Citrus Sinensis ID: 029509

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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--
Protein Sequence
MATASMSASLIGSFKGLSLSSSSSSSFLKGDFTVCPKSVTVSLPPTSPLPLTIESAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAYLAQPQLVLASALDDAADGLPNC
Secondary Structure (PSIPRED)
ccccccHHHHHHHHcccccccccccccccccccccccccEEccccccccccEEEEcccccccccccccccccccccEEEEccEEEEcccEEEEccccccccccccccccccEEEEEEcEEEEEEEEcccccEEEEEEccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHcccccccccccccccccccccccccEEEcccccccEEEEEEEccccccccccccccccccccEEEcccEEEccccEEEEEcccEEccccccccccccEEEEEEccEEEEEEcccccEEEEEEcccccccccccccccccHcccccHHHHHHHHHcccccHHHHHHHcccccccccccc
Coil and Loop (DISEMBL)
MATASMSASLIGSFkglslsssssssflkgdftvcpksvtvslpptsplpltiesahkkgagstkngrdsrgqrlgvkifgdqvakpgaiivrqrgtkfhpgknvglgkdhTIFSLIDGLVKfekfgpdrkqisvyprevqpenpnsyrARKREYFRLQREKKKARKEAYLAQPQLVLASALDdaadglpnc
Flexible Loop (DISEMBL)
MATASMSASLIGSFKGLSLSSSSSSSFLKGDFTVCPKSVTVSLPPTSPLPLTIesahkkgagstkngrdsrgqRLGVkifgdqvakpgaiivrqrgtkfhpgknvglgkdHTIFSLIDGLVKFEKFGPDRkqisvyprevqpenpnsyrarkrEYFRLQREKKKARKEAYLAQPQLVLASALDDAADGLPNC
Low Complexity Region (SEG)
MATASMSAsligsfkglslsssssssflkGDFTVCPKsvtvslpptsplpltIESAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAYLAQPQlvlasalddaadglPNC
Disordered region (IsUnstruct)
******************************DFTVCP**************************************LGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPD***************************************************************
Disordered Region (DISOPRED)
********SLIGSFKGLS******************************LPLT**********************LGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPREVQP**************************************************
Disordered Region (DISEMBL)
*********LIGSFK************LKGDFTVCPKSVTVSLPPTSPLPLTIESAH************SRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAYLAQPQLVLASALDDAADGLPNC
Disordered Region (DISPRO)
**************K*********************KSVTVSLPPTSPLPLTIESAHKK************GQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPREVQ*ENPNSYRARKREYFRLQREKKKARKEAYLAQPQLVLASAL**********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MATASMSASLIGSFKGLSLSSSSSSSFLKGDFTVCPKSVTVSLPPTSPLPLTIESAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPREVQPENPNSxxxxxxxxxxxxxxxxxxxxxAYLAQPQLVLASALDDAADGLPNC
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	192	2.2.26 [Sep-21-2011]
Q9FLN4	198	50S ribosomal protein L27	yes	no	0.984	0.954	0.763	9e-73
P30155	179	50S ribosomal protein L27	N/A	no	0.854	0.916	0.791	2e-64
O65037	195	50S ribosomal protein L27	yes	no	0.973	0.958	0.647	1e-60
A6Q4D3	85	50S ribosomal protein L27	yes	no	0.437	0.988	0.702	2e-29
B8HUY8	89	50S ribosomal protein L27	yes	no	0.427	0.921	0.682	3e-28
B0JQG5	89	50S ribosomal protein L27	yes	no	0.442	0.955	0.694	6e-28
Q10ZG7	95	50S ribosomal protein L27	yes	no	0.427	0.863	0.658	2e-27
B5E957	85	50S ribosomal protein L27	yes	no	0.427	0.964	0.682	2e-27
C6E8U2	85	50S ribosomal protein L27	yes	no	0.427	0.964	0.682	2e-27
B3E330	84	50S ribosomal protein L27	yes	no	0.427	0.976	0.670	3e-27

>sp|Q9FLN4|RK27_ARATH 50S ribosomal protein L27, chloroplastic OS=Arabidopsis thaliana GN=RPL27 PE=2 SV=1

 Score =  272 bits (696), Expect = 9e-73,   Method: Compositional matrix adjust.
 Identities = 152/199 (76%), Positives = 167/199 (83%), Gaps = 10/199 (5%)

Query: 1   MATASMSASLIGSFKGLSLSSSSSSSFLKGDFTVCPK-SVTVSLPPT---SPLPLTIESA 56
           MAT SMS +LIG+FKGLSLSS+SS    +GD +  PK S TV+LP     +P+PLTIESA
Sbjct: 3   MAT-SMSLNLIGAFKGLSLSSTSSFL--RGDLSFSPKTSFTVTLPLENLQAPIPLTIESA 59

Query: 57  HKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSL 116
           HKKGAGSTKNGRDS GQRLGVKI+GDQVAKPGAIIVRQRGTKFH GKNVG+GKDHTIFSL
Sbjct: 60  HKKGAGSTKNGRDSPGQRLGVKIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKDHTIFSL 119

Query: 117 IDGLVKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAY---LAQ 173
           IDGLVKFEKFGPDRK+ISVYPRE+ PENPNSYRARKRE FRLQREKKKAR+E Y   L  
Sbjct: 120 IDGLVKFEKFGPDRKKISVYPREIVPENPNSYRARKRENFRLQREKKKARRENYSYTLPT 179

Query: 174 PQLVLASALDDAADGLPNC 192
           P+LVLASA  D A+  P C
Sbjct: 180 PELVLASASVDDAEANPEC 198

Arabidopsis thaliana (taxid: 3702)

>sp|P30155|RK27_TOBAC 50S ribosomal protein L27, chloroplastic OS=Nicotiana tabacum GN=RPL27 PE=1 SV=1

 Score =  244 bits (623), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 137/173 (79%), Positives = 149/173 (86%), Gaps = 9/173 (5%)

Query: 5   SMSASLIGSFKGLSLSSSSSSSFLKGDFT----VCPKSVTVSLPPTSPLPLTIESAHKKG 60
           ++S SL+G+FKGLSL+SSSS    KGDF     V PK  +VS P  SPL  TIESAHKKG
Sbjct: 2   AVSFSLVGAFKGLSLASSSSFL--KGDFGAAFPVAPK-FSVSFPLKSPL--TIESAHKKG 56

Query: 61  AGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGL 120
           AGSTKNGRDS GQRLGVKIFGDQVAKPG+IIVRQRGTKFHPGKNVGLGKDHTIFSLIDGL
Sbjct: 57  AGSTKNGRDSPGQRLGVKIFGDQVAKPGSIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGL 116

Query: 121 VKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAYLAQ 173
           VKFEKFGPDRK+ISVYPREVQPENPNSYR RKRE FRLQRE++KAR+E  + Q
Sbjct: 117 VKFEKFGPDRKKISVYPREVQPENPNSYRNRKRESFRLQRERRKARREGVILQ 169

Nicotiana tabacum (taxid: 4097)

>sp|O65037|RK27_ORYSJ 50S ribosomal protein L27, chloroplastic OS=Oryza sativa subsp. japonica GN=RPL27 PE=2 SV=1

 Score =  232 bits (591), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 127/196 (64%), Positives = 155/196 (79%), Gaps = 9/196 (4%)

Query: 4   ASMSASLIGSFKGLSLSSSSSSS----FLKGDFTVCPKSVTVSL--PPTSPLP-LTIESA 56
           ASM+ +L+G+FKG+SLSS   SS    FL+ D         V +  P T P+  LTI+ A
Sbjct: 2   ASMAFTLVGAFKGMSLSSPCHSSSSASFLRADRVSLSVGGGVGMGVPMTMPVRRLTIQMA 61

