13  EREWYIVDATDQRLGRLASEIAMVLRGKKKAEYTPHLDTGDFVIVINAEKIAVTGKKRTQ 72

Query: 165 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK 204
           K+YRRHSGRPGGMK ETF +LQ RIPERI+EHAV+GMLPK
Sbjct: 73  KLYRRHSGRPGGMKTETFAKLQQRIPERIVEHAVKGMLPK 112

This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.

Fremyella diplosiphon (taxid: 1197)

>sp|Q8DMK8|RL13_THEEB 50S ribosomal protein L13 OS=Thermosynechococcus elongatus (strain BP-1) GN=rplM PE=3 SV=1

 Score =  159 bits (402), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 76/103 (73%), Positives = 87/103 (84%), Gaps = 3/103 (2%)

Query: 108 WYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIY 167
           WYV+DA D+ LGRLA+ IA  +RGKN A YTP +D G +VIV+NAEKV V+GKKR+QK+Y
Sbjct: 19  WYVIDAADQRLGRLAAEIARILRGKNKAIYTPHMDTGDFVIVINAEKVTVTGKKRSQKLY 78

Query: 168 RRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK---GRK 207
           RRHSGRPGGMK ETFDQLQ RIPERIIEHAV+GMLPK   GRK
Sbjct: 79  RRHSGRPGGMKIETFDQLQARIPERIIEHAVKGMLPKNSLGRK 121

This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.

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

>sp|B8HMT1|RL13_CYAP4 50S ribosomal protein L13 OS=Cyanothece sp. (strain PCC 7425 / ATCC 29141) GN=rplM PE=3 SV=1

 Score =  159 bits (402), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 77/114 (67%), Positives = 90/114 (78%), Gaps = 3/114 (2%)

Query: 91  NNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVV 150
           N T+ P        +  WYVVDAT++ LGRLA+ IA+ +RGK    YTPS+D G +VIVV
Sbjct: 2   NKTYLPSTTS---LEPKWYVVDATEQHLGRLATQIAMILRGKTKPIYTPSMDTGDFVIVV 58

Query: 151 NAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK 204
           NAEKVAV+GKKRTQKIYRRHSGRPGGMK ETF +LQ R+PERIIEHAV+GMLPK
Sbjct: 59  NAEKVAVTGKKRTQKIYRRHSGRPGGMKTETFAKLQSRLPERIIEHAVKGMLPK 112

This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.

Cyanothece sp. (strain PCC 7425 / ATCC 29141) (taxid: 395961)

>sp|B0JY35|RL13_MICAN 50S ribosomal protein L13 OS=Microcystis aeruginosa (strain NIES-843) GN=rplM PE=3 SV=1

 Score =  157 bits (396), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 73/106 (68%), Positives = 89/106 (83%), Gaps = 3/106 (2%)

Query: 105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 164
           ++ WYV+DA D+ LGRLA+ IA+ +RGKN AT+TP +D G +VIV+NAEKV V+GKKR Q
Sbjct: 13  EQKWYVIDAADQRLGRLATEIAMILRGKNKATFTPHLDTGDFVIVINAEKVTVTGKKRQQ 72

Query: 165 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK---GRK 207
           K+YRR SGRPGGMK E+FD+LQ RIPERIIEHAV+GMLPK   GRK
Sbjct: 73  KVYRRDSGRPGGMKVESFDKLQKRIPERIIEHAVKGMLPKNSLGRK 118

This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.

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

>sp|B7K221|RL13_CYAP8 50S ribosomal protein L13 OS=Cyanothece sp. (strain PCC 8801) GN=rplM PE=3 SV=1

 Score =  154 bits (389), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 71/106 (66%), Positives = 88/106 (83%), Gaps = 3/106 (2%)

Query: 105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 164
           D+ WYV+DA D+ LGRLAS +A  +RGKN  T+TP +D G +VI+VNAEKV V+GKK +Q
Sbjct: 13  DQKWYVIDAADQRLGRLASEVAQILRGKNKPTFTPHMDTGDFVIIVNAEKVVVTGKKSSQ 72

Query: 165 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK---GRK 207
           K+YRRHSGRPGGMK ETF++LQ R+PERI+EHAV+GMLPK   GRK
Sbjct: 73  KLYRRHSGRPGGMKVETFEKLQARLPERIVEHAVKGMLPKNSLGRK 118

This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.

Cyanothece sp. (strain PCC 8801) (taxid: 41431)

>sp|B1XJI1|RL13_SYNP2 50S ribosomal protein L13 OS=Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) GN=rplM PE=3 SV=1

 Score =  153 bits (386), Expect = 8e-37,   Method: Compositional matrix adjust.
 Identities = 72/100 (72%), Positives = 83/100 (83%)

Query: 105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 164
           D+ WYVVDA D+ LGRLAS +A  +RGKN A YTP +D G +VIVVNAEKV V+G+K  Q
Sbjct: 13  DQKWYVVDAADQRLGRLASEVAKVLRGKNKAEYTPHMDTGDFVIVVNAEKVVVTGRKPEQ 72

Query: 165 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK 204
           K+YRRHSGRPGGMK ETF+QLQ RIPERIIE AV+GMLPK
Sbjct: 73  KLYRRHSGRPGGMKVETFNQLQDRIPERIIEKAVKGMLPK 112

This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.

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

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
302142820	374	unnamed protein product [Vitis vinifera]	0.812	0.451	0.794	2e-76
225461790	235	PREDICTED: 50S ribosomal protein L13, ch	0.812	0.719	0.794	5e-76
118489447	241	unknown [Populus trichocarpa x Populus d	0.951	0.821	0.701	2e-74
297839733	242	EMB1473 [Arabidopsis lyrata subsp. lyrat	0.932	0.801	0.638	6e-72
15218435	241	50S ribosomal protein L13 [Arabidopsis t	0.812	0.701	0.724	2e-70
449456559	248	PREDICTED: 50S ribosomal protein L13, ch	0.971	0.814	0.663	8e-69
255582683	245	50S ribosomal protein L13, putative [Ric	0.807	0.685	0.705	1e-68
224114752	174	predicted protein [Populus trichocarpa]	0.653	0.781	0.875	3e-67
115439933	233	Os01g0749200 [Oryza sativa Japonica Grou	0.697	0.622	0.797	1e-66
242054425	229	hypothetical protein SORBIDRAFT_03g03462	0.663	0.602	0.847	1e-65

>gi|302142820|emb|CBI20115.3| unnamed protein product [Vitis vinifera]

 Score =  290 bits (743), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 135/170 (79%), Positives = 153/170 (90%), Gaps = 1/170 (0%)

Query: 37  TTPFLGFSVASAKSTSPLNTKRSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYP 96
           TTPFLGFS+ SA +  P   ++SF+V C    ++VP +QRWMFEQSEV+GPDIWN TWYP
Sbjct: 168 TTPFLGFSI-SAANPKPSFPRQSFRVNCQDKAAVVPLDQRWMFEQSEVSGPDIWNKTWYP 226

Query: 97  KAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVA 156
           KAADH +++KTWY+VDATDKILGRLASTIAI+IRGKNLATYTPSVDMG++VIVVNAEKVA
Sbjct: 227 KAADHINTEKTWYIVDATDKILGRLASTIAIYIRGKNLATYTPSVDMGSFVIVVNAEKVA 286

Query: 157 VSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           VSGKKRTQK+YRRHSGRPGGMK ETFDQLQ RIPERI+EHAVRGMLPKGR
Sbjct: 287 VSGKKRTQKLYRRHSGRPGGMKVETFDQLQQRIPERIVEHAVRGMLPKGR 336

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225461790|ref|XP_002285616.1| PREDICTED: 50S ribosomal protein L13, chloroplastic [Vitis vinifera]

 Score =  289 bits (739), Expect = 5e-76,   Method: Compositional matrix adjust.
 Identities = 135/170 (79%), Positives = 153/170 (90%), Gaps = 1/170 (0%)

Query: 37  TTPFLGFSVASAKSTSPLNTKRSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYP 96
           TTPFLGFS+ SA +  P   ++SF+V C    ++VP +QRWMFEQSEV+GPDIWN TWYP
Sbjct: 29  TTPFLGFSI-SAANPKPSFPRQSFRVNCQDKAAVVPLDQRWMFEQSEVSGPDIWNKTWYP 87

Query: 97  KAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVA 156
           KAADH +++KTWY+VDATDKILGRLASTIAI+IRGKNLATYTPSVDMG++VIVVNAEKVA
Sbjct: 88  KAADHINTEKTWYIVDATDKILGRLASTIAIYIRGKNLATYTPSVDMGSFVIVVNAEKVA 147

Query: 157 VSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           VSGKKRTQK+YRRHSGRPGGMK ETFDQLQ RIPERI+EHAVRGMLPKGR
Sbjct: 148 VSGKKRTQKLYRRHSGRPGGMKVETFDQLQQRIPERIVEHAVRGMLPKGR 197

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118489447|gb|ABK96526.1| unknown [Populus trichocarpa x Populus deltoides]

 Score =  283 bits (725), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 148/211 (70%), Positives = 170/211 (80%), Gaps = 13/211 (6%)

Query: 1   MATLCTPTCVIFSSLQSSSSSSSFKTLNTGTTISSSTTPFL-GFSVASAKSTSPLNTKRS 59
           MA LC  +    S   S+  SSS+ T N GT+IS S  PF+ GFS  S    S  N++R 
Sbjct: 1   MAMLCASS----SFTTSTKPSSSYSTKN-GTSISPS--PFVVGFSF-SQSWFSLSNSRRG 52

Query: 60  FKVRCCQN----LSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATD 115
           F+VRC +     ++ VP +QRW+FE+SE+NGPDIWN TWYPKAADH +++KTWY+VDATD
Sbjct: 53  FEVRCEKKDKSVVTRVPLDQRWLFEESEINGPDIWNTTWYPKAADHINTEKTWYIVDATD 112

Query: 116 KILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPG 175
           KILGRLASTIAI+IRGKNLATYTPSVDMGA+VIVVNAEKVAVSGKKRTQK+YRRHSGRPG
Sbjct: 113 KILGRLASTIAIYIRGKNLATYTPSVDMGAFVIVVNAEKVAVSGKKRTQKLYRRHSGRPG 172

Query: 176 GMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           GM  ETFDQLQ RIPERIIEHAVRGMLPKGR
Sbjct: 173 GMTVETFDQLQQRIPERIIEHAVRGMLPKGR 203

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297839733|ref|XP_002887748.1| EMB1473 [Arabidopsis lyrata subsp. lyrata] gi|297333589|gb|EFH64007.1| EMB1473 [Arabidopsis lyrata subsp. lyrata]

 Score =  275 bits (704), Expect = 6e-72,   Method: Compositional matrix adjust.
 Identities = 138/216 (63%), Positives = 156/216 (72%), Gaps = 22/216 (10%)

Query: 1   MATLCTPTCVIFSSLQSSSSSSSFKTLNTGTTISSSTTPFLGFSVASAKSTSP-----LN 55
           M  LC+ + VI  S     S S  K+            PFLGFS+ +    S       N
Sbjct: 1   MTVLCSSSTVILPSSSVKPSGSERKS------------PFLGFSLTAFSKPSVRVGIYAN 48

Query: 56  TKRSFKVRC-----CQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYV 110
           +KR  +V+C         SLVP NQRWMF++ E NGPDIWN TWYPKA+DH ++DK W+V
Sbjct: 49  SKRGLQVKCEAEETTTKTSLVPANQRWMFDEEEANGPDIWNTTWYPKASDHVNTDKPWFV 108

Query: 111 VDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRH 170
           VDATDKILGRLASTIA HIRGKNLA+YTPSVDMGA+VIVVNAEKVAVSGKKR QK+YRRH
Sbjct: 109 VDATDKILGRLASTIANHIRGKNLASYTPSVDMGAFVIVVNAEKVAVSGKKRNQKLYRRH 168

Query: 171 SGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           SGRPGGM  ETFDQLQ RIPERI+EHAVRGMLPKGR
Sbjct: 169 SGRPGGMTVETFDQLQQRIPERIVEHAVRGMLPKGR 204

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15218435|ref|NP_177984.1| 50S ribosomal protein L13 [Arabidopsis thaliana] gi|75314103|sp|Q9SYL9.1|RK13_ARATH RecName: Full=50S ribosomal protein L13, chloroplastic; AltName: Full=CL13; AltName: Full=Protein EMBRYO DEFECTIVE 1473; Flags: Precursor gi|4836870|gb|AAD30573.1|AC007260_4 50S Ribosomal protein L13 [Arabidopsis thaliana] gi|13878111|gb|AAK44133.1|AF370318_1 putative ribosomal protein L13 [Arabidopsis thaliana] gi|7572938|emb|CAA60775.1| ribosomal protein L13 [Arabidopsis thaliana] gi|17104781|gb|AAL34279.1| putative ribosomal protein L13 [Arabidopsis thaliana] gi|332198009|gb|AEE36130.1| 50S ribosomal protein L13 [Arabidopsis thaliana]

 Score =  270 bits (690), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 129/178 (72%), Positives = 145/178 (81%), Gaps = 9/178 (5%)

Query: 38  TPFLGFSVASAKSTSP-----LNTKRSFKVRC----CQNLSLVPDNQRWMFEQSEVNGPD 88
           +PFLGFS+ +    S       N+KR  +V+C        SLVP NQRWMF++ E NGPD
Sbjct: 26  SPFLGFSLTAISKPSVRVGIYANSKRGLQVKCEAEPTTTTSLVPANQRWMFDEEEANGPD 85

Query: 89  IWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVI 148
           IWN TWYPKA+DH ++DK W+VVDATDKILGRLASTIA HIRGKNLA+YTPSVDMGA+VI
Sbjct: 86  IWNTTWYPKASDHVNTDKPWFVVDATDKILGRLASTIANHIRGKNLASYTPSVDMGAFVI 145

Query: 149 VVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           VVNAEKVAVSGKKR QK+YRRHSGRPGGM  ETFDQLQ RIPERI+EHAVRGMLPKGR
Sbjct: 146 VVNAEKVAVSGKKRNQKLYRRHSGRPGGMTVETFDQLQQRIPERIVEHAVRGMLPKGR 203

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449456559|ref|XP_004146016.1| PREDICTED: 50S ribosomal protein L13, chloroplastic-like [Cucumis sativus] gi|449518653|ref|XP_004166351.1| PREDICTED: 50S ribosomal protein L13, chloroplastic-like [Cucumis sativus]

 Score =  265 bits (677), Expect = 8e-69,   Method: Compositional matrix adjust.
 Identities = 142/214 (66%), Positives = 162/214 (75%), Gaps = 12/214 (5%)

Query: 1   MATLC----TPTCVIFSSL-QSSSSSSSF--KTLNTGTTISSSTTPFLGFSVASAKSTSP 53
           MA LC    TPT  + S+L   ++S+ SF   +L     +  S + FL  +  S   TS 
Sbjct: 1   MAMLCASSSTPTFSLHSTLTNGTTSNKSFPRNSLLVAFPLPHSKSSFL-LTQTSISLTS- 58

Query: 54  LNTKRS-FKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVD 112
            N+KRS  +VR  Q L  VP  QRWMFE  E++GPDIWN TWYPKAADH +++K WYVVD
Sbjct: 59  -NSKRSALQVRA-QELDRVPLEQRWMFEGDELDGPDIWNKTWYPKAADHVNTEKPWYVVD 116

Query: 113 ATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSG 172
           ATDKILGRLASTIA HIRGK+L TYTPSVDMGA+VIVVNAEK+AVSGKKRTQK+YRRHSG
Sbjct: 117 ATDKILGRLASTIANHIRGKDLPTYTPSVDMGAFVIVVNAEKIAVSGKKRTQKLYRRHSG 176

Query: 173 RPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           RPGGM  ETFDQLQ RIPERIIEHAVRGMLPKGR
Sbjct: 177 RPGGMTVETFDQLQQRIPERIIEHAVRGMLPKGR 210

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255582683|ref|XP_002532120.1| 50S ribosomal protein L13, putative [Ricinus communis] gi|223528200|gb|EEF30260.1| 50S ribosomal protein L13, putative [Ricinus communis]

 Score =  264 bits (675), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 127/180 (70%), Positives = 144/180 (80%), Gaps = 12/180 (6%)

Query: 39  PFLGFSVASAKSTSPLNTKRSFKVRCCQNLSL------------VPDNQRWMFEQSEVNG 86
           P+  F   S+   S  + + SF   C ++ ++            VP +QRWMFE+ E+NG
Sbjct: 28  PYTTFIAGSSLLKSKPSVRTSFSASCSRSFTVLSEKTDKKVVPHVPVDQRWMFEEFELNG 87