Query: 57  HKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSL 116
           HKKGAGSTKNGRDS GQRLGVKI+GDQVAKPGAII+RQRGT+ +PG NVG+GKDHT+FSL
Sbjct: 62  HKKGAGSTKNGRDSPGQRLGVKIYGDQVAKPGAIIIRQRGTRVYPGNNVGMGKDHTLFSL 121

Query: 117 IDGLVKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAYLAQPQL 176
           IDGLVKFEK+GPD+K++SVYP E QPENPNSYRARKREYFR+QRE+KKAR E  + + QL
Sbjct: 122 IDGLVKFEKYGPDKKKVSVYPYEKQPENPNSYRARKREYFRMQRERKKARAEG-IVEVQL 180

Query: 177 VLASALDDAADGLPNC 192
           VLA+A D++ +   +C
Sbjct: 181 VLAAA-DESPEVNADC 195

Oryza sativa subsp. japonica (taxid: 39947)

>sp|A6Q4D3|RL27_NITSB 50S ribosomal protein L27 OS=Nitratiruptor sp. (strain SB155-2) GN=rpmA PE=3 SV=1

 Score =  128 bits (322), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 59/84 (70%), Positives = 71/84 (84%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GST+N RDS G+RLGVK FG +  + G II+RQRGTK HPG NVGLGKDHTIF+
Sbjct: 2   AHKKGQGSTQNNRDSAGRRLGVKKFGGEFVRAGNIIIRQRGTKVHPGNNVGLGKDHTIFA 61

Query: 116 LIDGLVKFEKFGPDRKQISVYPRE 139
           LIDG+VKFE++G DR+++SVYP E
Sbjct: 62  LIDGVVKFERYGKDRQKVSVYPVE 85

Nitratiruptor sp. (strain SB155-2) (taxid: 387092)

>sp|B8HUY8|RL27_CYAP4 50S ribosomal protein L27 OS=Cyanothece sp. (strain PCC 7425 / ATCC 29141) GN=rpmA PE=3 SV=1

 Score =  124 bits (312), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 56/82 (68%), Positives = 67/82 (81%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GST+NGRDS  QRLGVK +G +V + G I+VRQRGTKFHPG NVG G D T+F+
Sbjct: 2   AHKKGTGSTRNGRDSNAQRLGVKRYGGEVVRAGNILVRQRGTKFHPGNNVGRGNDDTLFA 61

Query: 116 LIDGLVKFEKFGPDRKQISVYP 137
            IDG+V FE++G DRK+ISVYP
Sbjct: 62  TIDGVVTFERYGKDRKRISVYP 83

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

>sp|B0JQG5|RL27_MICAN 50S ribosomal protein L27 OS=Microcystis aeruginosa (strain NIES-843) GN=rpmA PE=3 SV=1

 Score =  123 bits (309), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 59/85 (69%), Positives = 68/85 (80%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GST+NGRDSR QRLGVK +G QV K G I++RQRGTK HPGKNVG G D T+F+
Sbjct: 2   AHKKGTGSTRNGRDSRSQRLGVKRYGGQVVKAGNILIRQRGTKVHPGKNVGRGGDDTLFA 61

Query: 116 LIDGLVKFEKFGPDRKQISVYPREV 140
           LIDG+VKFE     R+Q+SVYP EV
Sbjct: 62  LIDGVVKFEYKDKSRRQVSVYPAEV 86

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

>sp|Q10ZG7|RL27_TRIEI 50S ribosomal protein L27 OS=Trichodesmium erythraeum (strain IMS101) GN=rpmA PE=3 SV=1

 Score =  122 bits (306), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 54/82 (65%), Positives = 68/82 (82%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GST+NGRDS  QRLGVK +G QV K G I+VRQRG+KFH G NVG+GKD+T+F+
Sbjct: 2   AHKKGTGSTRNGRDSNSQRLGVKRYGGQVVKAGNILVRQRGSKFHAGNNVGVGKDYTLFA 61

Query: 116 LIDGLVKFEKFGPDRKQISVYP 137
           L++G+V FE+ G  RK++SVYP
Sbjct: 62  LVEGMVTFERKGKSRKKVSVYP 83

Trichodesmium erythraeum (strain IMS101) (taxid: 203124)

>sp|B5E957|RL27_GEOBB 50S ribosomal protein L27 OS=Geobacter bemidjiensis (strain Bem / ATCC BAA-1014 / DSM 16622) GN=rpmA PE=3 SV=1

 Score =  122 bits (306), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 56/82 (68%), Positives = 67/82 (81%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GS++NGRDS GQRLG K FG +  K G II RQ GTK HPG NVGLGKD+T+F+
Sbjct: 2   AHKKGVGSSRNGRDSDGQRLGCKKFGGEAVKAGNIIYRQHGTKIHPGNNVGLGKDYTLFA 61

Query: 116 LIDGLVKFEKFGPDRKQISVYP 137
           LI+G+VKFE+ G DRK++SVYP
Sbjct: 62  LIEGVVKFERMGKDRKKVSVYP 83

Geobacter bemidjiensis (strain Bem / ATCC BAA-1014 / DSM 16622) (taxid: 404380)

>sp|C6E8U2|RL27_GEOSM 50S ribosomal protein L27 OS=Geobacter sp. (strain M21) GN=rpmA PE=3 SV=1

 Score =  122 bits (305), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 56/82 (68%), Positives = 67/82 (81%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GS++NGRDS GQRLG K FG +  K G II RQ GTK HPG NVGLGKD+T+F+
Sbjct: 2   AHKKGVGSSRNGRDSDGQRLGCKKFGGEAVKAGNIIYRQHGTKIHPGNNVGLGKDYTLFA 61

Query: 116 LIDGLVKFEKFGPDRKQISVYP 137
           LI+G+VKFE+ G DRK++SVYP
Sbjct: 62  LIEGVVKFERMGRDRKKVSVYP 83

Geobacter sp. (strain M21) (taxid: 443144)

>sp|B3E330|RL27_GEOLS 50S ribosomal protein L27 OS=Geobacter lovleyi (strain ATCC BAA-1151 / DSM 17278 / SZ) GN=rpmA PE=3 SV=1

 Score =  121 bits (304), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 55/82 (67%), Positives = 68/82 (82%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GS++NGRDS GQRLG K FG ++ K G II RQRGT+ HPG NVG GKD+T+F+
Sbjct: 2   AHKKGVGSSRNGRDSDGQRLGCKKFGGELVKAGNIIYRQRGTQIHPGNNVGCGKDYTLFA 61

Query: 116 LIDGLVKFEKFGPDRKQISVYP 137
           LI+G+VKFE+ G DRK++SVYP
Sbjct: 62  LIEGVVKFERLGRDRKKVSVYP 83

Geobacter lovleyi (strain ATCC BAA-1151 / DSM 17278 / SZ) (taxid: 398767)

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	192
15237524	198	50S ribosomal protein L27 [Arabidopsis t	0.984	0.954	0.763	5e-71
255536879	195	ribosomal protein L27, putative [Ricinus	0.994	0.979	0.766	6e-71
297805558	198	hypothetical protein ARALYDRAFT_493880 [	0.984	0.954	0.748	2e-70
21553582	196	50S ribosomal protein L27 [Arabidopsis t	0.984	0.964	0.753	3e-70
229893934	198	auxin-repressed protein 1 [Brassica rapa	0.989	0.959	0.745	3e-69
147815337	186	hypothetical protein VITISV_010521 [Viti	0.947	0.978	0.771	4e-68
449441696	183	PREDICTED: 50S ribosomal protein L27, ch	0.953	1.0	0.748	5e-68
225451461	186	PREDICTED: 50S ribosomal protein L27, ch	0.947	0.978	0.771	7e-68
118489422	197	unknown [Populus trichocarpa x Populus d	0.770	0.751	0.845	1e-67
343173028	170	50S ribosomal protein L27, partial [Sile	0.848	0.958	0.786	1e-63

>gi|15237524|ref|NP_198911.1| 50S ribosomal protein L27 [Arabidopsis thaliana] gi|20139726|sp|Q9FLN4.1|RK27_ARATH RecName: Full=50S ribosomal protein L27, chloroplastic; AltName: Full=CL27; Flags: Precursor gi|189096146|pdb|3BBO|X Chain X, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome gi|9759141|dbj|BAB09697.1| 50S ribosomal protein L27 [Arabidopsis thaliana] gi|15028249|gb|AAK76713.1| putative 50S ribosomal protein L27 [Arabidopsis thaliana] gi|21436345|gb|AAM51342.1| putative 50S ribosomal protein L27 [Arabidopsis thaliana] gi|332007235|gb|AED94618.1| 50S ribosomal protein L27 [Arabidopsis thaliana]

 Score =  272 bits (696), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 152/199 (76%), Positives = 167/199 (83%), Gaps = 10/199 (5%)

Query: 1   MATASMSASLIGSFKGLSLSSSSSSSFLKGDFTVCPK-SVTVSLPPT---SPLPLTIESA 56
           MAT SMS +LIG+FKGLSLSS+SS    +GD +  PK S TV+LP     +P+PLTIESA
Sbjct: 3   MAT-SMSLNLIGAFKGLSLSSTSSFL--RGDLSFSPKTSFTVTLPLENLQAPIPLTIESA 59

Query: 57  HKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSL 116
           HKKGAGSTKNGRDS GQRLGVKI+GDQVAKPGAIIVRQRGTKFH GKNVG+GKDHTIFSL
Sbjct: 60  HKKGAGSTKNGRDSPGQRLGVKIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKDHTIFSL 119

Query: 117 IDGLVKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAY---LAQ 173
           IDGLVKFEKFGPDRK+ISVYPRE+ PENPNSYRARKRE FRLQREKKKAR+E Y   L  
Sbjct: 120 IDGLVKFEKFGPDRKKISVYPREIVPENPNSYRARKRENFRLQREKKKARRENYSYTLPT 179

Query: 174 PQLVLASALDDAADGLPNC 192
           P+LVLASA  D A+  P C
Sbjct: 180 PELVLASASVDDAEANPEC 198

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255536879|ref|XP_002509506.1| ribosomal protein L27, putative [Ricinus communis] gi|223549405|gb|EEF50893.1| ribosomal protein L27, putative [Ricinus communis]

 Score =  272 bits (695), Expect = 6e-71,   Method: Compositional matrix adjust.
 Identities = 148/193 (76%), Positives = 163/193 (84%), Gaps = 2/193 (1%)

Query: 1   MATA-SMSASLIGSFKGLSLSSSSSSSFLKGDFTVCPKSVTVSLPPTSPLPLTIESAHKK 59
           +ATA ++S +LIG+FKGLSLSSSSS         +      VSLP  +P PLTIE AHKK
Sbjct: 4   IATAGAISFNLIGTFKGLSLSSSSSFFKGDTTLNLSLSRNCVSLPLKAPFPLTIEMAHKK 63

Query: 60  GAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDG 119
           GAGSTKNGRDS GQRLGVKIFG+Q AKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDG
Sbjct: 64  GAGSTKNGRDSPGQRLGVKIFGNQAAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDG 123

Query: 120 LVKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAYLAQPQLVLA 179
           LVKFEKFGPDRK++SVYPREVQPENPNSYRARKREYFRLQRE+KKARKE  +A+PQLVLA
Sbjct: 124 LVKFEKFGPDRKKVSVYPREVQPENPNSYRARKREYFRLQRERKKARKEGLIAEPQLVLA 183

Query: 180 SALDDAADGLPNC 192
           S + DA D  P+C
Sbjct: 184 SNV-DATDDNPDC 195

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297805558|ref|XP_002870663.1| hypothetical protein ARALYDRAFT_493880 [Arabidopsis lyrata subsp. lyrata] gi|297316499|gb|EFH46922.1| hypothetical protein ARALYDRAFT_493880 [Arabidopsis lyrata subsp. lyrata]

 Score =  270 bits (691), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 149/199 (74%), Positives = 166/199 (83%), Gaps = 10/199 (5%)

Query: 1   MATASMSASLIGSFKGLSLSSSSSSSFLKGDFTVCPKSV-TVSLPPT---SPLPLTIESA 56
           MAT SM+ +L+G+FKGLSLSS+SS    +GD    PK+  TV+LP     +P+PLTIESA
Sbjct: 3   MAT-SMTLNLVGAFKGLSLSSTSSFL--RGDLNFSPKTTFTVTLPLENLQAPIPLTIESA 59

Query: 57  HKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSL 116
           HKKGAGSTKNGRDS GQRLGVKI+GDQVAKPGAIIVRQRGTKFH GKNVG+GKDHTIFSL
Sbjct: 60  HKKGAGSTKNGRDSPGQRLGVKIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKDHTIFSL 119

Query: 117 IDGLVKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAY---LAQ 173
           IDGLVKFEKFGPDRKQISVYPRE+ PENPNSYRARKRE FRLQREKKKAR+E Y   +  
Sbjct: 120 IDGLVKFEKFGPDRKQISVYPREIVPENPNSYRARKRENFRLQREKKKARRENYTYTVPT 179

Query: 174 PQLVLASALDDAADGLPNC 192
           P+LVLASA  D A+  P C
Sbjct: 180 PELVLASASIDDAETNPEC 198

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21553582|gb|AAM62675.1| 50S ribosomal protein L27 [Arabidopsis thaliana]

 Score =  270 bits (689), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 150/199 (75%), Positives = 167/199 (83%), Gaps = 10/199 (5%)

Query: 1   MATASMSASLIGSFKGLSLSSSSSSSFLKGDFTVCPKSV-TVSLPPT---SPLPLTIESA 56
           MAT SMS +LIG+FKGLSLSS+SS    +G+ +  PK+  TV+LP     +P+PLTIESA
Sbjct: 1   MAT-SMSLNLIGAFKGLSLSSTSSFL--RGELSFSPKTTFTVTLPLENLQAPVPLTIESA 57

Query: 57  HKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSL 116
           HKKGAGSTKNGRDS GQRLGVKI+GDQVAKPGAIIVRQRGTKFH GKNVG+GKDHTIFSL
Sbjct: 58  HKKGAGSTKNGRDSPGQRLGVKIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKDHTIFSL 117

Query: 117 IDGLVKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAY---LAQ 173
           IDGLVKFEKFGPDRK+ISVYPRE+ PENPNSYRARKRE FRLQREKKKAR+E Y   L  
Sbjct: 118 IDGLVKFEKFGPDRKKISVYPREIVPENPNSYRARKRENFRLQREKKKARRENYTYTLPT 177

Query: 174 PQLVLASALDDAADGLPNC 192
           P+LVLASA  D A+  P C
Sbjct: 178 PELVLASASIDDAEANPEC 196

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|229893934|gb|ACQ90306.1| auxin-repressed protein 1 [Brassica rapa subsp. pekinensis]

 Score =  266 bits (680), Expect = 3e-69,   Method: Compositional matrix adjust.
 Identities = 149/200 (74%), Positives = 166/200 (83%), Gaps = 10/200 (5%)