Query: 87  PDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAY 146
           PDIWN TWYPKAADH +++K WYVVDATDKILGRLASTIAI+IRGKNLATYTPSVDMGA+
Sbjct: 88  PDIWNKTWYPKAADHVNTEKPWYVVDATDKILGRLASTIAIYIRGKNLATYTPSVDMGAF 147

Query: 147 VIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           VIVVNAEKVAVSGKKRTQK+YRRHSGRPGGMK ETFDQLQ RIPERIIEHAVRGMLPKGR
Sbjct: 148 VIVVNAEKVAVSGKKRTQKLYRRHSGRPGGMKVETFDQLQQRIPERIIEHAVRGMLPKGR 207

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224114752|ref|XP_002316846.1| predicted protein [Populus trichocarpa] gi|222859911|gb|EEE97458.1| predicted protein [Populus trichocarpa]

 Score =  259 bits (663), Expect = 3e-67,   Method: Compositional matrix adjust.
 Identities = 119/136 (87%), Positives = 130/136 (95%)

Query: 71  VPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIR 130
           VP +QRW+FE+SE+NGPDIWN TWYPKAADH +++KTWY+VDATDKILGRLASTIAI+IR
Sbjct: 1   VPLDQRWLFEESEINGPDIWNTTWYPKAADHINTEKTWYIVDATDKILGRLASTIAIYIR 60

Query: 131 GKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIP 190
           GKNLATYTPSVDMGA+VIVVNAEKVAVSGKKRTQK+YRRHSGRPGGM  ETFDQLQ RIP
Sbjct: 61  GKNLATYTPSVDMGAFVIVVNAEKVAVSGKKRTQKLYRRHSGRPGGMTVETFDQLQQRIP 120

Query: 191 ERIIEHAVRGMLPKGR 206
           ERIIEHAVRGMLPKGR
Sbjct: 121 ERIIEHAVRGMLPKGR 136

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115439933|ref|NP_001044246.1| Os01g0749200 [Oryza sativa Japonica Group] gi|14209550|dbj|BAB56046.1| putative ribosomal protein L13 precursor [Oryza sativa Japonica Group] gi|113533777|dbj|BAF06160.1| Os01g0749200 [Oryza sativa Japonica Group] gi|125527707|gb|EAY75821.1| hypothetical protein OsI_03735 [Oryza sativa Indica Group] gi|125572024|gb|EAZ13539.1| hypothetical protein OsJ_03455 [Oryza sativa Japonica Group] gi|215679022|dbj|BAG96452.1| unnamed protein product [Oryza sativa Japonica Group] gi|215704294|dbj|BAG93134.1| unnamed protein product [Oryza sativa Japonica Group] gi|215704454|dbj|BAG93888.1| unnamed protein product [Oryza sativa Japonica Group] gi|215767344|dbj|BAG99572.1| unnamed protein product [Oryza sativa Japonica Group]

 Score =  258 bits (659), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 122/153 (79%), Positives = 133/153 (86%), Gaps = 8/153 (5%)

Query: 62  VRCCQNL--------SLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDA 113
           VRC Q+         +LVP  QR+MFE  E+ GPDIWN TWYPKAADH  ++KTWYVVDA
Sbjct: 42  VRCEQSEKQKRQPLSALVPREQRFMFEGDELCGPDIWNTTWYPKAADHVTTEKTWYVVDA 101

Query: 114 TDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGR 173
           TDKILGRLASTIA+HIRGKN ATYTPSVDMGA+V+VVNAEKVAVSGKKR+QK+YRRHSGR
Sbjct: 102 TDKILGRLASTIAVHIRGKNEATYTPSVDMGAFVVVVNAEKVAVSGKKRSQKLYRRHSGR 161

Query: 174 PGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           PGGMKEETFDQLQ RIPERIIEHAVRGMLPKGR
Sbjct: 162 PGGMKEETFDQLQKRIPERIIEHAVRGMLPKGR 194

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242054425|ref|XP_002456358.1| hypothetical protein SORBIDRAFT_03g034620 [Sorghum bicolor] gi|241928333|gb|EES01478.1| hypothetical protein SORBIDRAFT_03g034620 [Sorghum bicolor]

 Score =  254 bits (650), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 117/138 (84%), Positives = 127/138 (92%)

Query: 69  SLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIH 128
           +LVP  QR+MFE  E+ GPDIWN TWYPKAADH  ++KTWYVVDATDKILGRLASTIA+H
Sbjct: 54  ALVPREQRFMFEGDELCGPDIWNTTWYPKAADHVTTEKTWYVVDATDKILGRLASTIAVH 113

Query: 129 IRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHR 188
           IRGKN  TYTPSVDMGA+VIVVNAEKVAVSGKKR+QK+YRRHSGRPGGMKEETFDQLQ R
Sbjct: 114 IRGKNEPTYTPSVDMGAFVIVVNAEKVAVSGKKRSQKLYRRHSGRPGGMKEETFDQLQKR 173

Query: 189 IPERIIEHAVRGMLPKGR 206
           IPERI+EHAVRGMLPKGR
Sbjct: 174 IPERIVEHAVRGMLPKGR 191

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	208
TAIR|locus:2203010	241	emb1473 "embryo defective 1473	0.831	0.717	0.714	7.4e-66
UNIPROTKB|P0AA10	142	rplM [Escherichia coli K-12 (t	0.480	0.704	0.6	1.2e-28
UNIPROTKB|Q9KUF1	142	rplM "50S ribosomal protein L1	0.480	0.704	0.6	4.5e-27
TIGR_CMR|VC_0570	142	VC_0570 "ribosomal protein L13	0.480	0.704	0.6	4.5e-27
UNIPROTKB|P66065	147	rplM "50S ribosomal protein L1	0.533	0.755	0.508	1.2e-26
TIGR_CMR|SO_3940	142	SO_3940 "ribosomal protein L13	0.480	0.704	0.57	3.2e-26
TIGR_CMR|CPS_4443	142	CPS_4443 "ribosomal protein L1	0.480	0.704	0.53	1.4e-25
TIGR_CMR|BA_0143	145	BA_0143 "ribosomal protein L13	0.490	0.703	0.5	1.2e-24
TIGR_CMR|GSU_2876	143	GSU_2876 "ribosomal protein L1	0.528	0.769	0.472	7.8e-23
TIGR_CMR|SPO_1691	152	SPO_1691 "ribosomal protein L1	0.485	0.664	0.495	3.4e-22

TAIR|locus:2203010 emb1473 "embryo defective 1473" [Arabidopsis thaliana (taxid:3702)]

 Score = 670 (240.9 bits), Expect = 7.4e-66, P = 7.4e-66
 Identities = 130/182 (71%), Positives = 146/182 (80%)

Query:    34 SSSTTPFLGFSVASAKSTSP-----LNTKRSFKVRC----CQNLSLVPDNQRWMFEQSEV 84
             S   +PFLGFS+ +    S       N+KR  +V+C        SLVP NQRWMF++ E 
Sbjct:    22 SERKSPFLGFSLTAISKPSVRVGIYANSKRGLQVKCEAEPTTTTSLVPANQRWMFDEEEA 81

Query:    85 NGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMG 144
             NGPDIWN TWYPKA+DH ++DK W+VVDATDKILGRLASTIA HIRGKNLA+YTPSVDMG
Sbjct:    82 NGPDIWNTTWYPKASDHVNTDKPWFVVDATDKILGRLASTIANHIRGKNLASYTPSVDMG 141

Query:   145 AYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK 204
             A+VIVVNAEKVAVSGKKR QK+YRRHSGRPGGM  ETFDQLQ RIPERI+EHAVRGMLPK
Sbjct:   142 AFVIVVNAEKVAVSGKKRNQKLYRRHSGRPGGMTVETFDQLQQRIPERIVEHAVRGMLPK 201

Query:   205 GR 206
             GR
Sbjct:   202 GR 203

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

GO:0005840 "ribosome" evidence=ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009793 "embryo development ending in seed dormancy" evidence=NAS

GO:0009579 "thylakoid" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009941 "chloroplast envelope" evidence=IDA

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

UNIPROTKB|P0AA10 rplM [Escherichia coli K-12 (taxid:83333)]

 Score = 319 (117.4 bits), Expect = 1.2e-28, P = 1.2e-28
 Identities = 60/100 (60%), Positives = 78/100 (78%)

Query:   106 KTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQK 165
             + WYVVDAT K LGRLA+ +A  +RGK+ A YTP VD G Y+IV+NA+KVAV+G KRT K
Sbjct:    13 RDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNADKVAVTGNKRTDK 72

Query:   166 IYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKG 205
             +Y  H+G  GG+K+ TF+++  R PER+IE AV+GMLPKG
Sbjct:    73 VYYHHTGHIGGIKQATFEEMIARRPERVIEIAVKGMLPKG 112

GO:0008270 "zinc ion binding" evidence=IDA

GO:0006412 "translation" evidence=IEA

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

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

UNIPROTKB|Q9KUF1 rplM "50S ribosomal protein L13" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 304 (112.1 bits), Expect = 4.5e-27, P = 4.5e-27
 Identities = 60/100 (60%), Positives = 73/100 (73%)

Query:   106 KTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQK 165
             + WYVVDA  K LGRLAS IA  +RGK+ A YTP VD G Y+IVVNAEKV V+G K   K
Sbjct:    13 RDWYVVDAEGKTLGRLASEIASRLRGKHKAEYTPHVDTGDYIIVVNAEKVTVTGNKAKNK 72

Query:   166 IYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKG 205
             +Y RHS  PGG+K  +F++L  R PE ++E AV+GMLPKG
Sbjct:    73 MYHRHSEFPGGLKSFSFEKLIERKPEMVLELAVKGMLPKG 112

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|VC_0570 VC_0570 "ribosomal protein L13" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 304 (112.1 bits), Expect = 4.5e-27, P = 4.5e-27
 Identities = 60/100 (60%), Positives = 73/100 (73%)

Query:   106 KTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQK 165
             + WYVVDA  K LGRLAS IA  +RGK+ A YTP VD G Y+IVVNAEKV V+G K   K
Sbjct:    13 RDWYVVDAEGKTLGRLASEIASRLRGKHKAEYTPHVDTGDYIIVVNAEKVTVTGNKAKNK 72

Query:   166 IYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKG 205
             +Y RHS  PGG+K  +F++L  R PE ++E AV+GMLPKG
Sbjct:    73 MYHRHSEFPGGLKSFSFEKLIERKPEMVLELAVKGMLPKG 112

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

GO:0006412 "translation" evidence=ISS

UNIPROTKB|P66065 rplM "50S ribosomal protein L13" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 300 (110.7 bits), Expect = 1.2e-26, P = 1.2e-26
 Identities = 58/114 (50%), Positives = 80/114 (70%)

Query:    93 TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
             T+ PKA D   + ++WYV+DATD +LGRLA   A  +RGK+  T+ P+VD G +VIV+NA
Sbjct:     3 TYAPKAGD---TTRSWYVIDATDVVLGRLAVAAANLLRGKHKPTFAPNVDGGDFVIVINA 59

Query:   153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
             +KVA+SG K   K+  RHSG PGG+ + T  +L  R P+R++E A+ GMLPK R
Sbjct:    60 DKVAISGDKLQHKMVYRHSGYPGGLHKRTIGELMQRHPDRVVEKAILGMLPKNR 113

GO:0005618 "cell wall" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0040007 "growth" evidence=IMP

TIGR_CMR|SO_3940 SO_3940 "ribosomal protein L13" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 296 (109.3 bits), Expect = 3.2e-26, P = 3.2e-26
 Identities = 57/100 (57%), Positives = 73/100 (73%)

Query:   106 KTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQK 165
             + W+VVDA  K LGR+A+ IA+ +RGK+   YTP VD G Y+IV+NAEKV V+G K   K
Sbjct:    13 RDWFVVDADGKTLGRIATEIALRLRGKHKPEYTPHVDTGDYIIVINAEKVTVTGNKAQGK 72

Query:   166 IYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKG 205
              Y  HSG PGG+K+ +F++LQ   PE IIE AV+GMLPKG
Sbjct:    73 TYYSHSGFPGGIKQISFEKLQAHKPEMIIEKAVKGMLPKG 112

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|CPS_4443 CPS_4443 "ribosomal protein L13" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 53/100 (53%), Positives = 74/100 (74%)

Query:   106 KTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQK 165
             + W++VDA DK LGR+A+ IA  +RGK+ A YTP VD G Y++V+NAEKV V+G K   K
Sbjct:    13 REWFLVDAEDKTLGRIATEIATRLRGKHKAEYTPHVDTGDYIVVINAEKVRVTGNKAKGK 72

Query:   166 IYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKG 205
             IY  H+  PGG+K+ +F++L  + P R++E AV+GMLPKG
Sbjct:    73 IYYSHTEFPGGLKQISFEKLIEKAPTRVLEFAVKGMLPKG 112

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

GO:0006412 "translation" evidence=ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

TIGR_CMR|BA_0143 BA_0143 "ribosomal protein L13" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 281 (104.0 bits), Expect = 1.2e-24, P = 1.2e-24
 Identities = 51/102 (50%), Positives = 74/102 (72%)

Query:   105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 164
             ++ WYVVDA  + LGRLAS +A  +RGKN  T+TP VD G +VI++NAEK+ ++G K   
Sbjct:    13 ERKWYVVDAEGQTLGRLASEVASILRGKNKPTFTPHVDTGDHVIIINAEKIHLTGNKLND 72

Query:   165 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
             KIY RH+  PGG+K+ T  +++   P +++E A++GMLPKGR
Sbjct:    73 KIYYRHTNHPGGLKQRTALEMRTNYPVQMLELAIKGMLPKGR 114

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|GSU_2876 GSU_2876 "ribosomal protein L13" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 264 (98.0 bits), Expect = 7.8e-23, P = 7.8e-23
 Identities = 52/110 (47%), Positives = 72/110 (65%)

Query:    97 KAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVA 156
             K A      + WY+VDA +K+LGR+A+ IA  +RGK    YTPSVD G +V+VVNA K+ 
Sbjct:     5 KVAKKEEVTRDWYLVDADNKVLGRMATEIANILRGKKKPIYTPSVDTGDFVVVVNAAKLQ 64

Query:   157 VSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
             ++G K   K+Y  H+G PGG+K  T  +L  + PE +I  AV+GMLPK +
Sbjct:    65 LTGNKLADKMYYHHTGFPGGIKSITAGKLIEKKPEDLIRKAVKGMLPKNK 114

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

GO:0006412 "translation" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|SPO_1691 SPO_1691 "ribosomal protein L13" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 258 (95.9 bits), Expect = 3.4e-22, P = 3.4e-22
 Identities = 51/103 (49%), Positives = 72/103 (69%)

Query:   105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 164
             DK W ++DA   +LGRLAS +A+ +RGK+ A++TP +DMG  VIV+NA+KV ++GKKR +
Sbjct:    12 DKKWILIDAEGVVLGRLASIVAMRLRGKHKASFTPHMDMGDNVIVINADKVQITGKKREE 71

Query:   165 KIYRRHSGRPGGMKEETFDQ-LQHRIPERIIEHAVRGMLPKGR 206
               Y  H+G PGG+K  T  Q L+   PER++  AV+ MLP  R
Sbjct:    72 HFYW-HTGHPGGIKSRTKQQILEGAHPERVVYQAVKRMLPGNR 113

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

GO:0006412 "translation" evidence=ISS

GO:0042255 "ribosome assembly" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9SYL9	RK13_ARATH	No assigned EC number	0.7247	0.8125	0.7012	yes	no
Q8DMK8	RL13_THEEB	No assigned EC number	0.7378	0.4807	0.6578	yes	no
Q3MF94	RL13_ANAVT	No assigned EC number	0.76	0.4807	0.6622	yes	no
B1XJI1	RL13_SYNP2	No assigned EC number	0.72	0.4807	0.6622	yes	no
Q8YPK6	RL13_NOSS1	No assigned EC number	0.75	0.4807	0.6622	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

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	Length	Definition	E-value
Query	208
PRK09216	144	PRK09216, rplM, 50S ribosomal protein L13; Reviewe	1e-66
pfam00572	128	pfam00572, Ribosomal_L13, Ribosomal protein L13	3e-58
cd00392	114	cd00392, Ribosomal_L13, Ribosomal protein L13	2e-56
CHL00159	143	CHL00159, rpl13, ribosomal protein L13; Validated	2e-55
TIGR01066	140	TIGR01066, rplM_bact, ribosomal protein L13, bacte	3e-55
COG0102	148	COG0102, RplM, Ribosomal protein L13 [Translation,	3e-54
PLN00205	191	PLN00205, PLN00205, ribisomal protein L13 family p	3e-23
PRK06394	146	PRK06394, rpl13p, 50S ribosomal protein L13P; Revi	8e-13
TIGR01077	142	TIGR01077, L13_A_E, ribosomal protein L13, archaea	7e-11
PTZ00068	202	PTZ00068, PTZ00068, 60S ribosomal protein L13a; Pr	5e-06

>gnl|CDD|181703 PRK09216, rplM, 50S ribosomal protein L13; Reviewed

 Score =  201 bits (513), Expect = 1e-66
 Identities = 66/119 (55%), Positives = 85/119 (71%), Gaps = 6/119 (5%)

Query: 93  TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
           T+  K A+    ++ WYV+DA  K+LGRLAS +A  +RGK+  T+TP VD G +VIV+NA
Sbjct: 3   TFSAKPAE---VERKWYVIDAEGKVLGRLASEVASILRGKHKPTFTPHVDTGDFVIVINA 59

Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK---GRKQ 208
           EKV ++GKK T KIY RHSG PGG+KE TF +L  + PER+IE AV+GMLPK   GR  
Sbjct: 60  EKVKLTGKKLTDKIYYRHSGYPGGLKEITFGELLAKKPERVIEKAVKGMLPKNPLGRAM 118

Length = 144

>gnl|CDD|201314 pfam00572, Ribosomal_L13, Ribosomal protein L13

 Score =  178 bits (455), Expect = 3e-58
 Identities = 58/100 (58%), Positives = 73/100 (73%)

Query: 108 WYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIY 167
           W+V+DA  +ILGRLAS +A  +RGK+  TYTP VD G YV+V+NAEK+ ++GKKR QK Y
Sbjct: 1   WHVIDAKGQILGRLASKVAKLLRGKHKPTYTPHVDCGDYVVVINAEKIVLTGKKRDQKKY 60

Query: 168 RRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRK 207
            RH+G PGG+K  T      R PERI+E AVRGMLPK + 
Sbjct: 61  YRHTGYPGGLKNPTAKGPLERKPERILERAVRGMLPKNKL 100

Length = 128

>gnl|CDD|238230 cd00392, Ribosomal_L13, Ribosomal protein L13

 Score =  173 bits (442), Expect = 2e-56
 Identities = 56/100 (56%), Positives = 73/100 (73%)

Query: 108 WYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIY 167
           W+V+DA  ++LGRLAS +A  + GK+  TYTP VD G YV+VVNAEK+ ++GKK  QK+Y
Sbjct: 1   WHVIDAKGQVLGRLASKVAKLLLGKHKPTYTPHVDCGDYVVVVNAEKIVITGKKWRQKVY 60

Query: 168 RRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRK 207
            RH+G PGG+K  T   L  R PERI++ AVRGMLPK + 
Sbjct: 61  YRHTGYPGGLKNPTAGPLHPRAPERILKRAVRGMLPKNKL 100

Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the polypeptide exit site. It interacts with proteins L3 and L6, and forms an extensive network of interactions with 23S rRNA. L13 has been identified as a homolog of the human breast basic conserved protein 1 (BBC1), a protein identified through its increased expression in breast cancer. L13 expression is also upregulated in a variety of human gastrointestinal cancers, suggesting it may play a role in the etiology of a variety of human malignancies. Length = 114

>gnl|CDD|177072 CHL00159, rpl13, ribosomal protein L13; Validated

 Score =  172 bits (439), Expect = 2e-55
 Identities = 67/115 (58%), Positives = 85/115 (73%), Gaps = 3/115 (2%)

Query: 91  NNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVV 150
           N T+ P         + WY++DA D+ LGRLA+ IA  +RGKN  +Y PSVD G YVIV+
Sbjct: 2   NKTFIPSKDYKN---RKWYIIDAKDQTLGRLATKIASLLRGKNKPSYHPSVDTGDYVIVI 58

Query: 151 NAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKG 205
           NAEK+ V+G K +QK Y RHSGRPGG+K ETF++LQ+R+P RIIE AV+GMLPKG
Sbjct: 59  NAEKIKVTGNKTSQKFYVRHSGRPGGLKIETFEELQNRLPNRIIEKAVKGMLPKG 113

Length = 143

>gnl|CDD|162186 TIGR01066, rplM_bact, ribosomal protein L13, bacterial type

 Score =  172 bits (437), Expect = 3e-55
 Identities = 63/102 (61%), Positives = 78/102 (76%)

Query: 105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 164
            + WYVVDA  K LGRLAS +A  +RGK+  TYTP VD G YVIV+NAEKV ++GKK  Q
Sbjct: 10  KRKWYVVDAAGKTLGRLASEVARLLRGKHKPTYTPHVDCGDYVIVINAEKVRLTGKKLEQ 69

Query: 165 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           K+Y RHSG PGG+K  TF+++  R PER++EHAV+GMLPK R
Sbjct: 70  KVYYRHSGYPGGLKSRTFEEMIARKPERVLEHAVKGMLPKNR 111

This model distinguishes ribosomal protein L13 of bacteria and organelles from its eukarytotic and archaeal counterparts [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 140

>gnl|CDD|223180 COG0102, RplM, Ribosomal protein L13 [Translation, ribosomal structure and biogenesis]

 Score =  169 bits (431), Expect = 3e-54
 Identities = 63/116 (54%), Positives = 78/116 (67%), Gaps = 4/116 (3%)

Query: 93  TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
           T+  K ++    ++ WYV+DA  K+LGRLAS +A  +RGK+  TYTP VD G YVIV+NA
Sbjct: 3   TFTAKPSE---VERKWYVIDAEGKVLGRLASEVAKRLRGKHKPTYTPHVDTGDYVIVINA 59

Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQH-RIPERIIEHAVRGMLPKGRK 207
           EKV ++GKK T K Y RHSG PGG+K  T       R PERI+E AVRGMLPK   
Sbjct: 60  EKVVITGKKLTDKKYYRHSGYPGGLKNPTRGGPLAPRRPERILERAVRGMLPKNPL 115

Length = 148

>gnl|CDD|177795 PLN00205, PLN00205, ribisomal protein L13 family protein; Provisional

 Score = 91.5 bits (227), Expect = 3e-23
 Identities = 42/99 (42%), Positives = 61/99 (61%)

Query: 108 WYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIY 167
           W V DA  ++LGRLAS I+  ++GK+  TY P+ D G   IV+NA+ ++V+G+K T K Y
Sbjct: 17  WRVFDAKGQVLGRLASQISTVLQGKDKPTYAPNRDDGDICIVLNAKDISVTGRKLTDKFY 76

Query: 168 RRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           R H+G  G +KE +      + P  +I  AV  MLP+ R
Sbjct: 77  RWHTGYIGHLKERSLKDQMAKDPTEVIRKAVLRMLPRNR 115

Length = 191

>gnl|CDD|235793 PRK06394, rpl13p, 50S ribosomal protein L13P; Reviewed

 Score = 63.0 bits (154), Expect = 8e-13
 Identities = 35/103 (33%), Positives = 52/103 (50%), Gaps = 17/103 (16%)

Query: 110 VVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSG-KKRTQKIYR 168
           V+DA  +ILGRLAS +A     K L         G  V++VNAEK  ++G ++R  + Y+
Sbjct: 6   VIDAEGQILGRLASYVA-----KRLL-------EGEEVVIVNAEKAVITGNRERVIEKYK 53

Query: 169 RHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP----KGRK 207
           +   R              R P+RI +  +RGMLP    +GR+
Sbjct: 54  QRRERGSHYNPYRNGPKYPRRPDRIFKRTIRGMLPYKKPRGRE 96

Length = 146

>gnl|CDD|162192 TIGR01077, L13_A_E, ribosomal protein L13, archaeal/eukaryotic

 Score = 57.4 bits (139), Expect = 7e-11
 Identities = 35/103 (33%), Positives = 44/103 (42%), Gaps = 18/103 (17%)

Query: 110 VVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRR 169
           V+D +  ILGRLAS +A     K L         G  V+VVNAEK+ +SG     K+ + 
Sbjct: 2   VIDGSGHILGRLASVVA-----KQLLN-------GEKVVVVNAEKIVISGNFYRNKL-KY 48

Query: 170 HSGRPGGMKEETFDQLQH-RIPERIIEHAVRGMLP----KGRK 207
                              R P RI    VRGMLP    +GR 
Sbjct: 49  KEFLRKRTLTNPRRGPFFPRAPSRIFRRTVRGMLPHKTARGRA 91

This model represents ribosomal protein of L13 from the Archaea and from the eukaryotic cytosol. Bacterial and organellar forms are represented by model TIGR01066 [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 142

>gnl|CDD|240253 PTZ00068, PTZ00068, 60S ribosomal protein L13a; Provisional

 Score = 45.0 bits (107), Expect = 5e-06
 Identities = 31/104 (29%), Positives = 40/104 (38%), Gaps = 28/104 (26%)

Query: 109 YVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGK-KRTQKIY 167
            V+D    +LGRLAS +A     K L         G  ++VV  E + +SG   R +  Y
Sbjct: 6   IVIDCKGHLLGRLASVVA-----KELLL-------GQKIVVVRCEDLNISGSLFRNKVKY 53

Query: 168 RR-------HSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK 204
                     + R G           HR P  I    VRGMLP 
Sbjct: 54  EEFLRKRMNTNPRRG--------PFHHRAPSDIFWRTVRGMLPH 89

Length = 202

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	208
CHL00159	143	rpl13 ribosomal protein L13; Validated	100.0
PRK09216	144	rplM 50S ribosomal protein L13; Reviewed	100.0
TIGR01066	140	rplM_bact ribosomal protein L13, bacterial type. T	100.0
COG0102	148	RplM Ribosomal protein L13 [Translation, ribosomal	100.0
cd00392	114	Ribosomal_L13 Ribosomal protein L13. Protein L13,	100.0
PLN00205	191	ribisomal protein L13 family protein; Provisional	100.0
KOG3203	165	consensus Mitochondrial/chloroplast ribosomal prot	100.0
PF00572	128	Ribosomal_L13: Ribosomal protein L13; InterPro: IP	100.0
TIGR01077	142	L13_A_E ribosomal protein L13, archaeal/eukaryotic	99.97
PRK06394	146	rpl13p 50S ribosomal protein L13P; Reviewed	99.96
PTZ00068	202	60S ribosomal protein L13a; Provisional	99.96
KOG3204	197	consensus 60S ribosomal protein L13a [Translation,	99.38

>CHL00159 rpl13 ribosomal protein L13; Validated

Probab=100.00  E-value=2.1e-52  Score=342.05  Aligned_cols=116  Identities=58%  Similarity=0.998  Sum_probs=112.8

Q ss_pred             cceeccCCCCCCCcccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeee
Q 028533           90 WNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRR  169 (208)
Q Consensus        90 ~~kT~~~k~~~~~~~~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~  169 (208)
                      ||+||+++.++   .+|+||||||+||+||||||.||++|+|||||+|||++||||+|||||||+|+|||+||.+|.|++
T Consensus         1 ~~~t~~~~~~~---~~r~W~viDA~~~~lGRlAs~iA~~L~GKhKp~ytP~~d~Gd~VVViNa~kv~~TG~K~~~K~y~~   77 (143)
T CHL00159          1 MNKTFIPSKDY---KNRKWYIIDAKDQTLGRLATKIASLLRGKNKPSYHPSVDTGDYVIVINAEKIKVTGNKTSQKFYVR   77 (143)
T ss_pred             CCccccCCchh---cCCCEEEEeCCCCchHHHHHHHHHHHhccCCCCcCCCcCCCCEEEEEecceeEEeCchhhheEEEe
Confidence            57899999888   589999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCCCCCCCchhhhhccChHHHHHHHHhCcCCCCCCC
Q 028533          170 HSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRKQ  208 (208)
Q Consensus       170 HtgyPGglk~~t~~~l~~r~P~~IlkrAVrGMLPkn~Lr  208 (208)
                      |||||||+|+++++++++|+|++||++||+||||||+|+
T Consensus        78 htg~pGg~k~~~~~~~~~r~P~~il~~aV~gMLPkn~lg  116 (143)
T CHL00159         78 HSGRPGGLKIETFEELQNRLPNRIIEKAVKGMLPKGPLG  116 (143)
T ss_pred             cCCCCCCcccccHHHHhhcCHHHHHHHHHHhcCCCChhH
Confidence            999999999999999999999999999999999999874

>PRK09216 rplM 50S ribosomal protein L13; Reviewed

Probab=100.00  E-value=1.5e-51  Score=337.14  Aligned_cols=115  Identities=56%  Similarity=0.909  Sum_probs=111.6

Q ss_pred             ceeccCCCCCCCcccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeec
Q 028533           91 NNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRH  170 (208)
Q Consensus        91 ~kT~~~k~~~~~~~~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~H  170 (208)
                      |+||++++++   .+|+||||||+||+||||||.||++|+|||||+|+|++||||+|||||||+|+|||+||++|.|++|
T Consensus         1 m~t~~~~~~~---~~~~W~viDA~~~~lGRlAs~IAk~L~GKhKp~y~p~~d~Gd~VvViNa~ki~~tG~k~~~k~y~~h   77 (144)
T PRK09216          1 MKTFSAKPAE---VERKWYVIDAEGKVLGRLASEVASILRGKHKPTFTPHVDTGDFVIVINAEKVKLTGKKLTDKIYYRH   77 (144)
T ss_pred             CCcccCChhh---cCCCEEEEeCCCCchHHHHHHHHHHHhccCCCCcCCCCCCCCEEEEEeCceeEEcCchHhheeeEEe
Confidence            4799999888   5899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCCchhhhhccChHHHHHHHHhCcCCCCCCC
Q 028533          171 SGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRKQ  208 (208)
Q Consensus       171 tgyPGglk~~t~~~l~~r~P~~IlkrAVrGMLPkn~Lr  208 (208)
                      ||||||+++++++++++|+|++||++||+||||+|+|+
T Consensus        78 tg~pGglk~~~~~~~~~r~P~~il~~aVrgMLPkn~lg  115 (144)
T PRK09216         78 SGYPGGLKEITFGELLAKKPERVIEKAVKGMLPKNPLG  115 (144)
T ss_pred             cccCCCCEEecHHHHhhhCHHHHHHHHHHhcCCCCccH
Confidence            99999999999999999999999999999999999874

>TIGR01066 rplM_bact ribosomal protein L13, bacterial type

Probab=100.00  E-value=1.3e-49  Score=324.24  Aligned_cols=105  Identities=60%  Similarity=0.995  Sum_probs=103.1

Q ss_pred             ccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeeccCCCCCCCCCchh
Q 028533          104 SDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFD  183 (208)
Q Consensus       104 ~~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~~t~~  183 (208)
                      .+|+||||||+||+||||||.||++|+|||||+|||++||||+|||||||+|+|||+||++|.|++|||||||++.++++
T Consensus         9 ~~r~W~viDA~~~~lGRLAs~iAk~L~GKhKp~y~p~~d~Gd~VvViNa~ki~~tG~k~~~k~y~~htg~pgg~k~~~~~   88 (140)
T TIGR01066         9 KKRKWYVVDAAGKTLGRLASEVARLLRGKHKPTYTPHVDCGDYVIVINAEKVRLTGKKLEQKVYYRHSGYPGGLKSRTFE   88 (140)
T ss_pred             hcccEEEEeCCCCchHHHHHHHHHHHhccCCCccCCCccCCCEEEEEeccEEEEeCchhhceeeEEEcccCCccccccHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccChHHHHHHHHhCcCCCCCCC
Q 028533          184 QLQHRIPERIIEHAVRGMLPKGRKQ  208 (208)
Q Consensus       184 ~l~~r~P~~IlkrAVrGMLPkn~Lr  208 (208)
                      ++++|+|++||++||+||||||.|+
T Consensus        89 ~~~~r~P~~ii~~aVrGMLPkn~lg  113 (140)
T TIGR01066        89 EMIARKPERVLEHAVKGMLPKNRLG  113 (140)
T ss_pred             HhhhcCHHHHHHHHHHhcCCCCccH
Confidence            9999999999999999999999874

This model distinguishes ribosomal protein L13 of bacteria and organelles from its eukarytotic and archaeal counterparts.