Query: 1   MATA-SMSASLIGSFKGLSLSSSSSSSFLKGDFTVCPK-SVTVSLPPT---SPLPLTIES 55
           MA A SMS +LIG+FKGLSLSS+SS    +GD  + PK S TV+LP     +P+PLTIES
Sbjct: 1   MAIATSMSLNLIGAFKGLSLSSTSSFL--RGDLNLNPKTSFTVTLPLEKLQAPVPLTIES 58

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKGAGSTKNGRDS GQRLGVKI+GDQVAKPGAIIVRQRGTKFH GKNVG+GKDHTIFS
Sbjct: 59  AHKKGAGSTKNGRDSPGQRLGVKIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKDHTIFS 118

Query: 116 LIDGLVKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAY---LA 172
           LIDGLVKFEKFGPDRK+ISVYPRE+ PENPNSYRARKRE FR+QREKKKAR+E Y   L 
Sbjct: 119 LIDGLVKFEKFGPDRKKISVYPREIVPENPNSYRARKREAFRVQREKKKARRENYTYTLP 178

Query: 173 QPQLVLASALDDAADGLPNC 192
            P+LVLASA  D  +   +C
Sbjct: 179 TPELVLASATVDDEETNADC 198

Source: Brassica rapa subsp. pekinensis

Species: Brassica rapa

Genus: Brassica

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147815337|emb|CAN67770.1| hypothetical protein VITISV_010521 [Vitis vinifera]

 Score =  262 bits (670), Expect = 4e-68,   Method: Compositional matrix adjust.
 Identities = 145/188 (77%), Positives = 160/188 (85%), Gaps = 6/188 (3%)

Query: 7   SASLIGSFKGLSLSSSSSSSFLKGDFTVCPKS--VTVSLPPTSPLPLTIESAHKKGAGST 64
           S +L+G+FKGLSLSS+SS    +GD      S  + VS P  S LPLTIESAHKKGAGST
Sbjct: 3   SLNLVGAFKGLSLSSTSSFL--RGDLGSITGSSKLCVSFPLKS-LPLTIESAHKKGAGST 59

Query: 65  KNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFE 124
           KNGRDSRGQRLGVKI+GDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFE
Sbjct: 60  KNGRDSRGQRLGVKIYGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFE 119

Query: 125 KFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAYLAQPQLVLASALDD 184
           KFGPDRK+ISVYP  +QPENPNS RA+KREYFR+QRE+KKARKE  + QPQLVLASA ++
Sbjct: 120 KFGPDRKKISVYPXVLQPENPNSCRAKKREYFRMQRERKKARKEGIVPQPQLVLASA-NE 178

Query: 185 AADGLPNC 192
           A DG P C
Sbjct: 179 ATDGNPIC 186

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449441696|ref|XP_004138618.1| PREDICTED: 50S ribosomal protein L27, chloroplastic-like isoform 1 [Cucumis sativus] gi|449441698|ref|XP_004138619.1| PREDICTED: 50S ribosomal protein L27, chloroplastic-like isoform 2 [Cucumis sativus] gi|449518795|ref|XP_004166421.1| PREDICTED: 50S ribosomal protein L27, chloroplastic-like isoform 1 [Cucumis sativus] gi|449518797|ref|XP_004166422.1| PREDICTED: 50S ribosomal protein L27, chloroplastic-like isoform 2 [Cucumis sativus]

 Score =  262 bits (670), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 140/187 (74%), Positives = 158/187 (84%), Gaps = 4/187 (2%)

Query: 6   MSASLIGSFKGLSLSSSSSSSFLKGDFTVCPKSVTVSLPPTSPLPLTIESAHKKGAGSTK 65
           M+ +L+ SFKGLSL+SSSS    KGDF     S  +S+   +  PLTIE+AHKKGAGSTK
Sbjct: 1   MTLNLLSSFKGLSLASSSSFF--KGDFGSIHTSPKLSVSFPNIFPLTIENAHKKGAGSTK 58

Query: 66  NGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEK 125
           NGRDS+GQRLGVKIFGDQVAKPG+IIVRQRGTKFH GKNVGLGKDHTIFSLIDGLVKFEK
Sbjct: 59  NGRDSKGQRLGVKIFGDQVAKPGSIIVRQRGTKFHAGKNVGLGKDHTIFSLIDGLVKFEK 118

Query: 126 FGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAYLAQPQLVLASALDDA 185
           +GPD+K++SVYPREVQPENPNSYRARKREYFRLQRE+KKARKE  +AQPQL+LAS   D 
Sbjct: 119 YGPDKKKVSVYPREVQPENPNSYRARKREYFRLQRERKKARKEGIIAQPQLLLAST--DD 176

Query: 186 ADGLPNC 192
            +  P C
Sbjct: 177 VETNPVC 183

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225451461|ref|XP_002270270.1| PREDICTED: 50S ribosomal protein L27, chloroplastic [Vitis vinifera] gi|296082339|emb|CBI21344.3| unnamed protein product [Vitis vinifera]

 Score =  261 bits (668), Expect = 7e-68,   Method: Compositional matrix adjust.
 Identities = 145/188 (77%), Positives = 160/188 (85%), Gaps = 6/188 (3%)

Query: 7   SASLIGSFKGLSLSSSSSSSFLKGDFTVCPKS--VTVSLPPTSPLPLTIESAHKKGAGST 64
           S +L+G+FKGLSLSS+SS    +GD      S  + VS P  S LPLTIESAHKKGAGST
Sbjct: 3   SLNLVGAFKGLSLSSTSSFL--RGDLGSITGSSKLCVSFPLKS-LPLTIESAHKKGAGST 59

Query: 65  KNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFE 124
           KNGRDSRGQRLGVKI+GDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFE
Sbjct: 60  KNGRDSRGQRLGVKIYGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFE 119

Query: 125 KFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAYLAQPQLVLASALDD 184
           KFGPDRK+ISVYP  +QPENPNS RA+KREYFR+QRE+KKARKE  + QPQLVLASA ++
Sbjct: 120 KFGPDRKKISVYPCVLQPENPNSCRAKKREYFRMQRERKKARKEGIVPQPQLVLASA-NE 178

Query: 185 AADGLPNC 192
           A DG P C
Sbjct: 179 ATDGNPIC 186

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118489422|gb|ABK96514.1| unknown [Populus trichocarpa x Populus deltoides]

 Score =  261 bits (667), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 126/149 (84%), Positives = 137/149 (91%), Gaps = 1/149 (0%)

Query: 44  PPTSPLPLTIESAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGK 103
           P  +PLPLTI+ AHKKGAGSTKNGRDS+G+RLGVKI+GDQ AKPGAIIVRQRGTKFHPGK
Sbjct: 50  PVKAPLPLTIQMAHKKGAGSTKNGRDSKGKRLGVKIYGDQAAKPGAIIVRQRGTKFHPGK 109

Query: 104 NVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKK 163
           NVG+GKDHTIFSLIDGLVKFEKFGPDRK+ISVYPRE+QPENPNSYRARKRE FRLQRE+K
Sbjct: 110 NVGIGKDHTIFSLIDGLVKFEKFGPDRKKISVYPREIQPENPNSYRARKRENFRLQRERK 169

Query: 164 KARKEAYLAQPQLVLASALDDAADGLPNC 192
           KARKE  +AQPQLVLAS + DAAD  P C
Sbjct: 170 KARKEGIVAQPQLVLASNV-DAADSNPVC 197

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|343173028|gb|AEL99217.1| 50S ribosomal protein L27, partial [Silene latifolia] gi|343173030|gb|AEL99218.1| 50S ribosomal protein L27, partial [Silene latifolia]

 Score =  248 bits (632), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 136/173 (78%), Positives = 153/173 (88%), Gaps = 10/173 (5%)