>COG0102 RplM Ribosomal protein L13 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=2.9e-49  Score=325.06  Aligned_cols=114  Identities=55%  Similarity=0.879  Sum_probs=109.4

Q ss_pred             ceeccCCCCCCCcccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeec
Q 028533           91 NNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRH  170 (208)
Q Consensus        91 ~kT~~~k~~~~~~~~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~H  170 (208)
                      |+|++++..+   .+++|+||||+|++||||||.||++|+|||||+||||+||||+|||||||||+|||+|..+|.||+|
T Consensus         1 ~~t~~~k~~~---~~r~w~vIDA~g~vLGRLAs~VA~~Lrgkhkp~ytP~~d~Gd~ViVINAeKv~iTG~K~~~k~yy~h   77 (148)
T COG0102           1 MKTFTAKPSE---VERKWYVIDAEGKVLGRLASEVAKRLRGKHKPTYTPHVDTGDYVIVINAEKVVITGKKLTDKKYYRH   77 (148)
T ss_pred             CceeccCccc---ccceEEEEeCCCCChHHHHHHHHHHHhcCCCCCcCcCcCCCCEEEEEeceeeEEecccccceEEEEe
Confidence            5789999888   6999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCCchhhhhc-cChHHHHHHHHhCcCCCCCC
Q 028533          171 SGRPGGMKEETFDQLQH-RIPERIIEHAVRGMLPKGRK  207 (208)
Q Consensus       171 tgyPGglk~~t~~~l~~-r~P~~IlkrAVrGMLPkn~L  207 (208)
                      ++||||+++.++++++. |.|++||++||+||||||.|
T Consensus        78 s~~~gglk~~t~~~~~~~r~P~ri~~~AVrGMLPk~~l  115 (148)
T COG0102          78 SGYPGGLKNPTRGGPLAPRRPERILERAVRGMLPKNPL  115 (148)
T ss_pred             eccCCcccccccccccccCCHHHHHHHHHhccCCCChh
Confidence            99999999999977666 99999999999999999876

>cd00392 Ribosomal_L13 Ribosomal protein L13

Probab=100.00  E-value=9.4e-49  Score=309.24  Aligned_cols=101  Identities=55%  Similarity=0.925  Sum_probs=99.8

Q ss_pred             EEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeeccCCCCCCCCCchhhhhc
Q 028533          108 WYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQH  187 (208)
Q Consensus       108 W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~~t~~~l~~  187 (208)
                      |+||||+||+||||||.||++|+|||||+|||++||||+|||||||+|+|||+||.+|.|++|++||||+++++++++++
T Consensus         1 w~viDA~~~~lGRlAs~iA~~L~gKhKp~y~p~~d~Gd~VvViNa~~i~~tG~k~~~k~y~~~~~~~g~~~~~~~~~~~~   80 (114)
T cd00392           1 WHVIDAKGQVLGRLASKVAKLLLGKHKPTYTPHVDCGDYVVVVNAEKIVITGKKWRQKVYYRHTGYPGGLKNPTAGPLHP   80 (114)
T ss_pred             CEEEeCCCCchHHHHHHHHHHHcCCCCCCcCCCccCCCEEEEEeccEEEEeCchhhccceEEeccCCCCCccCCcchhhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cChHHHHHHHHhCcCCCCCCC
Q 028533          188 RIPERIIEHAVRGMLPKGRKQ  208 (208)
Q Consensus       188 r~P~~IlkrAVrGMLPkn~Lr  208 (208)
                      ++|++||++||+||||||+|+
T Consensus        81 ~~P~~il~~aV~gMLPkn~~g  101 (114)
T cd00392          81 RAPERILKRAVRGMLPKNKLG  101 (114)
T ss_pred             hCHHHHHHHHHHhcCCCChhH
Confidence            999999999999999999874

Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the polypeptide exit site. It interacts with proteins L3 and L6, and forms an extensive network of interactions with 23S rRNA. L13 has been identified as a homolog of the human breast basic conserved protein 1 (BBC1), a protein identified through its increased expression in breast cancer. L13 expression is also upregulated in a variety of human gastrointestinal cancers, suggesting it may play a role in the etiology of a variety of human malignancies.

>PLN00205 ribisomal protein L13 family protein; Provisional

Probab=100.00  E-value=1.9e-47  Score=325.16  Aligned_cols=105  Identities=40%  Similarity=0.678  Sum_probs=103.0

Q ss_pred             ccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeeccCCCCCCCCCchh
Q 028533          104 SDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFD  183 (208)
Q Consensus       104 ~~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~~t~~  183 (208)
                      ..++||||||+||+||||||+||++|+|||||+|||++||||+|||||||+|+|||+||.+|.|++|||||||+++++++
T Consensus        13 ~~r~W~VIDA~~~iLGRLAS~IAk~L~GKhKP~ytP~~D~GD~VVVINAekI~lTG~K~~~K~Y~~htgypGglk~~~~~   92 (191)
T PLN00205         13 EGLRWRVFDAKGQVLGRLASQISTVLQGKDKPTYAPNRDDGDICIVLNAKDISVTGRKLTDKFYRWHTGYIGHLKERSLK   92 (191)
T ss_pred             CCCcEEEEeCCCCchHHHHHHHHHHHhccCCCCcCCCcCCCCEEEEEeccEEEEeCChhhcceEEEecCCCCCcccccHH
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccChHHHHHHHHhCcCCCCCCC
Q 028533          184 QLQHRIPERIIEHAVRGMLPKGRKQ  208 (208)
Q Consensus       184 ~l~~r~P~~IlkrAVrGMLPkn~Lr  208 (208)
                      ++++++|++||++||+||||+|+||
T Consensus        93 ~~~~r~P~~Il~kAVrGMLPkn~lr  117 (191)
T PLN00205         93 DQMAKDPTEVIRKAVLRMLPRNRLR  117 (191)
T ss_pred             HHhccCHHHHHHHHHHhcCCCCchH
Confidence            9999999999999999999999985

>KOG3203 consensus Mitochondrial/chloroplast ribosomal protein L13 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.2e-46  Score=311.90  Aligned_cols=106  Identities=53%  Similarity=0.781  Sum_probs=103.7

Q ss_pred             cccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeeccCCCCCCCCCch
Q 028533          103 HSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETF  182 (208)
Q Consensus       103 ~~~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~~t~  182 (208)
                      .++|.|+||||++|+|||||++||.+|+|||||+|||+.||||+|||+||++|.|||+||++|+|++|+||||+++++++
T Consensus        18 afaRvW~vvDa~~q~lGrLAs~ia~~L~GkhKPiYhP~~DcGD~VVV~N~~~Ia~sG~K~~qk~Y~~HsGyPG~lk~~~~   97 (165)
T KOG3203|consen   18 AFARVWHVVDAKQQPLGRLASQIATTLQGKHKPIYHPSTDCGDHVVVTNCKKIAFSGKKWEQKIYRSHSGYPGGLKQTTA   97 (165)
T ss_pred             HHhhhheeeccccCchHHHHHHHHHHHhhccCCccCCccCCCCEEEEecchhheeccchhhhhhhhhcCCCCCchhhhHH
Confidence            35789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhccChHHHHHHHHhCcCCCCCCC
Q 028533          183 DQLQHRIPERIIEHAVRGMLPKGRKQ  208 (208)
Q Consensus       183 ~~l~~r~P~~IlkrAVrGMLPkn~Lr  208 (208)
                      ++++.|+|++|+++||+||||+|+||
T Consensus        98 ~q~~~rdp~~Iv~~AV~gMLPkN~Lr  123 (165)
T KOG3203|consen   98 DQLADRDPCRIVRLAVYGMLPKNLLR  123 (165)
T ss_pred             HHHhhhCHHHHHHHHHHhhCccchHH
Confidence            99999999999999999999999987

>PF00572 Ribosomal_L13: Ribosomal protein L13; InterPro: IPR005822 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=100.00  E-value=7.1e-47  Score=303.49  Aligned_cols=101  Identities=54%  Similarity=0.905  Sum_probs=99.0

Q ss_pred             EEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeeccCCCCCCCCCchhhhhc
Q 028533          108 WYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQH  187 (208)
Q Consensus       108 W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~~t~~~l~~  187 (208)
                      |+||||+||+|||||+.||++|+|||||+|||++||||+|||||||+|++||+||.+|.|++|+|||||+++.+++++++
T Consensus         1 W~viDA~~~~lGRLAs~iAk~L~GKhk~~y~p~~d~Gd~VvViNae~i~~tG~k~~~k~y~~h~~~~g~~~~~~~~~~~~   80 (128)
T PF00572_consen    1 WYVIDAKGQILGRLASKIAKLLLGKHKPTYTPNVDCGDHVVVINAEKIVLTGKKWRQKVYYRHTGYPGGLKNPTAKGLHE   80 (128)
T ss_dssp             EEEEETTTBBHHHHHHHHHHHHCTTSSTSSBTTSSTTEEEEEECGGGBEESSHHHHHHHHHHEHSSSTSCEEEECHHHHC
T ss_pred             CEEEeCCCCchHHHHHHHHHHHhCCCCCccCcCccCCCEEEEEcCeeeEecCCeecceEEEeecccchhhcccchhhhhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cChHHHHHHHHhCcCCCCCCC
Q 028533          188 RIPERIIEHAVRGMLPKGRKQ  208 (208)
Q Consensus       188 r~P~~IlkrAVrGMLPkn~Lr  208 (208)
                      ++|++||++||+||||+|++|
T Consensus        81 ~~P~~i~~~aVrgMLP~n~~g  101 (128)
T PF00572_consen   81 KDPSRILKRAVRGMLPKNKLG  101 (128)
T ss_dssp             SSHHHHHHHHHHTTSTTSHHH
T ss_pred             cCHHHHHHHHHHHHCCCChhh
Confidence            999999999999999998753

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L13 is one of the proteins from the large ribosomal subunit []. In Escherichia coli, L13 is known to be one of the early assembly proteins of the 50S ribosomal subunit.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 4A17_I 4A1E_I 4A1A_I 4A1C_I 3D5B_N 3MS1_J 1VSP_H 3PYT_J 3PYO_J 3PYV_J ....

>TIGR01077 L13_A_E ribosomal protein L13, archaeal/eukaryotic

Probab=99.97  E-value=1.4e-32  Score=224.60  Aligned_cols=86  Identities=37%  Similarity=0.528  Sum_probs=80.5

Q ss_pred             EEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeeccCCCCCCCCCchhhhhcc
Q 028533          109 YVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHR  188 (208)
Q Consensus       109 ~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~~t~~~l~~r  188 (208)
                      +||||+||+||||||.||++|+            |||+|||||||+|++||+|+.+|.||+|+.++|..+..+++++++|
T Consensus         1 ivIDA~~~vlGRLAs~IA~~L~------------~Gd~VvViNaeki~~TG~k~~~k~~y~~~~~~g~~~~~~~~~~~~r   68 (142)
T TIGR01077         1 TVIDGSGHILGRLASVVAKQLL------------NGEKVVVVNAEKIVISGNFYRNKLKYKEFLRKRTLTNPRRGPFFPR   68 (142)
T ss_pred             CEEeCCCCchHHHHHHHHHHHh------------cCCEEEEEechHheecCchhhheeEEEEECCCCCcccCCHHHhhhc
Confidence            5899999999999999999997            9999999999999999999999999999976666666689999999


Q ss_pred             ChHHHHHHHHhCcCCCCC
Q 028533          189 IPERIIEHAVRGMLPKGR  206 (208)
Q Consensus       189 ~P~~IlkrAVrGMLPkn~  206 (208)
                      +|++||++||+||||+|.
T Consensus        69 ~P~~il~~aVrGMLPk~~   86 (142)
T TIGR01077        69 APSRIFRRTVRGMLPHKT   86 (142)
T ss_pred             CHHHHHHHHHHHhCCCCC
Confidence            999999999999999983

This model represents ribosomal protein of L13 from the Archaea and from the eukaryotic cytosol. Bacterial and organellar forms are represented by TIGR01066.

>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed

Probab=99.96  E-value=2e-30  Score=212.93  Aligned_cols=86  Identities=35%  Similarity=0.495  Sum_probs=74.9

Q ss_pred             eEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeeccCCCCCCCCC----ch
Q 028533          107 TWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEE----TF  182 (208)
Q Consensus       107 ~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~~----t~  182 (208)
                      +-+||||+||+|||||+.||++|+            +||+||||||++|++||+|+.++.|+  ++|+ +.+..    ++
T Consensus         3 ~~~viDA~~~vlGRLAs~IA~~L~------------~Gd~VVViNa~kv~~tG~K~~~~~~y--~~~~-~~k~~~np~~~   67 (146)
T PRK06394          3 AMVVIDAEGQILGRLASYVAKRLL------------EGEEVVIVNAEKAVITGNRERVIEKY--KQRR-ERGSHYNPYRN   67 (146)
T ss_pred             ccEEEECCCCchHHHHHHHHHHHh------------CCCEEEEEechheEecCchhhheeeE--eCCC-CCcccCCCCCh
Confidence            458999999999999999999999            69999999999999999998764444  4454 34444    78


Q ss_pred             hhhhccChHHHHHHHHhCcCC-CCCC
Q 028533          183 DQLQHRIPERIIEHAVRGMLP-KGRK  207 (208)
Q Consensus       183 ~~l~~r~P~~IlkrAVrGMLP-kn~L  207 (208)
                      +++++|+|++||++||+|||| ||++
T Consensus        68 ~~~~~r~P~~il~~AV~gMLP~kn~~   93 (146)
T PRK06394         68 GPKYPRRPDRIFKRTIRGMLPYKKPR   93 (146)
T ss_pred             HHhhhcCHHHHHHHHHHhcCCCCChh
Confidence            999999999999999999999 7765

>PTZ00068 60S ribosomal protein L13a; Provisional

Probab=99.96  E-value=1.9e-30  Score=222.73  Aligned_cols=90  Identities=31%  Similarity=0.467  Sum_probs=78.7

Q ss_pred             ceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeeccCCCCCCCCCchhhh
Q 028533          106 KTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQL  185 (208)
Q Consensus       106 r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~~t~~~l  185 (208)
                      .+|+||||+||+||||||.||+.|+            +||+|||||||+|.|||+|+.+|.||+|.-+.+.......+++
T Consensus         3 ~~w~vIDA~g~vLGRLAS~VAk~Ll------------~Gd~VVVVNaeki~iTG~k~~~K~~y~~~lk~~~~~nP~~g~~   70 (202)
T PTZ00068          3 KKVIVIDCKGHLLGRLASVVAKELL------------LGQKIVVVRCEDLNISGSLFRNKVKYEEFLRKRMNTNPRRGPF   70 (202)
T ss_pred             CceEEEECCCCcHHHHHHHHHHHHh------------CCCEEEEEecceeEeecchhhheeeeEeeeEeeccCCCCcchh
Confidence            3799999999999999999999999            9999999999999999999999999999333332222336899


Q ss_pred             hccChHHHHHHHHhCcCCC-CCC
Q 028533          186 QHRIPERIIEHAVRGMLPK-GRK  207 (208)
Q Consensus       186 ~~r~P~~IlkrAVrGMLPk-n~L  207 (208)
                      |+|.|++||++||+||||| |.+
T Consensus        71 ~~r~P~~Il~raVrGMLPkk~~~   93 (202)
T PTZ00068         71 HHRAPSDIFWRTVRGMLPHKTKR   93 (202)
T ss_pred             cccCHHHHHHHHHhhhCCCCChh
Confidence            9999999999999999998 543

>KOG3204 consensus 60S ribosomal protein L13a [Translation, ribosomal structure and biogenesis]

Probab=99.38  E-value=6.7e-13  Score=114.13  Aligned_cols=85  Identities=33%  Similarity=0.574  Sum_probs=73.2

Q ss_pred             cceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeeccCCCCCCCCCchhh
Q 028533          105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQ  184 (208)
Q Consensus       105 ~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~~t~~~  184 (208)
                      ..+-.+||+.||++||||+.+|+.|+            .|..|||+.||.|.++|+-+.+|-|-++.-.       ..++
T Consensus         4 ~~~~~vidg~~hllGrlAa~vaK~ll------------~g~kvvvvr~E~i~isg~f~r~k~~lrk~~~-------~ng~   64 (197)
T KOG3204|consen    4 EVKLVVIDGRGHLLGRLAAIVAKQLL------------LGRKVVVVRCEEINISGNFYRNKLFLRKRLN-------RNGP   64 (197)
T ss_pred             eEEEeeccchhhhhhhHHHHHHHHHh------------cCCeEEEEEEeEEEEecceecchHHHhhhhc-------ccCc
Confidence            34678999999999999999999999            9999999999999999998888855544211       1278