Query: 1   MATASMSASLIGSFKGLSLSSSSSSSFLKGDFTVCPKSVTVSLP-----PTSPLPLTIES 55
           MAT SM+ +L+ SFKGLSLSSSSSSSF+KG+F     + T++LP     P  P  LTIES
Sbjct: 3   MAT-SMALNLMVSFKGLSLSSSSSSSFVKGEFG----APTLTLPAQSIQPLLPYGLTIES 57

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKGAGSTKNGRDS+GQRLGVKI+GDQ+AKPGAII+RQRGTK HPGKNVG+GKDHTIFS
Sbjct: 58  AHKKGAGSTKNGRDSKGQRLGVKIYGDQLAKPGAIIIRQRGTKVHPGKNVGIGKDHTIFS 117

Query: 116 LIDGLVKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKE 168
           LIDGLVKFEK+GPD+K++SVYPREVQPENPNSYRARKRE FRLQREKKKARKE
Sbjct: 118 LIDGLVKFEKYGPDKKKVSVYPREVQPENPNSYRARKRENFRLQREKKKARKE 170

Source: Silene latifolia

Species: Silene latifolia

Genus: Silene

Family: Caryophyllaceae

Order: Caryophyllales

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	192
TAIR|locus:2162971	198	RPL27 "ribosomal protein large	0.729	0.707	0.783	2.3e-55
TIGR_CMR|GSU_3235	85	GSU_3235 "ribosomal protein L2	0.427	0.964	0.670	9.4e-27
TIGR_CMR|CJE_0090	84	CJE_0090 "ribosomal protein L2	0.427	0.976	0.670	1.1e-25
TIGR_CMR|CHY_0368	88	CHY_0368 "ribosomal protein L2	0.442	0.965	0.623	2.2e-25
UNIPROTKB|Q9KUS9	86	rpmA "50S ribosomal protein L2	0.437	0.976	0.635	2.9e-23
TIGR_CMR|VC_0436	86	VC_0436 "ribosomal protein L27	0.437	0.976	0.635	2.9e-23
TIGR_CMR|SO_3651	84	SO_3651 "ribosomal protein L27	0.416	0.952	0.654	6.1e-23
TIGR_CMR|APH_0698	91	APH_0698 "ribosomal protein L2	0.442	0.934	0.6	7.8e-23
TIGR_CMR|DET_1326	84	DET_1326 "ribosomal protein L2	0.416	0.952	0.625	1e-22
TIGR_CMR|CPS_4511	85	CPS_4511 "ribosomal protein L2	0.416	0.941	0.629	1.6e-22

TAIR|locus:2162971 RPL27 "ribosomal protein large subunit 27" [Arabidopsis thaliana (taxid:3702)]

 Score = 571 (206.1 bits), Expect = 2.3e-55, P = 2.3e-55
 Identities = 112/143 (78%), Positives = 118/143 (82%)

Query:    53 IESAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHT 112
             IESAHKKGAGSTKNGRDS GQRLGVKI+GDQVAKPGAIIVRQRGTKFH GKNVG+GKDHT
Sbjct:    56 IESAHKKGAGSTKNGRDSPGQRLGVKIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKDHT 115

Query:   113 IFSLIDGLVKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAY-- 170
             IFSLIDGLVKFEKFGPDRK+ISVYPRE+ PENPNSYRARKRE FRLQREKKKAR+E Y  
Sbjct:   116 IFSLIDGLVKFEKFGPDRKKISVYPREIVPENPNSYRARKRENFRLQREKKKARRENYSY 175

Query:   171 -LAQPQXXXXXXXXXXXXXXPNC 192
              L  P+              P C
Sbjct:   176 TLPTPELVLASASVDDAEANPEC 198

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009579 "thylakoid" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009941 "chloroplast envelope" evidence=IDA

TIGR_CMR|GSU_3235 GSU_3235 "ribosomal protein L27" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 301 (111.0 bits), Expect = 9.4e-27, P = 9.4e-27
 Identities = 55/82 (67%), Positives = 66/82 (80%)

Query:    56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
             AHKKG GST+NGRDS  +RLG K FG +  K G II RQRGT+ HPG NVG GKD+T+F+
Sbjct:     2 AHKKGVGSTRNGRDSESKRLGCKKFGGETVKAGNIIYRQRGTQIHPGTNVGCGKDYTLFA 61

Query:   116 LIDGLVKFEKFGPDRKQISVYP 137
             LIDG+VKFE+ G DRK++SVYP
Sbjct:    62 LIDGVVKFERLGRDRKKVSVYP 83

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

GO:0006412 "translation" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|CJE_0090 CJE_0090 "ribosomal protein L27" [Campylobacter jejuni RM1221 (taxid:195099)]

 Score = 291 (107.5 bits), Expect = 1.1e-25, P = 1.1e-25
 Identities = 55/82 (67%), Positives = 65/82 (79%)

Query:    56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
             AHKKG GST+N RDS G+RLGVK FG +  + G II+RQRGT  H G NVG+GKDHTIF+
Sbjct:     2 AHKKGQGSTQNNRDSIGRRLGVKKFGGEFVRAGNIIIRQRGTATHAGNNVGMGKDHTIFA 61

Query:   116 LIDGLVKFEKFGPDRKQISVYP 137
             LIDG VKFE+   DRK++SVYP
Sbjct:    62 LIDGFVKFERKDKDRKKVSVYP 83

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

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|CHY_0368 CHY_0368 "ribosomal protein L27" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 288 (106.4 bits), Expect = 2.2e-25, P = 2.2e-25
 Identities = 53/85 (62%), Positives = 67/85 (78%)

Query:    56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
             AHKKG GS+KNGRDS+ +RLGVK +  Q    G+I+VRQRGTKFHPG NVG+G D T+F+
Sbjct:     2 AHKKGVGSSKNGRDSKAKRLGVKRYAGQFVTAGSILVRQRGTKFHPGNNVGIGGDDTLFA 61

Query:   116 LIDGLVKFEKFGPDRKQISVYPREV 140
              IDG V FE+ G ++KQ+SVYP+ V
Sbjct:    62 KIDGYVVFERKGKNKKQVSVYPQNV 86

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

GO:0006412 "translation" evidence=ISS

UNIPROTKB|Q9KUS9 rpmA "50S ribosomal protein L27" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 268 (99.4 bits), Expect = 2.9e-23, P = 2.9e-23
 Identities = 54/85 (63%), Positives = 63/85 (74%)

Query:    56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
             AHKK  GST+NGRDS  +RLGVK FG +    G IIVRQRGTKFH G NVG+GKDHT+F+
Sbjct:     2 AHKKAGGSTRNGRDSESKRLGVKRFGGESVLAGNIIVRQRGTKFHAGTNVGIGKDHTLFA 61

Query:   116 LIDGLVKFEKFGPD-RKQISVYPRE 139
             L DG VKFE  GP+ RK +S+   E
Sbjct:    62 LSDGKVKFEVKGPNNRKFVSIETAE 86

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|VC_0436 VC_0436 "ribosomal protein L27" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 268 (99.4 bits), Expect = 2.9e-23, P = 2.9e-23
 Identities = 54/85 (63%), Positives = 63/85 (74%)

Query:    56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
             AHKK  GST+NGRDS  +RLGVK FG +    G IIVRQRGTKFH G NVG+GKDHT+F+
Sbjct:     2 AHKKAGGSTRNGRDSESKRLGVKRFGGESVLAGNIIVRQRGTKFHAGTNVGIGKDHTLFA 61

Query:   116 LIDGLVKFEKFGPD-RKQISVYPRE 139
             L DG VKFE  GP+ RK +S+   E
Sbjct:    62 LSDGKVKFEVKGPNNRKFVSIETAE 86