Q ss_pred             hhccChHHHHHHHHhCcCCCCCCC
Q 028533          185 LQHRIPERIIEHAVRGMLPKGRKQ  208 (208)
Q Consensus       185 l~~r~P~~IlkrAVrGMLPkn~Lr  208 (208)
                      +|.|-|.+|++++|+||+|++.-|
T Consensus        65 ~hfr~ps~i~~~~vrgm~~~kt~r   88 (197)
T KOG3204|consen   65 FHFRAPSRILQKAVRGMYPHKTKR   88 (197)
T ss_pred             chhhhHHHHHHHhhccccccCCCc
Confidence            999999999999999999998643

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	208
3bbo_L	250	Homology Model For The Spinach Chloroplast 50s Subu		5e-67
2j28_J	140	Model Of E. Coli Srp Bound To 70s Rncs Length = 140		3e-30
1p85_H	142	Real Space Refined Coordinates Of The 50s Subunit F		4e-30
1vsa_H	163	Crystal Structure Of A 70s Ribosome-Trna Complex Re		1e-26
2j01_N	140	Structure Of The Thermus Thermophilus 70s Ribosome		2e-26
3fin_N	139	T. Thermophilus 70s Ribosome In Complex With Mrna,		2e-26
3pyo_J	137	Crystal Structure Of A Complex Containing Domain 3		2e-26
3mrz_J	139	Recognition Of The Amber Stop Codon By Release Fact		2e-26
1vsp_H	140	Interactions And Dynamics Of The Shine-Dalgarno Hel		2e-26
3tve_M	138	Crystal Structure Analysis Of Ribosomal Decoding. T		2e-26
1nkw_H	174	Crystal Structure Of The Large Ribosomal Subunit Fr		2e-24
1pnu_H	143	Crystal Structure Of A Streptomycin Dependent Ribos		3e-24
2ftc_H	148	Structural Model For The Large Subunit Of The Mamma		2e-15

>pdb|3BBO|L Chain L, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 250

Iteration: 1
 Score =  250 bits (638), Expect = 5e-67,   Method: Compositional matrix adjust.
 Identities = 115/136 (84%), Positives = 124/136 (91%)
Query: 71  VPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIR 130
           VP +QRWMF   E  GPDIWN TWYPK+ADH  +DK WYVVDATD ILGR+ASTIAIHIR
Sbjct: 77  VPLDQRWMFTLEEATGPDIWNTTWYPKSADHVPTDKKWYVVDATDLILGRMASTIAIHIR 136
Query: 131 GKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIP 190
           GKNLA+YTPSVDMGA+VIVVNA+KVAVSGKKRTQK+YRRHSGRPGG+KEETFDQLQ RIP
Sbjct: 137 GKNLASYTPSVDMGAFVIVVNADKVAVSGKKRTQKLYRRHSGRPGGLKEETFDQLQKRIP 196
Query: 191 ERIIEHAVRGMLPKGR 206
           ERIIEHAVRGMLPKGR
Sbjct: 197 ERIIEHAVRGMLPKGR 212

>pdb|2J28|J Chain J, Model Of E. Coli Srp Bound To 70s Rncs Length = 140

Iteration: 1
 Score =  127 bits (320), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 60/100 (60%), Positives = 78/100 (78%)
Query: 106 KTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQK 165
           + WYVVDAT K LGRLA+ +A  +RGK+ A YTP VD G Y+IV+NA+KVAV+G KRT K
Sbjct: 13  RDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNADKVAVTGNKRTDK 72
Query: 166 IYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKG 205
           +Y  H+G  GG+K+ TF+++  R PER+IE AV+GMLPKG
Sbjct: 73  VYYHHTGHIGGIKQATFEEMIARRPERVIEIAVKGMLPKG 112

>pdb|1P85|H Chain H, 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 = 142

Iteration: 1
 Score =  127 bits (320), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 60/100 (60%), Positives = 78/100 (78%)
Query: 106 KTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQK 165
           + WYVVDAT K LGRLA+ +A  +RGK+ A YTP VD G Y+IV+NA+KVAV+G KRT K
Sbjct: 13  RDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNADKVAVTGNKRTDK 72
Query: 166 IYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKG 205
           +Y  H+G  GG+K+ TF+++  R PER+IE AV+GMLPKG
Sbjct: 73  VYYHHTGHIGGIKQATFEEMIARRPERVIEIAVKGMLPKG 112

>pdb|1VSA|H Chain H, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals Functional Interactions And Rearrangements. This File, 1vsa, Contains The 50s Ribosome Subunit. 30s Ribosome Subunit Is In The File 2ow8 Length = 163

Iteration: 1
 Score =  115 bits (289), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 57/114 (50%), Positives = 80/114 (70%), Gaps = 5/114 (4%)
Query: 92  NTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVN 151
            T+ PK  + R     W ++DA  K LGRLA+ IA  +RGK+   +TP+V MG +V+VVN
Sbjct: 25  KTYVPKQVEPR-----WVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVN 79
Query: 152 AEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKG 205
           A+K+ V+GKK  QKIY R+SG PGG+K+   +++    PER++EHAV+GMLPKG
Sbjct: 80  ADKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKG 133

>pdb|2J01|N Chain N, 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 = 140

Iteration: 1
 Score =  115 bits (288), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 57/114 (50%), Positives = 80/114 (70%), Gaps = 5/114 (4%)
Query: 92  NTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVN 151
            T+ PK  + R     W ++DA  K LGRLA+ IA  +RGK+   +TP+V MG +V+VVN
Sbjct: 2   KTYVPKQVEPR-----WVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVN 56
Query: 152 AEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKG 205
           A+K+ V+GKK  QKIY R+SG PGG+K+   +++    PER++EHAV+GMLPKG
Sbjct: 57  ADKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKG 110

>pdb|3FIN|N Chain N, 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 = 139

Iteration: 1
 Score =  115 bits (288), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 57/114 (50%), Positives = 80/114 (70%), Gaps = 5/114 (4%)
Query: 92  NTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVN 151
            T+ PK  + R     W ++DA  K LGRLA+ IA  +RGK+   +TP+V MG +V+VVN
Sbjct: 2   KTYVPKQVEPR-----WVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVN 56
Query: 152 AEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKG 205
           A+K+ V+GKK  QKIY R+SG PGG+K+   +++    PER++EHAV+GMLPKG
Sbjct: 57  ADKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKG 110

>pdb|3PYO|J Chain J, 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 = 137

Iteration: 1
 Score =  115 bits (288), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 57/114 (50%), Positives = 80/114 (70%), Gaps = 5/114 (4%)
Query: 92  NTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVN 151
            T+ PK  + R     W ++DA  K LGRLA+ IA  +RGK+   +TP+V MG +V+VVN
Sbjct: 1   KTYVPKQVEPR-----WVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVN 55
Query: 152 AEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKG 205
           A+K+ V+GKK  QKIY R+SG PGG+K+   +++    PER++EHAV+GMLPKG
Sbjct: 56  ADKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKG 109

>pdb|3MRZ|J Chain J, 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 = 139

Iteration: 1
 Score =  115 bits (288), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 57/114 (50%), Positives = 80/114 (70%), Gaps = 5/114 (4%)
Query: 92  NTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVN 151
            T+ PK  + R     W ++DA  K LGRLA+ IA  +RGK+   +TP+V MG +V+VVN
Sbjct: 1   KTYVPKQVEPR-----WVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVN 55
Query: 152 AEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKG 205
           A+K+ V+GKK  QKIY R+SG PGG+K+   +++    PER++EHAV+GMLPKG
Sbjct: 56  ADKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKG 109

>pdb|1VSP|H Chain H, Interactions And Dynamics Of The Shine-Dalgarno Helix In The 70s Ribosome. This File, 1vsp, Contains The 50s Ribosome Subunit. 30s Ribosome Subunit Is In The File 2qnh Length = 140

Iteration: 1
 Score =  115 bits (288), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 57/114 (50%), Positives = 80/114 (70%), Gaps = 5/114 (4%)
Query: 92  NTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVN 151
            T+ PK  + R     W ++DA  K LGRLA+ IA  +RGK+   +TP+V MG +V+VVN
Sbjct: 2   KTYVPKQVEPR-----WVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVN 56
Query: 152 AEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKG 205
           A+K+ V+GKK  QKIY R+SG PGG+K+   +++    PER++EHAV+GMLPKG
Sbjct: 57  ADKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKG 110

>pdb|3TVE|M Chain M, Crystal Structure Analysis Of Ribosomal Decoding. This Entry Contains The 50s Ribosomal Subunit Of The First 70s Molecule In The Asymmetric Unit For The Cognate Trna-Leu Complex Length = 138

Iteration: 1
 Score =  115 bits (288), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 57/114 (50%), Positives = 80/114 (70%), Gaps = 5/114 (4%)
Query: 92  NTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVN 151
            T+ PK  + R     W ++DA  K LGRLA+ IA  +RGK+   +TP+V MG +V+VVN
Sbjct: 2   KTYVPKQVEPR-----WVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVN 56
Query: 152 AEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKG 205
           A+K+ V+GKK  QKIY R+SG PGG+K+   +++    PER++EHAV+GMLPKG
Sbjct: 57  ADKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKG 110

>pdb|1NKW|H Chain H, Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans Length = 174

Iteration: 1
 Score =  108 bits (270), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 55/115 (47%), Positives = 79/115 (68%), Gaps = 5/115 (4%)
Query: 93  TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
           T+ PK     + ++ W VVDA+   LGRLA+ IA  IRGK+   +TP++  G +V+V+NA
Sbjct: 31  TYIPK-----NDEQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINA 85
Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRK 207
            +VA++GKK   K+Y R++G  GG+K ET  +   + PER+IEHAV GMLPKGR+
Sbjct: 86  AQVALTGKKLDDKVYTRYTGYQGGLKTETAREALSKHPERVIEHAVFGMLPKGRQ 140

>pdb|1PNU|H Chain H, 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 = 143

Iteration: 1
 Score =  107 bits (268), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 55/115 (47%), Positives = 79/115 (68%), Gaps = 5/115 (4%)
Query: 93  TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
           T+ PK     + ++ W VVDA+   LGRLA+ IA  IRGK+   +TP++  G +V+V+NA
Sbjct: 3   TYIPK-----NDEQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINA 57
Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRK 207
            +VA++GKK   K+Y R++G  GG+K ET  +   + PER+IEHAV GMLPKGR+
Sbjct: 58  AQVALTGKKLDDKVYTRYTGYQGGLKTETAREALSKHPERVIEHAVFGMLPKGRQ 112

>pdb|2FTC|H Chain H, Structural Model For The Large Subunit Of The Mammalian Mitochondrial Ribosome Length = 148

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 37/99 (37%), Positives = 59/99 (59%)
Query: 106 KTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQK 165
           + WY++D   +  G+LA+  +I ++G +   Y    D G +V+++N   +A SG K  QK
Sbjct: 16  RIWYLLDGKMQPPGKLAAMASIRLQGLHKPVYHALSDCGDHVVIMNTRHIAFSGNKWEQK 75
Query: 166 IYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK 204
           +Y  H+G PGG ++ T  QL  R P  I++ A+ GMLPK
Sbjct: 76  VYSSHTGYPGGFRQVTAAQLHLRDPVAIVKLAIYGMLPK 114

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	208
3bbo_L	250	Ribosomal protein L13; large ribosomal subunit, sp	1e-76
3r8s_J	142	50S ribosomal protein L13; protein biosynthesis, R	1e-65
3v2d_N	140	50S ribosomal protein L13; ribosome associated inh	2e-64
3f1f_N	163	50S ribosomal protein L13; RF2, ribosome, terminat	3e-64
2zjr_G	174	50S ribosomal protein L13; ribosome, large ribosom	1e-62
2ftc_H	148	L13MT, MRP-L13, 39S ribosomal protein L13, mitocho	1e-62
1j3a_A	142	50S ribosomal protein L13P; rRNA binding, ribosoma	7e-42
1vq8_J	145	50S ribosomal protein L13P; ribosome 50S, protein-	5e-41
3jyw_M	178	60S ribosomal protein L16(A); eukaryotic ribosome,	1e-37
3izc_K	199	60S ribosomal protein RPL16 (L13P); eukaryotic rib	4e-37
4a17_I	198	RPL13A, 60S ribosomal protein L13A; eukaryotic rib	1e-36
3iz5_K	206	60S ribosomal protein L13A (L13P); eukaryotic ribo	3e-36
2zkr_j	203	60S ribosomal protein L13A; protein-RNA complex, 6	1e-34

>3bbo_L Ribosomal protein L13; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 Length = 250

 Score =  229 bits (586), Expect = 1e-76
 Identities = 126/212 (59%), Positives = 150/212 (70%), Gaps = 6/212 (2%)

Query: 1   MATLCTPTCVIFSSLQSSSSSSSFKTLNTG------TTISSSTTPFLGFSVASAKSTSPL 54
           MAT+   + + F S Q+  S        T        T++++       S +++   +  
Sbjct: 1   MATMACASSLTFPSAQTQKSFFGTNVKQTPVLSFPRPTVAAAVAVSARKSTSASTKCTEE 60

Query: 55  NTKRSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDAT 114
             +    V+    +  VP +QRWMF   E  GPDIWN TWYPK+ADH  +DK WYVVDAT
Sbjct: 61  WRQLKEAVKKEFAIPHVPLDQRWMFTLEEATGPDIWNTTWYPKSADHVPTDKKWYVVDAT 120

Query: 115 DKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRP 174
           D ILGR+ASTIAIHIRGKNLA+YTPSVDMGA+VIVVNA+KVAVSGKKRTQK+YRRHSGRP
Sbjct: 121 DLILGRMASTIAIHIRGKNLASYTPSVDMGAFVIVVNADKVAVSGKKRTQKLYRRHSGRP 180

Query: 175 GGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           GG+KEETFDQLQ RIPERIIEHAVRGMLPKGR
Sbjct: 181 GGLKEETFDQLQKRIPERIIEHAVRGMLPKGR 212

>3r8s_J 50S ribosomal protein L13; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_H 1p86_H 1vs8_J 1vs6_J 2aw4_J 2awb_J 2gya_H 2gyc_H 1vt2_J 2i2v_J 2i2t_J* 2qao_J* 2qba_J* 2qbc_J* 2qbe_J 2qbg_J 2qbi_J* 2qbk_J* 2qov_J 2qox_J ... Length = 142

 Score =  198 bits (505), Expect = 1e-65
 Identities = 62/114 (54%), Positives = 81/114 (71%), Gaps = 3/114 (2%)

Query: 93  TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
           T+  K        + WYVVDAT K LGRLA+ +A  +RGK+ A YTP VD G Y+IV+NA
Sbjct: 3   TFTAKPETV---KRDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNA 59

Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           +KVAV+G KRT K+Y  H+G  GG+K+ TF+++  R PER+IE AV+GMLPKG 
Sbjct: 60  DKVAVTGNKRTDKVYYHHTGHIGGIKQATFEEMIARRPERVIEIAVKGMLPKGP 113

>3v2d_N 50S ribosomal protein L13; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgq_M 2hgj_M 2hgu_M 2j03_N 2jl6_N 2jl8_N 2v47_N 2v49_N 2wdi_N 2wdj_N 2wdl_N 2wdn_N 2wh2_N 2wh4_N 2wrj_N 2wrl_N 2wro_N 2wrr_N 2x9s_N 2x9u_N ... Length = 140

 Score =  194 bits (496), Expect = 2e-64
 Identities = 56/114 (49%), Positives = 79/114 (69%), Gaps = 5/114 (4%)

Query: 93  TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
           T+ PK  +       W ++DA  K LGRLA+ IA  +RGK+   +TP+V MG +V+VVNA
Sbjct: 3   TYVPKQVE-----PRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNA 57

Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           +K+ V+GKK  QKIY R+SG PGG+K+   +++    PER++EHAV+GMLPKG 
Sbjct: 58  DKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKGP 111

>3f1f_N 50S ribosomal protein L13; RF2, ribosome, termination, tRNA; 3.00A {Thermus thermophilus} PDB: 1vsa_H 3d5d_N 3d5b_N 3f1h_N Length = 163

 Score =  195 bits (497), Expect = 3e-64
 Identities = 56/119 (47%), Positives = 79/119 (66%), Gaps = 5/119 (4%)

Query: 88  DIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYV 147
                T+ PK  +       W ++DA  K LGRLA+ IA  +RGK+   +TP+V MG +V
Sbjct: 21  RALVKTYVPKQVE-----PRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFV 75

Query: 148 IVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           +VVNA+K+ V+GKK  QKIY R+SG PGG+K+   +++    PER++EHAV+GMLPKG 
Sbjct: 76  VVVNADKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKGP 134

>2zjr_G 50S ribosomal protein L13; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.21.1.1 PDB: 1nwx_H* 1nwy_H* 1sm1_H* 1xbp_H* 2zjp_G* 2zjq_G 1nkw_H 3cf5_G* 3dll_G* 3pio_G* 3pip_G* 1pnu_H 1pny_H 1vor_K 1vou_K 1vow_K 1voy_K 1vp0_K Length = 174

 Score =  191 bits (488), Expect = 1e-62
 Identities = 52/102 (50%), Positives = 73/102 (71%)

Query: 105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 164
           ++ W VVDA+   LGRLA+ IA  IRGK+   +TP++  G +V+V+NA +VA++GKK   
Sbjct: 38  EQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINAAQVALTGKKLDD 97

Query: 165 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           K+Y R++G  GG+K ET  +   + PER+IEHAV GMLPKGR
Sbjct: 98  KVYTRYTGYQGGLKTETAREALSKHPERVIEHAVFGMLPKGR 139

>2ftc_H L13MT, MRP-L13, 39S ribosomal protein L13, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} Length = 148

 Score =  190 bits (485), Expect = 1e-62
 Identities = 37/114 (32%), Positives = 61/114 (53%)

Query: 93  TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
           ++           + WY++D   +  G+LA+  +I ++G +   Y    D G +V+++N 
Sbjct: 3   SFSRAPQQWATFARIWYLLDGKMQPPGKLAAMASIRLQGLHKPVYHALSDCGDHVVIMNT 62

Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
             +A SG K  QK+Y  H+G PGG ++ T  QL  R P  I++ A+ GMLPK  
Sbjct: 63  RHIAFSGNKWEQKVYSSHTGYPGGFRQVTAAQLHLRDPVAIVKLAIYGMLPKNL 116

>1j3a_A 50S ribosomal protein L13P; rRNA binding, ribosomal assembly, ribosome; 1.60A {Pyrococcus horikoshii} SCOP: c.21.1.1 Length = 142

 Score =  137 bits (347), Expect = 7e-42
 Identities = 26/104 (25%), Positives = 42/104 (40%), Gaps = 16/104 (15%)

Query: 109 YVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYR 168
            +++A   ILGRLAS +A  +              G  V++VNAEK  ++G +       
Sbjct: 2   RIINADGLILGRLASRVAKMLLE------------GEEVVIVNAEKAVITGNREVIFSKY 49

Query: 169 RHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK----GRKQ 208
           +       +          +  + I+   +RGMLP     GRK 
Sbjct: 50  KQRTGLRTLTNPRRGPFYPKRSDEIVRRTIRGMLPWKTDRGRKA 93

>1vq8_J 50S ribosomal protein L13P; 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: c.21.1.1 PDB: 1giy_M 1jj2_I 1k73_K* 1k8a_K* 1k9m_K* 1kc8_K* 1kd1_K* 1kqs_I* 1m1k_K* 1m90_K* 1ml5_m* 1n8r_K* 1nji_K* 1q7y_K* 1q81_K* 1q82_K* 1q86_K* 1qvf_I 1qvg_I 1s72_J* ... Length = 145

 Score =  135 bits (342), Expect = 5e-41
 Identities = 28/109 (25%), Positives = 42/109 (38%), Gaps = 20/109 (18%)

Query: 104 SDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRT 163
                 +VDA D I+GR+AS +A                 G  V VVNAE+  ++G++  
Sbjct: 5   EFDADVIVDARDCIMGRVASQVAEQ------------ALDGETVAVVNAERAVITGREEQ 52

Query: 164 QKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK----GRKQ 208
                      G            + P+ I +  +RGMLP     GR+ 
Sbjct: 53  IVEKYEKRVDIGNDNGY----FYPKRPDGIFKRTIRGMLPHKKQRGREA 97

>3jyw_M 60S ribosomal protein L16(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_M Length = 178

 Score =  127 bits (322), Expect = 1e-37
 Identities = 26/98 (26%), Positives = 41/98 (41%), Gaps = 12/98 (12%)

Query: 110 VVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRR 169
           V+D    ++GRLAS +A  +              G  ++VV AE++ +SG+    K+   
Sbjct: 2   VIDGKGHLVGRLASVVAKQLL------------NGQKIVVVRAEELNISGEFFRNKLKYH 49

Query: 170 HSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRK 207
              R      +T      R P RI   A+RGM+     
Sbjct: 50  DFLRKATAFNKTRGPFHFRAPSRIFYKALRGMVSHKTA 87

>4a17_I RPL13A, 60S ribosomal protein L13A; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_I 4a1c_I 4a1e_I Length = 198

 Score =  126 bits (317), Expect = 1e-36
 Identities = 27/103 (26%), Positives = 37/103 (35%), Gaps = 12/103 (11%)

Query: 105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 164
                V+DA   +LGRLAS +A  +              G  ++VV  E + +SG     
Sbjct: 2   FDKLVVIDAKGHLLGRLASYVAKELL------------SGQRIVVVRTEAINISGSLFRN 49

Query: 165 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRK 207
           ++                     R P RI   AVRGMLP    
Sbjct: 50  RVKFSEFLNKWMNHNPRRGVQHFRAPSRIFWRAVRGMLPHKTP 92

>2zkr_j 60S ribosomal protein L13A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 203

 Score =  120 bits (303), Expect = 1e-34
 Identities = 28/104 (26%), Positives = 41/104 (39%), Gaps = 12/104 (11%)

Query: 104 SDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRT 163
           ++    V+D    +LGRLA+ +A  +             +G  V+VV  E + +SG    
Sbjct: 2   AEVQVLVLDGRGHLLGRLAAIVAKQVL------------LGRKVVVVRCEGINISGNFYR 49

Query: 164 QKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRK 207
            K+      R       +      R P RI    VRGMLP   K
Sbjct: 50  NKLNYLAFLRKRMNTNPSRGPYDFRAPSRIFWRTVRGMLPHKTK 93

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	208
3bbo_L	250	Ribosomal protein L13; large ribosomal subunit, sp	100.0
2ftc_H	148	L13MT, MRP-L13, 39S ribosomal protein L13, mitocho	100.0
3r8s_J	142	50S ribosomal protein L13; protein biosynthesis, R	100.0
3v2d_N	140	50S ribosomal protein L13; ribosome associated inh	100.0
2zjr_G	174	50S ribosomal protein L13; ribosome, large ribosom	100.0
3f1f_N	163	50S ribosomal protein L13; RF2, ribosome, terminat	100.0
1j3a_A	142	50S ribosomal protein L13P; rRNA binding, ribosoma	100.0
1vq8_J	145	50S ribosomal protein L13P; ribosome 50S, protein-	100.0
4b6a_O	199	60S ribosomal protein L16-A; large ribosomal subun	100.0
4a17_I	198	RPL13A, 60S ribosomal protein L13A; eukaryotic rib	99.98
3iz5_K	206	60S ribosomal protein L13A (L13P); eukaryotic ribo	99.97
2zkr_j	203	60S ribosomal protein L13A; protein-RNA complex, 6	99.97
3jyw_M	178	60S ribosomal protein L16(A); eukaryotic ribosome,	99.96

>3bbo_L Ribosomal protein L13; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1

Probab=100.00  E-value=1.6e-74  Score=504.96  Aligned_cols=199  Identities=65%  Similarity=1.040  Sum_probs=101.6

Q ss_pred             CccccCCceeeecCCCCCCCCCCccccccccccccCCCCccccccccc--CCCCCcccccceEEEeccc-----------
Q 028533            1 MATLCTPTCVIFSSLQSSSSSSSFKTLNTGTTISSSTTPFLGFSVASA--KSTSPLNTKRSFKVRCCQN-----------   67 (208)
Q Consensus         1 ma~l~~~~~~~~~s~~~~~~~~sf~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~v~c~~~-----------   67 (208)
                      ||+++|+|||||||+|  ++.++|++++       ..+||+|+.++..  .++.+++++.+++|+|+++           
T Consensus         1 ~~~~~~~~~~~~~~~~--~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~   71 (250)
T 3bbo_L            1 MATMACASSLTFPSAQ--TQKSFFGTNV-------KQTPVLSFPRPTVAAAVAVSARKSTSASTKCTEEWRQLKEAVKKE   71 (250)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CcceeeccceeccCCC--CCCccccccc-------ccCceeecccccccccccccccCCCcceEEeeeccchhhhhhccc
Confidence            8999999999999987  4566777776       6689999987553  4456678899999999998           


Q ss_pred             --cccccCcchhhhhhhcccCCcccceeccCCCCCCCcccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCC
Q 028533           68 --LSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGA  145 (208)
Q Consensus        68 --~~~v~~~~r~m~~~~e~~g~~~~~kT~~~k~~~~~~~~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD  145 (208)
                        +++|||||||||++.|+.|+||||+||++|++++++.+|+||||||+||+|||||+.||++|+|||||+|||++||||
T Consensus        72 ~~~~~v~~~~~~~~~~~~~~g~d~~~kT~~~k~~~v~~~~r~W~VIDA~g~vLGRLAS~IAk~LrGKhKP~ytP~vD~GD  151 (250)
T 3bbo_L           72 FAIPHVPLDQRWMFTLEEATGPDIWNTTWYPKSADHVPTDKKWYVVDATDLILGRMASTIAIHIRGKNLASYTPSVDMGA  151 (250)
T ss_dssp             ----------------------------------------CCCCEECCSSCCSSTTHHHHTTTTTTTTTTCCCTTSCCSC
T ss_pred             cccccccccccccccchhhcCCCccceeecCChhhcccccceEEEEeCCCCchHHHHHHHHHHHccCCCCccCccccCCC
Confidence              378999999999999999999999999999999777799999999999999999999999999999999999999999


Q ss_pred             EEEEEeceeeEEeCccccceeeeeccCCCCCCCCCchhhhhccChHHHHHHHHhCcCCCCCCC
Q 028533          146 YVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRKQ  208 (208)
Q Consensus       146 ~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~~t~~~l~~r~P~~IlkrAVrGMLPkn~Lr  208 (208)
                      +|||||||+|+|||+||++|.|++|+|||||+|+++++++++|+|++||++|||||||||+|+
T Consensus       152 ~VVVINAeKI~lTG~K~~~K~Y~rHsgyPGGlK~~t~~~l~~r~PerIi~kAVrGMLPkn~lG  214 (250)
T 3bbo_L          152 FVIVVNADKVAVSGKKRTQKLYRRHSGRPGGLKEETFDQLQKRIPERIIEHAVRGMLPKGRLG  214 (250)
T ss_dssp             CCEESCCSSCCCCSGGGGTCCCBCCCSSSSCCCBCCHHHHTTSCTTHHHHHHHHTTSCSSSSH
T ss_pred             EEEEEecceEEecCChhhceEEEEecCcCCCcccccHHHhhhcChHHHHHHHHHhcCCCCchH
Confidence            999999999999999999999999999999999999999999999999999999999999873

>2ftc_H L13MT, MRP-L13, 39S ribosomal protein L13, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus}

Probab=100.00  E-value=2.6e-53  Score=347.71  Aligned_cols=118  Identities=31%  Similarity=0.566  Sum_probs=114.1

Q ss_pred             ceeccCCCCCCCcccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeec
Q 028533           91 NNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRH  170 (208)
Q Consensus        91 ~kT~~~k~~~~~~~~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~H  170 (208)
                      |.||++|.+++.+++|+||||||+||+||||||.||++|+|||||+|||++||||+|||||||+|++||+||++|.||+|
T Consensus         1 m~t~~~k~~~~~~~~r~w~viDA~g~~LGRLAs~iA~~L~GKhKp~ytP~~D~Gd~VVViNaeki~~tG~k~~~K~yy~h   80 (148)
T 2ftc_H            1 MSSFSRAPQQWATFARIWYLLDGKMQPPGKLAAMASIRLQGLHKPVYHALSDCGDHVVIMNTRHIAFSGNKWEQKVYSSH   80 (148)
T ss_pred             CcccccchhhhhcccCcEEEEeCCCCchHHHHHHHHHHHhccCCCCcCccccCCCEEEEEeceeeEeccchHhhheeeee
Confidence            46899999997777999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCCchhhhhccChHHHHHHHHhCcCCCCCCC
Q 028533          171 SGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRKQ  208 (208)
Q Consensus       171 tgyPGglk~~t~~~l~~r~P~~IlkrAVrGMLPkn~Lr  208 (208)
                      ||||||+++++++++++|+|++||++|||||||||+|+
T Consensus        81 tg~pGg~k~~~~~~~~~r~P~~ii~~aVrGMLPkn~lg  118 (148)
T 2ftc_H           81 TGYPGGFRQVTAAQLHLRDPVAIVKLAIYGMLPKNLHR  118 (148)
T ss_pred             eCCcCCceeccHHHHhhcCHHHHHHHHHHhcCCCCchH
Confidence            99999999999999999999999999999999999763

>3r8s_J 50S ribosomal protein L13; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_H 1p86_H 1vs8_J 1vs6_J 2aw4_J 2awb_J 2gya_H 2gyc_H 1vt2_J 2i2v_J 2i2t_J* 2qao_J* 2qba_J* 2qbc_J* 2qbe_J 2qbg_J 2qbi_J* 2qbk_J* 2qov_J 2qox_J ...

Probab=100.00  E-value=1.5e-53  Score=347.29  Aligned_cols=114  Identities=54%  Similarity=0.913  Sum_probs=111.7

Q ss_pred             ceeccCCCCCCCcccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeec
Q 028533           91 NNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRH  170 (208)
Q Consensus        91 ~kT~~~k~~~~~~~~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~H  170 (208)
                      ||||++|+++   ++|+||||||+||+||||||.||++|+|||||+|||++||||+|||||||+|+|||+||++|.||+|
T Consensus         1 mkt~~~~~~~---~~r~W~viDA~g~~LGRLAs~iAk~L~GKhKp~ytP~~d~Gd~VVViNaeki~~tG~k~~~K~yy~h   77 (142)
T 3r8s_J            1 MKTFTAKPET---VKRDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNADKVAVTGNKRTDKVYYHH   77 (142)
T ss_dssp             CCCCCCCTTT---CCCCEEEEECTTCBHHHHHHHHHHHHHTTTSTTCCTTSCCCCEEEEECGGGCBCCTTHHHHCBCCEE
T ss_pred             CCcccCChhh---ccCcEEEEeCCCCchHHHHHHHHHHHcCCCCCccCCCccCCCEEEEEeCcccCccCchhhceEEEEe
Confidence            6899999998   6999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCCchhhhhccChHHHHHHHHhCcCCCCCC
Q 028533          171 SGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRK  207 (208)
Q Consensus       171 tgyPGglk~~t~~~l~~r~P~~IlkrAVrGMLPkn~L  207 (208)
                      ||||||+++++++++++|+|++||++||+||||||+|
T Consensus        78 tgypGg~k~~~~~~~~~r~P~~ii~~aVrGMLPkn~l  114 (142)
T 3r8s_J           78 TGHIGGIKQATFEEMIARRPERVIEIAVKGMLPKGPL  114 (142)
T ss_dssp             CSSTTCEECCBHHHHHHHCSHHHHHHHHHHHSCSSHH
T ss_pred             cCcCCCccccCHHHHHhhCHHHHHHHHHHhcCCCChh
Confidence            9999999999999999999999999999999999976

>3v2d_N 50S ribosomal protein L13; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgq_M 2hgj_M 2hgu_M 2j03_N 2jl6_N 2jl8_N 2v47_N 2v49_N 2wdi_N 2wdj_N 2wdl_N 2wdn_N 2wh2_N 2wh4_N 2wrj_N 2wrl_N 2wro_N 2wrr_N 2x9s_N 2x9u_N ...