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|SO_3651 SO_3651 "ribosomal protein L27" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 265 (98.3 bits), Expect = 6.1e-23, P = 6.1e-23
 Identities = 53/81 (65%), Positives = 62/81 (76%)

Query:    56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
             AHKK  GST+NGRDS  +RLGVK FG +    G IIVRQRGTKFH G NVG+G+DHT+F+
Sbjct:     2 AHKKAGGSTRNGRDSESKRLGVKRFGGESVLAGNIIVRQRGTKFHAGVNVGIGRDHTLFA 61

Query:   116 LIDGLVKFEKFGPD-RKQISV 135
             L DG VKFE  GP+ RK IS+
Sbjct:    62 LTDGKVKFEVKGPNNRKFISI 82

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|APH_0698 APH_0698 "ribosomal protein L27" [Anaplasma phagocytophilum HZ (taxid:212042)]

 Score = 264 (98.0 bits), Expect = 7.8e-23, P = 7.8e-23
 Identities = 51/85 (60%), Positives = 62/85 (72%)

Query:    56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
             A KK  GS+ NGRDSRG+RLGVK FG ++  PG II+RQRGTK+HPGKNVG+G+DHTIFS
Sbjct:     2 ATKKSGGSSCNGRDSRGRRLGVKKFGSELVIPGNIIIRQRGTKYHPGKNVGIGRDHTIFS 61

Query:   116 LIDGLVKFEKFGPDRKQISVYPREV 140
              I G+V F +    R  + V P  V
Sbjct:    62 KIAGVVSFRRKAEGRVFVDVLPESV 86

GO:0000315 "organellar large ribosomal subunit" evidence=ISS

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|DET_1326 DET_1326 "ribosomal protein L27" [Dehalococcoides ethenogenes 195 (taxid:243164)]

 Score = 263 (97.6 bits), Expect = 1.0e-22, P = 1.0e-22
 Identities = 50/80 (62%), Positives = 63/80 (78%)

Query:    56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
             AHKKGAGSTKNGRDS+ + LGVK F  +    G IIVRQRGT+ HPG+NVGLG+D+TIF+
Sbjct:     2 AHKKGAGSTKNGRDSKPKMLGVKRFAGEKVHSGTIIVRQRGTRIHPGENVGLGRDYTIFA 61

Query:   116 LIDGLVKFEKFGPDRKQISV 135
               +G+VKFE    DR+++SV
Sbjct:    62 TCEGVVKFEPTTNDRRKVSV 81

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

GO:0006412 "translation" evidence=ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

TIGR_CMR|CPS_4511 CPS_4511 "ribosomal protein L27" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 261 (96.9 bits), Expect = 1.6e-22, P = 1.6e-22
 Identities = 51/81 (62%), Positives = 62/81 (76%)

Query:    56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
             AHKK AGST+NGRDS  +RLGVK FG +    G IIVRQRGT+FH G N+G+GKDHT+F+
Sbjct:     2 AHKKAAGSTRNGRDSEAKRLGVKRFGGESVLAGNIIVRQRGTRFHAGSNMGIGKDHTLFA 61

Query:   116 LIDGLVKFEKFGP-DRKQISV 135
             L DG V+FE  GP  RK +S+
Sbjct:    62 LSDGKVQFEVKGPKSRKFVSI 82

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

GO:0006412 "translation" evidence=ISS

GO:0015934 "large ribosomal subunit" 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)
O65037	RK27_ORYSJ	No assigned EC number	0.6479	0.9739	0.9589	yes	no
Q9FLN4	RK27_ARATH	No assigned EC number	0.7638	0.9843	0.9545	yes	no
P30155	RK27_TOBAC	No assigned EC number	0.7919	0.8541	0.9162	N/A	no
P82190	RK27_SPIOL	No assigned EC number	0.9310	0.3020	1.0	N/A	no
A6Q4D3	RL27_NITSB	No assigned EC number	0.7023	0.4375	0.9882	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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	RPL27	RPL27 (RIBOSOMAL PROTEIN LARGE SUBUNIT 27); structural constituent of ribosome; RIBOSOMAL PROTEIN LARGE SUBUNIT 27 (RPL27); FUNCTIONS IN- structural constituent of ribosome; INVOLVED IN- translation; LOCATED IN- thylakoid, ribosome, chloroplast stroma, chloroplast; EXPRESSED IN- 22 plant structures; EXPRESSED DURING- 13 growth stages; CONTAINS InterPro DOMAIN/s- Ribosomal protein L27 (InterPro-IPR001684), Ribosomal protein L27, conserved site (InterPro-IPR018261); BEST Arabidopsis thaliana protein match is- ribosomal protein L27 family protein (TAIR-AT5G15220.1); Has 5099 Blast hits to [...] (198 aa)
		(Arabidopsis thaliana)
Predicted Functional Partners:
	RPL21	50S ribosomal protein L21, chloroplast / CL21 (RPL21); 50S ribosomal protein L21, chloroplast / [...] (220 aa)	•			•	•		•		0.977
	AT5G54600	50S ribosomal protein L24, chloroplast (CL24); 50S ribosomal protein L24, chloroplast (CL24); F [...] (198 aa)				•	•		•		0.965
	RPL3A	ribosomal protein L3 family protein; ribosomal protein L3 family protein; FUNCTIONS IN- structu [...] (271 aa)	•			•	•		•		0.959
	AT3G13120	30S ribosomal protein S10, chloroplast, putative; 30S ribosomal protein S10, chloroplast, putat [...] (191 aa)				•			•		0.944
	PSRP6	PSRP6 (PLASTID-SPECIFIC 50S RIBOSOMAL PROTEIN 6); plastid-specific ribosomal protein 6 precurso [...] (106 aa)				•			•		0.943
	AT3G63490	ribosomal protein L1 family protein; ribosomal protein L1 family protein; FUNCTIONS IN- structu [...] (346 aa)			•	•	•		•		0.938
	AT4G01310	ribosomal protein L5 family protein; ribosomal protein L5 family protein; FUNCTIONS IN- structu [...] (262 aa)	•		•	•	•		•		0.936
	AT2G33800	ribosomal protein S5 family protein; ribosomal protein S5 family protein; FUNCTIONS IN- structu [...] (303 aa)	•			•			•		0.932
	emb2394	emb2394 (embryo defective 2394); structural constituent of ribosome; embryo defective 2394 (emb [...] (223 aa)	•			•	•		•		0.925
	PRPL11	PRPL11 (PLASTID RIBOSOMAL PROTEIN L11); structural constituent of ribosome; mutant has Decrease [...] (222 aa)			•	•	•		•		0.924

---

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	192
PRK05435	82	PRK05435, rpmA, 50S ribosomal protein L27; Validat	1e-55
COG0211	87	COG0211, RpmA, Ribosomal protein L27 [Translation,	2e-49
pfam01016	80	pfam01016, Ribosomal_L27, Ribosomal L27 protein	7e-49
CHL00121	86	CHL00121, rpl27, ribosomal protein L27; Reviewed	5e-41
TIGR00062	83	TIGR00062, L27, ribosomal protein L27	3e-38

>gnl|CDD|235464 PRK05435, rpmA, 50S ribosomal protein L27; Validated

 Score =  170 bits (433), Expect = 1e-55
 Identities = 57/81 (70%), Positives = 66/81 (81%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GST+NGRDS  +RLGVK FG Q  K G IIVRQRGTKFHPG NVG GKDHT+F+
Sbjct: 2   AHKKGGGSTRNGRDSESKRLGVKRFGGQFVKAGNIIVRQRGTKFHPGVNVGRGKDHTLFA 61