Probab=100.00  E-value=3.6e-53  Score=344.30  Aligned_cols=112  Identities=50%  Similarity=0.867  Sum_probs=109.2

Q ss_pred             ceeccCCCCCCCcccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeec
Q 028533           91 NNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRH  170 (208)
Q Consensus        91 ~kT~~~k~~~~~~~~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~H  170 (208)
                      ||||++|  +   ++|+||||||+||+||||||.||++|+|||||+|||++||||+|||||||+|+|||+||++|.|++|
T Consensus         1 m~t~~~~--~---~~r~w~viDA~~~~LGRLAs~iAk~L~GKhKp~ytP~~d~Gd~VVViNaeki~~tG~k~~~K~yy~h   75 (140)
T 3v2d_N            1 MKTYVPK--Q---VEPRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKLEQKIYTRY   75 (140)
T ss_dssp             CCCCCCC--C---CCCCEEEEECSSSBTTHHHHHHHHHHHTTTSTTCCTTSCCCCEEEEECGGGCBCCTTHHHHCEEEEE
T ss_pred             Ccccccc--c---ccceEEEEeCCCCchHHHHHHHHHHHcCCCCCccCCCccCCCEEEEEeCcceEccCchhhheeeEEe
Confidence            6899999  5   5899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCCchhhhhccChHHHHHHHHhCcCCCCCC
Q 028533          171 SGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRK  207 (208)
Q Consensus       171 tgyPGglk~~t~~~l~~r~P~~IlkrAVrGMLPkn~L  207 (208)
                      ||||||+++++++++++|+|++||++||+||||||+|
T Consensus        76 tgypGglk~~~~~~~~~r~P~~ii~~aVrGMLPk~~l  112 (140)
T 3v2d_N           76 SGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKGPL  112 (140)
T ss_dssp             CSSTTCEEEEEHHHHHHHCTHHHHHHHHHHTSCSSHH
T ss_pred             cccCCcceeccHHHhhhhCHHHHHHHHHHhcCCCChh
Confidence            9999999999999999999999999999999999975

>2zjr_G 50S ribosomal protein L13; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.21.1.1 PDB: 1nwx_H* 1nwy_H* 1sm1_H* 1xbp_H* 2zjp_G* 2zjq_G 1nkw_H 3cf5_G* 3dll_G* 3pio_G* 3pip_G* 1pnu_H 1pny_H 1vor_K 1vou_K 1vow_K 1voy_K 1vp0_K

Probab=100.00  E-value=3e-52  Score=349.20  Aligned_cols=118  Identities=47%  Similarity=0.743  Sum_probs=108.6

Q ss_pred             cCCcccceeccCCCCCCCcccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccc
Q 028533           85 NGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ  164 (208)
Q Consensus        85 ~g~~~~~kT~~~k~~~~~~~~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~  164 (208)
                      ++.+++|+||++|+     .+|+||||||+||+||||||.||++|+|||||+|||++||||+|||||||+|++||+||++
T Consensus        23 ~~~~~~m~T~~~k~-----~~r~W~vIDA~g~~LGRLAs~IAk~L~GKhKP~ytP~~D~GD~VVVINAeki~lTG~K~~~   97 (174)
T 2zjr_G           23 LLRSFKVKTYIPKN-----DEQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINAAQVALTGKKLDD   97 (174)
T ss_dssp             -------CCCCCCC-----SCCCEEEEECTTSBHHHHHHHHHHHHHCSSCSSCCSSSCCCCEEEEECCTTCBCSSCSSSS
T ss_pred             ccccceeeeeccCc-----ccccEEEEeCCCCchHHHHHHHHHHHhccCCCccCccccCCCEEEEEeCeeeEeccchhhc
Confidence            35566889999998     3899999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeeeeccCCCCCCCCCchhhhhccChHHHHHHHHhCcCCCCCC
Q 028533          165 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRK  207 (208)
Q Consensus       165 K~Y~~HtgyPGglk~~t~~~l~~r~P~~IlkrAVrGMLPkn~L  207 (208)
                      |.||+|||||||+++++++++++|+|++||++||+||||||+|
T Consensus        98 K~yy~htgypGGlk~~~~~~~~~r~P~~Ii~~AVrGMLPkn~l  140 (174)
T 2zjr_G           98 KVYTRYTGYQGGLKTETAREALSKHPERVIEHAVFGMLPKGRQ  140 (174)
T ss_dssp             CEEEECCSSCSSCCEEEESTTTTSCHHHHHHHHHGGGSCCSHH
T ss_pred             eEEEEecCcCCCcccccHHHHhhcChHHHHHHHHHhcCCCChh
Confidence            9999999999999999999999999999999999999999975

>3f1f_N 50S ribosomal protein L13; RF2, ribosome, termination, tRNA; 3.00A {Thermus thermophilus} PDB: 1vsa_H 3d5d_N 3d5b_N 3f1h_N

Probab=100.00  E-value=3.6e-52  Score=345.74  Aligned_cols=112  Identities=50%  Similarity=0.867  Sum_probs=108.7

Q ss_pred             ceeccCCCCCCCcccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeec
Q 028533           91 NNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRH  170 (208)
Q Consensus        91 ~kT~~~k~~~~~~~~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~H  170 (208)
                      |+||++|  +   ++|+||||||+||+||||||.||++|+|||||+|||++||||+|||||||+|++||+||++|.||+|
T Consensus        24 mkt~~~k--~---~~r~W~VIDA~g~~LGRLAs~VAk~L~GKhKP~ytP~~D~GD~VVVINaekI~iTG~K~~~K~yy~h   98 (163)
T 3f1f_N           24 VKTYVPK--Q---VEPRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKLEQKIYTRY   98 (163)
T ss_dssp             -CCCCCC--C---CCCCBCBBCCTTCBHHHHHHHHHHHHSCTTSTTCCTTTCCCCBCEECCGGGCBCSTTHHHHCEECCB
T ss_pred             Ccccccc--c---ccCcEEEEeCCCCchHHHHHHHHHHHhcCCCCccCCcccCCCEEEEEeCcccccCCchhhheeeEEe
Confidence            6899999  5   5899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCCchhhhhccChHHHHHHHHhCcCCCCCC
Q 028533          171 SGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRK  207 (208)
Q Consensus       171 tgyPGglk~~t~~~l~~r~P~~IlkrAVrGMLPkn~L  207 (208)
                      ||||||+++++++++++|+|++||++||+||||||+|
T Consensus        99 tgypGglk~~t~~~~~~r~P~~Ii~~AVrGMLPkn~l  135 (163)
T 3f1f_N           99 SGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKGPL  135 (163)
T ss_dssp             CSSTTCBCCEEHHHHHHSSCHHHHHHHHHTTSCSSHH
T ss_pred             cCcCCcceeeehHHhhhcCHHHHHHHHHHhcCCCChh
Confidence            9999999999999999999999999999999999975

>1j3a_A 50S ribosomal protein L13P; rRNA binding, ribosomal assembly, ribosome; 1.60A {Pyrococcus horikoshii} SCOP: c.21.1.1

Probab=100.00  E-value=6e-38  Score=254.95  Aligned_cols=87  Identities=28%  Similarity=0.447  Sum_probs=73.3

Q ss_pred             EEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeeccCCCCCCCC-Cchhhhh
Q 028533          108 WYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKE-ETFDQLQ  186 (208)
Q Consensus       108 W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~-~t~~~l~  186 (208)
                      |+||||+||+||||||.||++|+            |||+|||||||+|+|||+|+++|.||+|++||||++. ++ ++++
T Consensus         1 W~viDA~g~~LGRLAs~vAk~L~------------~Gd~VVViNaeki~iTG~k~~~K~yy~h~g~~gg~~~~~~-~~~~   67 (142)
T 1j3a_A            1 MRIINADGLILGRLASRVAKMLL------------EGEEVVIVNAEKAVITGNREVIFSKYKQRTGLRTLTNPRR-GPFY   67 (142)
T ss_dssp             CEEEECTTBBHHHHHHHHHHHHH------------TTCCEEEECGGGCEEESCHHHHHHHHHHHC--------------C
T ss_pred             CEEEeCCCCchHHHHHHHHHHHh------------cCCEEEEEeCeeeEecccHHhheeeeeecCCCCCCcCCcc-Cccc
Confidence            99999999999999999999999            9999999999999999999999999999999999776 67 9999


Q ss_pred             ccChHHHHHHHHhCcCC-CCCC
Q 028533          187 HRIPERIIEHAVRGMLP-KGRK  207 (208)
Q Consensus       187 ~r~P~~IlkrAVrGMLP-kn~L  207 (208)
                      +|+|++||++||+|||| ||+|
T Consensus        68 ~r~P~~ii~~aVrGMLP~k~~l   89 (142)
T 1j3a_A           68 PKRSDEIVRRTIRGMLPWKTDR   89 (142)
T ss_dssp             CCSHHHHHHHHHHTTTTTTSHH
T ss_pred             ccCHHHHHHHHHHhhccCCCHH
Confidence            99999999999999999 7754

>1vq8_J 50S ribosomal protein L13P; 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: c.21.1.1 PDB: 1giy_M 1jj2_I 1k73_K* 1k8a_K* 1k9m_K* 1kc8_K* 1kd1_K* 1kqs_I* 1m1k_K* 1m90_K* 1ml5_m* 1n8r_K* 1nji_K* 1q7y_K* 1q81_K* 1q82_K* 1q86_K* 1qvf_I 1qvg_I 1s72_J* ...

Probab=100.00  E-value=2.7e-37  Score=252.21  Aligned_cols=87  Identities=31%  Similarity=0.422  Sum_probs=83.9

Q ss_pred             cceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeeccCCCCCCCCCchhh
Q 028533          105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQ  184 (208)
Q Consensus       105 ~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~~t~~~  184 (208)
                      .++||||||+||+||||||+||++|+            |||+|||||||+|++||+|+++|.||+|++|||+    ++++
T Consensus         6 ~~~w~viDA~g~~LGRLAs~vAk~L~------------~Gd~VVViNaeki~iTG~k~~~K~yy~htg~~g~----~~~~   69 (145)
T 1vq8_J            6 FDADVIVDARDCIMGRVASQVAEQAL------------DGETVAVVNAERAVITGREEQIVEKYEKRVDIGN----DNGY   69 (145)
T ss_dssp             CCCSEEEECTTBBHHHHHHHHHHHHH------------TTCCEEEECGGGCEEESCHHHHHHHHHHHHHCCC----SSCC
T ss_pred             cccEEEEeCCCCchHHHHHHHHHHHh------------cCCEEEEEeCEeeEecchhhhheeeeEEeCCCCC----CHHH
Confidence            57899999999999999999999999            9999999999999999999999999999999998    7899


Q ss_pred             hhccChHHHHHHHHhCcCC-CCCC
Q 028533          185 LQHRIPERIIEHAVRGMLP-KGRK  207 (208)
Q Consensus       185 l~~r~P~~IlkrAVrGMLP-kn~L  207 (208)
                      +++|+|++||++||+|||| ||+|
T Consensus        70 ~~~r~P~~i~~~aVrGMLP~K~~l   93 (145)
T 1vq8_J           70 FYPKRPDGIFKRTIRGMLPHKKQR   93 (145)
T ss_dssp             CCCCSHHHHHHHHHHTTTTTTSHH
T ss_pred             HhhcChHHHHHHHHHhhcCCCCHH
Confidence            9999999999999999999 8865

>4a17_I RPL13A, 60S ribosomal protein L13A; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_I 4a1c_I 4a1e_I

Probab=99.98  E-value=7.8e-34  Score=241.73  Aligned_cols=91  Identities=31%  Similarity=0.367  Sum_probs=86.6

Q ss_pred             cceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeeccCCCCCCCCCchhh
Q 028533          105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQ  184 (208)
Q Consensus       105 ~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~~t~~~  184 (208)
                      .++||||||+||+||||||.||++|+            |||+|||||||+|+|||+||++|.||+|+.++++.++.++++
T Consensus         2 ~~~w~VIDA~g~~LGRLAs~VAk~L~------------~GD~VVVINAekI~iTG~K~~~K~yy~~~l~~~~~~~~~~g~   69 (198)
T 4a17_I            2 FDKLVVIDAKGHLLGRLASYVAKELL------------SGQRIVVVRTEAINISGSLFRNRVKFSEFLNKWMNHNPRRGV   69 (198)
T ss_dssp             CSSCEEEECTTBBHHHHHHHHHHHHH------------TTCCEEEECGGGCEEESCHHHHHHHHHHHHTCCCSSCTTSSC
T ss_pred             CccEEEEeCCCCchHHHHHHHHHHHh------------CCCEEEEEcCccccccCchhhheeeeeeccccccCCCCcccc
Confidence            46899999999999999999999999            999999999999999999999999999999999998888899


Q ss_pred             hhccChHHHHHHHHhCcCCC-CCC
Q 028533          185 LQHRIPERIIEHAVRGMLPK-GRK  207 (208)
Q Consensus       185 l~~r~P~~IlkrAVrGMLPk-n~L  207 (208)
                      +++++|++||++||+||||+ |+|
T Consensus        70 ~~~r~P~rIi~~AVrGMLPkK~~l   93 (198)
T 4a17_I           70 QHFRAPSRIFWRAVRGMLPHKTPK   93 (198)
T ss_dssp             CCCCSHHHHHHHHHHTTTTTTSHH
T ss_pred             ccccCHHHHHHHHHhccCCCCChh
Confidence            99999999999999999996 654

>2zkr_j 60S ribosomal protein L13A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=99.97  E-value=5.9e-32  Score=230.92  Aligned_cols=83  Identities=33%  Similarity=0.506  Sum_probs=72.6

Q ss_pred             ccceEEEEeCCCCCchhhHHHHHH-HHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeee-ecc-------CCC
Q 028533          104 SDKTWYVVDATDKILGRLASTIAI-HIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYR-RHS-------GRP  174 (208)
Q Consensus       104 ~~r~W~VIDA~gqiLGRLAS~IAk-~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~-~Ht-------gyP  174 (208)
                      .+++||||||+||+||||||.||+ +|+             ||+|||||||+|+|||+||++|.|| +|+       +||
T Consensus         2 ~~r~w~VIDA~g~~LGRLAS~VAk~lL~-------------G~~VVVINaeki~iTG~k~~~K~yy~~h~~~~~~~n~~~   68 (203)
T 2zkr_j            2 AEVQVLVLDGRGHLLGRLAAIVAKQVLL-------------GRKVVVVRCEGINISGNFYRNKLNYLAFLRKRMNTNPSR   68 (203)
T ss_dssp             -----CEEECTTBBHHHHHHHHHHHHHH-------------TCCEEEECGGGCEEESCHHHHHHHSSSSSCHHHHCCCSS
T ss_pred             CCccEEEEeCCCCchHHHHHHHHHHHhC-------------CCeEEEEchHHeecCchHHHHHHHHHHHHhhcccCCCCC
Confidence            468999999999999999999999 776             7899999999999999999999999 998       677


Q ss_pred             CCCCCCchhhhhccChHHHHHHHHhCcCCC-CCC
Q 028533          175 GGMKEETFDQLQHRIPERIIEHAVRGMLPK-GRK  207 (208)
Q Consensus       175 Gglk~~t~~~l~~r~P~~IlkrAVrGMLPk-n~L  207 (208)
                      |+        +++|+|++||++||+||||+ |+|
T Consensus        69 G~--------~~~r~P~~I~~~AVrGMLPkk~~l   94 (203)
T 2zkr_j           69 GP--------YDFRAPSRIFWRTVRGMLPHKTKR   94 (203)
T ss_dssp             CC--------CCCCSHHHHHHHHHHHHSCTTSHH
T ss_pred             Cc--------cccCChHHHHHHHHHhhCCCCChh
Confidence            75        78999999999999999999 554

>3jyw_M 60S ribosomal protein L16(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus}

Probab=99.96  E-value=1.4e-31  Score=224.57  Aligned_cols=87  Identities=30%  Similarity=0.442  Sum_probs=77.9

Q ss_pred             EEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeeccCCCCCCCCCchhhhhcc
Q 028533          109 YVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHR  188 (208)
Q Consensus       109 ~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~~t~~~l~~r  188 (208)
                      +||||+||+||||||+||++|+            |||+|||||||+|.|||+||++|+||+|..+.+.....+.+++++|
T Consensus         1 ~VIDA~g~~LGRLAs~VAk~L~------------~GD~VVVINaeki~iTG~K~~~K~yy~h~l~~~~~~~~~~~~~~~r   68 (178)
T 3jyw_M            1 VVIDGKGHLVGRLASVVAKQLL------------NGQKIVVVRAEELNISGEFFRNKLKYHDFLRKATAFNKTRGPFHFR   68 (178)
T ss_dssp             CCCCCCSSCSHHHHHHHHHHHT------------TTCCCCEECSTTSCCCCCSSHHHHSCSSSSSSTTSCCCSSSCCCCS
T ss_pred             CEEcCCCCchHHHHHHHHHHHh------------CCCEEEEEeCeeeEEcCchHhhEhheeccCcccccCCccccccccC
Confidence            5899999999999999999999            9999999999999999999999999999544444444567999999


Q ss_pred             ChHHHHHHHHhCcCCC-CCC
Q 028533          189 IPERIIEHAVRGMLPK-GRK  207 (208)
Q Consensus       189 ~P~~IlkrAVrGMLPk-n~L  207 (208)
                      +|++||++|||||||| |+|
T Consensus        69 ~P~~Il~~AVrGMLP~K~~l   88 (178)
T 3jyw_M           69 APSRIFYKALRGMVSHKTAR   88 (178)
T ss_dssp             STTTHHHHHTTSSSCSSSHH
T ss_pred             CHHHHHHHHHHHHhhcccHh
Confidence            9999999999999995 654

---

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
d2zjrg1	142	c.21.1.1 (G:30-171) Ribosomal protein L13 {Deinoco	8e-37
d2gych1	140	c.21.1.1 (H:1-140) Ribosomal protein L13 {Escheric	5e-34
d2j01n1	139	c.21.1.1 (N:1-139) Ribosomal protein L13 {Thermus	3e-33
d1vqoj1	142	c.21.1.1 (J:4-145) Ribosomal protein L13 {Archaeon	1e-21
d1j3aa_	142	c.21.1.1 (A:) Ribosomal protein L13 {Archaeon Pyro	1e-17

>d2zjrg1 c.21.1.1 (G:30-171) Ribosomal protein L13 {Deinococcus radiodurans [TaxId: 1299]} Length = 142

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L13
superfamily: Ribosomal protein L13
family: Ribosomal protein L13
domain: Ribosomal protein L13
species: Deinococcus radiodurans [TaxId: 1299]

 Score =  123 bits (310), Expect = 8e-37
 Identities = 55/114 (48%), Positives = 77/114 (67%), Gaps = 5/114 (4%)

Query: 93  TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
           T+ PK       ++ W VVDA+   LGRLA+ IA  IRGK+   +TP++  G +V+V+NA
Sbjct: 2   TYIPKN-----DEQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINA 56

Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
            +VA++GKK   K+Y R++G  GG+K ET  +   + PER+IEHAV GMLPKGR
Sbjct: 57  AQVALTGKKLDDKVYTRYTGYQGGLKTETAREALSKHPERVIEHAVFGMLPKGR 110

>d2gych1 c.21.1.1 (H:1-140) Ribosomal protein L13 {Escherichia coli [TaxId: 562]} Length = 140

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L13
superfamily: Ribosomal protein L13
family: Ribosomal protein L13
domain: Ribosomal protein L13
species: Escherichia coli [TaxId: 562]

 Score =  116 bits (291), Expect = 5e-34
 Identities = 62/114 (54%), Positives = 81/114 (71%), Gaps = 3/114 (2%)

Query: 93  TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
           T+  K        + WYVVDAT K LGRLA+ +A  +RGK+ A YTP VD G Y+IV+NA
Sbjct: 3   TFTAKPET---VKRDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNA 59

Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           +KVAV+G KRT K+Y  H+G  GG+K+ TF+++  R PER+IE AV+GMLPKG 
Sbjct: 60  DKVAVTGNKRTDKVYYHHTGHIGGIKQATFEEMIARRPERVIEIAVKGMLPKGP 113

>d2j01n1 c.21.1.1 (N:1-139) Ribosomal protein L13 {Thermus thermophilus [TaxId: 274]} Length = 139

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L13
superfamily: Ribosomal protein L13
family: Ribosomal protein L13
domain: Ribosomal protein L13
species: Thermus thermophilus [TaxId: 274]

 Score =  114 bits (286), Expect = 3e-33
 Identities = 56/114 (49%), Positives = 79/114 (69%), Gaps = 5/114 (4%)

Query: 93  TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
           T+ PK  +       W ++DA  K LGRLA+ IA  +RGK+   +TP+V MG +V+VVNA
Sbjct: 3   TYVPKQVE-----PRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNA 57

Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           +K+ V+GKK  QKIY R+SG PGG+K+   +++    PER++EHAV+GMLPKG 
Sbjct: 58  DKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKGP 111

>d1vqoj1 c.21.1.1 (J:4-145) Ribosomal protein L13 {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 142

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L13
superfamily: Ribosomal protein L13
family: Ribosomal protein L13
domain: Ribosomal protein L13
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score = 84.2 bits (208), Expect = 1e-21
 Identities = 26/104 (25%), Positives = 42/104 (40%), Gaps = 16/104 (15%)

Query: 104 SDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRT 163
                 +VDA D I+GR+AS +A                 G  V VVNAE+  ++G++  
Sbjct: 2   EFDADVIVDARDCIMGRVASQVAEQ------------ALDGETVAVVNAERAVITGREEQ 49

Query: 164 QKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRK 207
                      G      + +     P+ I +  +RGMLP  ++
Sbjct: 50  IVEKYEKRVDIGNDNGYFYPKR----PDGIFKRTIRGMLPHKKQ 89

>d1j3aa_ c.21.1.1 (A:) Ribosomal protein L13 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Length = 142

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L13
superfamily: Ribosomal protein L13
family: Ribosomal protein L13
domain: Ribosomal protein L13
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

 Score = 74.3 bits (182), Expect = 1e-17
 Identities = 26/103 (25%), Positives = 43/103 (41%), Gaps = 16/103 (15%)

Query: 110 VVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRR 169
           +++A   ILGRLAS +A  +              G  V++VNAEK  ++G +       +
Sbjct: 3   IINADGLILGRLASRVAKML------------LEGEEVVIVNAEKAVITGNREVIFSKYK 50

Query: 170 HSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP----KGRKQ 208
                  +          +  + I+   +RGMLP    +GRK 
Sbjct: 51  QRTGLRTLTNPRRGPFYPKRSDEIVRRTIRGMLPWKTDRGRKA 93

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	208
d2j01n1	139	Ribosomal protein L13 {Thermus thermophilus [TaxId	100.0
d2gych1	140	Ribosomal protein L13 {Escherichia coli [TaxId: 56	100.0
d2zjrg1	142	Ribosomal protein L13 {Deinococcus radiodurans [Ta	100.0
d1j3aa_	142	Ribosomal protein L13 {Archaeon Pyrococcus horikos	99.97
d1vqoj1	142	Ribosomal protein L13 {Archaeon Haloarcula marismo	99.97

>d2j01n1 c.21.1.1 (N:1-139) Ribosomal protein L13 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L13
superfamily: Ribosomal protein L13
family: Ribosomal protein L13
domain: Ribosomal protein L13
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=4.1e-51  Score=329.23  Aligned_cols=113  Identities=50%  Similarity=0.853  Sum_probs=109.1

Q ss_pred             ceeccCCCCCCCcccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeec
Q 028533           91 NNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRH  170 (208)
Q Consensus        91 ~kT~~~k~~~~~~~~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~H  170 (208)
                      ||||+|++     ++|+||||||+||+||||||.||++|+|||||+|+|++||||+||||||++|+|||+||.++.|++|
T Consensus         1 mkt~~p~~-----~~r~W~viDA~~~~lGRLAs~iA~~L~GK~kp~y~p~~d~Gd~VvViNa~ki~~tG~k~~~k~y~~h   75 (139)
T d2j01n1           1 MKTYVPKQ-----VEPRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKLEQKIYTRY   75 (139)
T ss_dssp             CCCCCCCC-----CCCCCCEECCTTSBTTHHHHHHHHHHTTSSSSSCCTTTCCCCCCEECSCSCCBCSSCCSSSSBCCCC
T ss_pred             CCccCccc-----ccceEEEEeCCCCchHHHHHHHHHHHhccchheeeeccCCCceEEEechhHeeeeccccceeeeeee
Confidence            79999973     3789999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCCchhhhhccChHHHHHHHHhCcCCCCCCC
Q 028533          171 SGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRKQ  208 (208)
Q Consensus       171 tgyPGglk~~t~~~l~~r~P~~IlkrAVrGMLPkn~Lr  208 (208)
                      +|||||+++.+++++++++|++||++||+||||||+|+
T Consensus        76 sgypGg~k~~~~~~~~~k~P~~il~~aV~gMLPkn~lg  113 (139)
T d2j01n1          76 SGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKGPLG  113 (139)
T ss_dssp             CCSSSCCCCCBHHHHHHSSCSHHHHHHHHTTSCSSHHH
T ss_pred             ccccCccccccHHHhcccCHHHHHHHHHHhcCCCChhH
Confidence            99999999999999999999999999999999999763

>d2gych1 c.21.1.1 (H:1-140) Ribosomal protein L13 {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L13
superfamily: Ribosomal protein L13
family: Ribosomal protein L13
domain: Ribosomal protein L13
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.9e-52  Score=337.74  Aligned_cols=115  Identities=54%  Similarity=0.902  Sum_probs=112.8

Q ss_pred             ceeccCCCCCCCcccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeec
Q 028533           91 NNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRH  170 (208)
Q Consensus        91 ~kT~~~k~~~~~~~~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~H  170 (208)
                      ||||++|+++   ++|+||||||+||+||||||.||++|+|||||+|+|++||||+|||||||+|+|||+||.+|.|++|
T Consensus         1 Mkt~~~k~~~---~~r~W~viDA~~~~lGRlAs~iA~~L~GK~kp~y~p~~d~Gd~VvViNaeki~~tG~K~~~k~y~~~   77 (140)
T d2gych1           1 MKTFTAKPET---VKRDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNADKVAVTGNKRTDKVYYHH   77 (140)
T ss_dssp             CCCCCSSSCC---TTCCCCCCCCSSSCSHHHHSSSSSSSTTCSSSCCCSSSCCCCCCCCSCSSSCCCCSSCSTTCCCCCC
T ss_pred             CCcccCChhH---hCccEEEEeCCCCchHHHHHHHHHHHHhccCCccccccCCCcEEEEEechhhcccCchhhhhhhhcc
Confidence            7899999998   6899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCCchhhhhccChHHHHHHHHhCcCCCCCCC
Q 028533          171 SGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRKQ  208 (208)
Q Consensus       171 tgyPGglk~~t~~~l~~r~P~~IlkrAVrGMLPkn~Lr  208 (208)
                      +|||||+++++++++++++|++||++||+||||||+|+
T Consensus        78 sgypgg~k~~~~~~~~~k~P~~il~~aV~gMLPkn~lg  115 (140)
T d2gych1          78 TGHIGGIKQATFEEMIARRPERVIEIAVKGMLPKGPLG  115 (140)
T ss_dssp             CSSCSSCCCCCCHHHHTTCSSSSTTTSSSSCSCSSSTT
T ss_pred             ccCCCCcccccHHHHHhhHHHHHHHHHHHhcCCCChhH
Confidence            99999999999999999999999999999999999985

>d2zjrg1 c.21.1.1 (G:30-171) Ribosomal protein L13 {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L13
superfamily: Ribosomal protein L13
family: Ribosomal protein L13
domain: Ribosomal protein L13
species: Deinococcus radiodurans [TaxId: 1299]

Probab=100.00  E-value=6.9e-50  Score=323.19  Aligned_cols=112  Identities=49%  Similarity=0.814  Sum_probs=107.9

Q ss_pred             eeccCCCCCCCcccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeecc
Q 028533           92 NTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHS  171 (208)
Q Consensus        92 kT~~~k~~~~~~~~r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~Ht  171 (208)
                      |||+||+.     +|+||||||+||+||||||.||++|+|||||+|+|++|+||+||||||++|++||+||.+|.|++|+
T Consensus         1 kt~~~k~~-----~r~W~viDA~~~~lGRlAs~iAk~L~GK~kp~y~p~~d~Gd~ViViNa~ki~~tG~K~~~k~y~~ht   75 (142)
T d2zjrg1           1 KTYIPKND-----EQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINAAQVALTGKKLDDKVYTRYT   75 (142)
T ss_dssp             CCCCCCCS-----CCCEEEEECTTSBHHHHHHHHHHHHHCSSCSSCCSSSCCCCEEEEECCTTCBCSSCSSSSCEEEECC
T ss_pred             CccCCCCC-----CccEEEEECCCCchHHHHHHHHHHHhcCcccceeecccCCCEEEEcCCceeEEcCcchhhheehhhc
Confidence            68999853     5899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCCCchhhhhccChHHHHHHHHhCcCCCCCCC
Q 028533          172 GRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRKQ  208 (208)
Q Consensus       172 gyPGglk~~t~~~l~~r~P~~IlkrAVrGMLPkn~Lr  208 (208)
                      |||||+++++++++++|+|++||++||+||||||+|+
T Consensus        76 g~pgg~k~~~~~~~~~r~P~~ii~~aV~gMLPkn~lg  112 (142)
T d2zjrg1          76 GYQGGLKTETAREALSKHPERVIEHAVFGMLPKGRQG  112 (142)
T ss_dssp             SSCSSCCEEEESTTTTSCHHHHHHHHHGGGSCCSHHH
T ss_pred             ccccccccccHHHHhccchHHHHHHHHHhcCCCChhH
Confidence            9999999999999999999999999999999999763

>d1j3aa_ c.21.1.1 (A:) Ribosomal protein L13 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L13
superfamily: Ribosomal protein L13
family: Ribosomal protein L13
domain: Ribosomal protein L13
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=99.97  E-value=5.1e-34  Score=229.80  Aligned_cols=87  Identities=28%  Similarity=0.435  Sum_probs=70.9

Q ss_pred             EEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeeccCCCCCCCCCchhhhhcc
Q 028533          109 YVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHR  188 (208)
Q Consensus       109 ~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~~t~~~l~~r  188 (208)
                      -||||+|++||||||.||++|+            +||+|||||||+|+|||+||.++.|++|++||||++..++++++++
T Consensus         2 ~vIDA~g~~lGRLAs~vAk~L~------------~Gd~ViVvNaeki~~tG~K~~~k~~~~~~~~~g~~~~~~~~~~~~~   69 (142)
T d1j3aa_           2 RIINADGLILGRLASRVAKMLL------------EGEEVVIVNAEKAVITGNREVIFSKYKQRTGLRTLTNPRRGPFYPK   69 (142)
T ss_dssp             EEEECTTBBHHHHHHHHHHHHH------------TTCCEEEECGGGCEEESCHHHHHHHHHHHC-------------CCC
T ss_pred             EEEeCCCCchHHHHHHHHHHHh------------CCCeEEEEechhheecCcchhhhhhhhhhcccccccCcchhhhccc
Confidence            4899999999999999999996            9999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHhCcCC-CCCC
Q 028533          189 IPERIIEHAVRGMLP-KGRK  207 (208)
Q Consensus       189 ~P~~IlkrAVrGMLP-kn~L  207 (208)
                      +|++||++||+|||| ||+|
T Consensus        70 ~P~~il~~aVrGMLP~k~~l   89 (142)
T d1j3aa_          70 RSDEIVRRTIRGMLPWKTDR   89 (142)
T ss_dssp             SHHHHHHHHHHTTTTTTSHH
T ss_pred             ChHHHHHHHHHcccCCCChH
Confidence            999999999999999 6764

>d1vqoj1 c.21.1.1 (J:4-145) Ribosomal protein L13 {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L13
superfamily: Ribosomal protein L13
family: Ribosomal protein L13
domain: Ribosomal protein L13
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=99.97  E-value=8.9e-34  Score=228.81  Aligned_cols=85  Identities=31%  Similarity=0.437  Sum_probs=79.8

Q ss_pred             ceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEeceeeEEeCccccceeeeeccCCCCCCCCCchhhh
Q 028533          106 KTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQL  185 (208)
Q Consensus       106 r~W~VIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~D~GD~VVVINAekI~vTG~K~~~K~Y~~HtgyPGglk~~t~~~l  185 (208)
                      .+|+||||+||+||||||.||+.|+            +||+|||||||+|+|||+|+.++.||+|++||||.+    +++
T Consensus         4 ~k~ivIDA~~~~lGRLAs~vAk~l~------------~Gd~ViVvNaeki~itG~k~~~k~~y~~~~~~g~~k----g~~   67 (142)
T d1vqoj1           4 DADVIVDARDCIMGRVASQVAEQAL------------DGETVAVVNAERAVITGREEQIVEKYEKRVDIGNDN----GYF   67 (142)
T ss_dssp             CCSEEEECTTBBHHHHHHHHHHHHH------------TTCCEEEECGGGCEEESCHHHHHHHHHHHHHCCCSS----CCC
T ss_pred             cceEEEECCCCchHHHHHHHHHHhc------------CCCEEEEEEChhhcccCcchhhhheeeeeecCCCcc----cee
Confidence            3889999999999999999999997            899999999999999999999999999999999976    568


Q ss_pred             hccChHHHHHHHHhCcCCCCC
Q 028533          186 QHRIPERIIEHAVRGMLPKGR  206 (208)
Q Consensus       186 ~~r~P~~IlkrAVrGMLPkn~  206 (208)
                      ++|+|++||++|||||||++.
T Consensus        68 ~~r~P~~il~raVrGMLP~k~   88 (142)
T d1vqoj1          68 YPKRPDGIFKRTIRGMLPHKK   88 (142)
T ss_dssp             CCCSHHHHHHHHHHTTTTTTS
T ss_pred             hhcCHHHHHHHHHhCcCCCCC
Confidence            999999999999999999543