Query: 116 LIDGLVKFEKFGPDRKQISVY 136
           L+DG+VKFE+ G +RK +SV 
Sbjct: 62  LVDGVVKFERKGRNRKYVSVV 82

Length = 82

>gnl|CDD|223289 COG0211, RpmA, Ribosomal protein L27 [Translation, ribosomal structure and biogenesis]

 Score =  155 bits (393), Expect = 2e-49
 Identities = 58/82 (70%), Positives = 67/82 (81%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GST+NGRDS  +RLGVK FG Q  K G+IIVRQRGTKFHPG NVG GKDHT+F+
Sbjct: 2   AHKKGGGSTRNGRDSESKRLGVKKFGGQFVKAGSIIVRQRGTKFHPGVNVGRGKDHTLFA 61

Query: 116 LIDGLVKFEKFGPDRKQISVYP 137
           L+DG+VKFE  G +RK +SV P
Sbjct: 62  LVDGVVKFETKGKNRKYVSVVP 83

Length = 87

>gnl|CDD|201553 pfam01016, Ribosomal_L27, Ribosomal L27 protein

 Score =  153 bits (388), Expect = 7e-49
 Identities = 59/80 (73%), Positives = 67/80 (83%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GSTKNGRDS G+RLGVK FG Q  K G IIVRQRGTKFHPG+NVG+GKDHT+F+
Sbjct: 1   AHKKGGGSTKNGRDSNGKRLGVKKFGGQFVKAGNIIVRQRGTKFHPGENVGMGKDHTLFA 60

Query: 116 LIDGLVKFEKFGPDRKQISV 135
           L+DG VKFEK   +RK +SV
Sbjct: 61  LVDGYVKFEKKPKNRKYVSV 80

Length = 80

>gnl|CDD|214370 CHL00121, rpl27, ribosomal protein L27; Reviewed

 Score =  133 bits (336), Expect = 5e-41
 Identities = 51/82 (62%), Positives = 61/82 (74%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKGAGSTKNGRDS  +RLGVK FG +    G I++RQRGTKF PG NVG GKD T+++
Sbjct: 2   AHKKGAGSTKNGRDSNAKRLGVKRFGGEKVSAGNILIRQRGTKFKPGLNVGCGKDFTLYA 61

Query: 116 LIDGLVKFEKFGPDRKQISVYP 137
           LIDG VKF+K    +K I+V  
Sbjct: 62  LIDGFVKFKKKNKKQKSINVIN 83

Length = 86

>gnl|CDD|232803 TIGR00062, L27, ribosomal protein L27

 Score =  126 bits (318), Expect = 3e-38
 Identities = 56/82 (68%), Positives = 64/82 (78%), Gaps = 1/82 (1%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           A KKG GSTKNGRDS  +RLGVK  G Q  + G+IIVRQRGTKFHPG NVG+GKDHT+F+
Sbjct: 2   ATKKGVGSTKNGRDSEAKRLGVKRAGGQFVRAGSIIVRQRGTKFHPGNNVGMGKDHTLFA 61

Query: 116 LIDGLVKFEKFG-PDRKQISVY 136
           L DG+VKFEK G   RK +SV 
Sbjct: 62  LSDGVVKFEKKGKRSRKFVSVV 83

Eubacterial, chloroplast, and mitochondrial. Mitochondrial members have an additional C-terminal domain [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 83

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	192
KOG4600	144	consensus Mitochondrial ribosomal protein MRP7 (L2	100.0
COG0211	87	RpmA Ribosomal protein L27 [Translation, ribosomal	100.0
CHL00121	86	rpl27 ribosomal protein L27; Reviewed	100.0
PRK05435	82	rpmA 50S ribosomal protein L27; Validated	100.0
PF01016	81	Ribosomal_L27: Ribosomal L27 protein; InterPro: IP	100.0
TIGR00062	83	L27 ribosomal protein L27. Eubacterial, chloroplas	100.0
PRK09521	189	exosome complex RNA-binding protein Csl4; Provisio	95.48
PF14382	39	ECR1_N: Exosome complex exonuclease RRP4 N-termina	94.85
COG1096	188	Predicted RNA-binding protein (consists of S1 doma	92.44
PRK04163	235	exosome complex RNA-binding protein Rrp4; Provisio	91.38
PF03961	451	DUF342: Protein of unknown function (DUF342); Inte	83.87
PF01551	96	Peptidase_M23: Peptidase family M23; InterPro: IPR	80.25

>KOG4600 consensus Mitochondrial ribosomal protein MRP7 (L2) [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=7.6e-50  Score=322.95  Aligned_cols=140  Identities=54%  Similarity=0.750  Sum_probs=125.8

Q ss_pred             eeceeeeccCCccceeecCccccCCceeeecCCCCCCceeEEeeeccCCCcCCCCCCCCCcccceeeeCCeEeecCcEee
Q 029509           13 SFKGLSLSSSSSSSFLKGDFTVCPKSVTVSLPPTSPLPLTIESAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIV   92 (192)
Q Consensus        13 ~f~glslss~~sssf~~g~~~~~~~~~~v~~~~~~~~~l~ir~A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIV   92 (192)
                      +|+.|.|++  +|+++.|+.+.+             ..+.||+||||++|||||+|||+|+|||||+|+||+|+||+|||
T Consensus         1 ~~~~l~l~t--as~~~~~~ss~~-------------~~l~vR~AtKk~aGStKN~~dS~grrlGvKk~egq~V~~G~IIv   65 (144)
T KOG4600|consen    1 VVNALRLST--ASSSLDGSSSGL-------------SFLAVRWATKKGAGSTKNGRDSAGRRLGVKKYEGQSVIPGNIIV   65 (144)
T ss_pred             Cccceecch--hhhhhcCCCCcc-------------eeeeeeeecccccCccccCCCCCcccccceecCCeeeecccEEE
Confidence            377888888  455666654433             23459999999999999999999999999999999999999999


Q ss_pred             eccCCeEecCCCeeecccccEEeeeceEEEEEEe--CCCcEEEEEEeCCCCCCCCchhhhhhhhhhhhHHHHHHHhh
Q 029509           93 RQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKF--GPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARK  167 (192)
Q Consensus        93 RQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~--~~~r~~VsV~p~~~~~~~P~s~r~r~r~~~~~~re~~~a~~  167 (192)
                      ||||||||||+|||||||||||||++|+|+|++.  .+.|++|+|+|....+.+|+.+++..|+.++++.+-++|+-
T Consensus        66 rQRgtkfHPG~nVGiGKDhtifaL~eG~Vrf~k~~~~~~Rk~i~V~~~~~~~l~~~~~k~~vr~~~k~~~~~~ka~~  142 (144)
T KOG4600|consen   66 RQRGTKFHPGDNVGIGKDHTIFALEEGRVRFEKSKITPPRKWIGVDPRGGLPLPPPYYKATVRRVTKLPTGTKKAVA  142 (144)
T ss_pred             EecccccCCCcccccCCcceEEEeeccEEEEEEccCCCCcceEEEeecCCccCCCccchhhhhhhcccccchhhhhc
Confidence            9999999999999999999999999999999986  56789999999999999999999999999999999888763

>COG0211 RpmA Ribosomal protein L27 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.8e-46  Score=282.49  Aligned_cols=86  Identities=67%  Similarity=1.067  Sum_probs=84.0

Q ss_pred             eeeccCCCcCCCCCCCCCcccceeeeCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEE
Q 029509           55 SAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQIS  134 (192)
Q Consensus        55 ~A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~Vs  134 (192)
                      |||||++|||+|||||++||||+|+++||.|.+|+|||||||||||||+|||+|+|||||||+||+|+|++.++++++|+
T Consensus         1 mA~KKg~GSt~NgRDS~~krLGvK~~~Gq~v~aG~IivRQRGTk~hpG~NVG~GkDhTlFAl~dG~Vkf~~k~~~rk~vs   80 (87)
T COG0211           1 MAHKKGGGSTRNGRDSESKRLGVKKFGGQFVKAGSIIVRQRGTKFHPGVNVGRGKDHTLFALVDGVVKFETKGKNRKYVS   80 (87)
T ss_pred             CcccccccccccCccccccccceeeeCCeEEecccEEEEeccccccCCcccccCCCceEEEeeccEEEEEEccCCccEEE
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeCCC
Q 029509          135 VYPREV  140 (192)
Q Consensus       135 V~p~~~  140 (192)
                      |+|.+.
T Consensus        81 V~~~~~   86 (87)
T COG0211          81 VVPEAE   86 (87)
T ss_pred             EEeecc
Confidence            999763

>CHL00121 rpl27 ribosomal protein L27; Reviewed

Probab=100.00  E-value=6.3e-45  Score=274.27  Aligned_cols=84  Identities=61%  Similarity=0.947  Sum_probs=82.2

Q ss_pred             eeeccCCCcCCCCCCCCCcccceeeeCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEE
Q 029509           55 SAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQIS  134 (192)
Q Consensus        55 ~A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~Vs  134 (192)
                      |||||++|||+|||||+|||||||+|+||+|.||+||||||||+||||+||||||||||||+++|+|+|++...++++|+
T Consensus         1 mA~KK~~GStkNgrdS~~KrLGvK~~~gq~V~~G~IivRQRGtk~hPG~NVg~GrD~TlfAl~~G~V~f~~~~~~~~~vs   80 (86)
T CHL00121          1 MAHKKGAGSTKNGRDSNAKRLGVKRFGGEKVSAGNILIRQRGTKFKPGLNVGCGKDFTLYALIDGFVKFKKKNKKQKSIN   80 (86)
T ss_pred             CCcccccCcCCCCCCCCcccceeEEcCCEEEcCCcEEEEcCCCeECCCCcccccCCceEEEccceEEEEEEeCCCCEEEE
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999888999999


Q ss_pred             EEeC
Q 029509          135 VYPR  138 (192)
Q Consensus       135 V~p~  138 (192)
                      |+|.
T Consensus        81 v~~~   84 (86)
T CHL00121         81 VINI   84 (86)
T ss_pred             Eeec
Confidence            9985

>PRK05435 rpmA 50S ribosomal protein L27; Validated

Probab=100.00  E-value=1.4e-44  Score=270.46  Aligned_cols=82  Identities=70%  Similarity=1.096  Sum_probs=80.2

Q ss_pred             eeeccCCCcCCCCCCCCCcccceeeeCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEE
Q 029509           55 SAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQIS  134 (192)
Q Consensus        55 ~A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~Vs  134 (192)
                      |||||++|||+|||||+|||||||+|+||+|.||+||||||||+||||+||||||||||||+++|+|+|++..+++++|+
T Consensus         1 mA~KK~~GStkNgrdS~~krLGvK~~~g~~V~~G~IivRQRGtk~~PG~nVg~GrD~TlfA~~~G~V~f~~~~~~~~~v~   80 (82)
T PRK05435          1 MAHKKGGGSTRNGRDSESKRLGVKRFGGQFVKAGNIIVRQRGTKFHPGVNVGRGKDHTLFALVDGVVKFERKGRNRKYVS   80 (82)
T ss_pred             CCcccccCcCCCCCCCCcccceeEecCCEEEcCCcEEEEeCCCeECCCCCEeecCCceEEEecceEEEEEEcCCCcEEEE
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999888999999


Q ss_pred             EE
Q 029509          135 VY  136 (192)
Q Consensus       135 V~  136 (192)
                      |+
T Consensus        81 v~   82 (82)
T PRK05435         81 VV   82 (82)
T ss_pred             EC
Confidence            85

>PF01016 Ribosomal_L27: Ribosomal L27 protein; InterPro: IPR001684 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=100.00  E-value=3.7e-44  Score=267.44  Aligned_cols=81  Identities=69%  Similarity=1.077  Sum_probs=74.3

Q ss_pred             eeccCCCcCCCCCCCCCcccceeeeCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEEE
Q 029509           56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISV  135 (192)
Q Consensus        56 A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV  135 (192)
                      ||||++|||+|||||+|||||||+++||+|.||+||||||||+||||+||||||||||||+++|+|+|++..+++++|+|
T Consensus         1 A~KK~~GSt~NgrdS~~krlGvK~~~G~~V~~G~IivRQRgtk~hPG~NVg~GrD~TLfAl~~G~V~f~~~~~~rk~v~V   80 (81)
T PF01016_consen    1 AHKKGGGSTKNGRDSNPKRLGVKKFGGQFVKAGNIIVRQRGTKFHPGENVGMGRDHTLFALVDGRVKFTKEKRNRKYVSV   80 (81)
T ss_dssp             --SSSSSSSS--S-STTTTSEESSSTTCEESSTSEEEEBSSSSSEEBTTEEEETTSEEEESSSCEEEEEEETTTEEEEEE
T ss_pred             CCccccccccCCCCCCCcccEEEEeCCEEEcCCCEEEEeCCCcCcCCCCEEECCCCcEEEecCEEEEEEEeCCCCEEEEe
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999889999998


Q ss_pred             E
Q 029509          136 Y  136 (192)
Q Consensus       136 ~  136 (192)
                      +
T Consensus        81 ~   81 (81)
T PF01016_consen   81 V   81 (81)
T ss_dssp             -
T ss_pred             C
Confidence            6

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 [, ]. L27 is a protein from the large (50S) subunit; it is essential for ribosome function, but its exact role is unclear. It belongs to a family of ribosomal proteins, examples of which are found in bacteria, chloroplasts of plants and red algae and the mitochondria of fungi (e.g. MRP7 from yeast mitochondria). The schematic relationship between these groups of proteins is shown below. Bacterial L27 Nxxxxxxxxx Algal L27 Nxxxxxxxxx Plant L27 tttttNxxxxxxxxxxxxx Yeast MRP7 tttNxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx 't': transit peptide. 'N': N-terminal of mature protein. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2ZJQ_T 2ZJP_T 3PIP_T 3DLL_T 3PIO_T 1Y69_U 3CF5_T 2ZJR_T 1VSA_U 3PYT_W ....

>TIGR00062 L27 ribosomal protein L27

Probab=100.00  E-value=7.2e-44  Score=267.09  Aligned_cols=82  Identities=68%  Similarity=1.040  Sum_probs=79.2

Q ss_pred             eeeccCCCcCCCCCCCCCcccceeeeCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeC-CCcEEE
Q 029509           55 SAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFG-PDRKQI  133 (192)
Q Consensus        55 ~A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~-~~r~~V  133 (192)
                      |||||++|||+|||||+|||||||+|+||+|.||+||||||||+||||+||||||||||||+++|+|+|+++. +++++|
T Consensus         1 ~A~Kk~~GSt~NgrdS~~krLGvK~~~gq~V~~G~IivRQRGtk~hPG~nVg~GrD~TlfAl~~G~V~f~~~~~~~r~~v   80 (83)
T TIGR00062         1 MATKKGVGSTKNGRDSEAKRLGVKRAGGQFVRAGSIIVRQRGTKFHPGNNVGMGKDHTLFALSDGVVKFEKKGKRSRKFV   80 (83)
T ss_pred             CCcccccCcCCCCCCCCCccceeEecCCEEEcCCcEEEEcCCceECCCCcccccCCCeEEEecceEEEEEEcCCCCCEEE
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999875 589999


Q ss_pred             EEE
Q 029509          134 SVY  136 (192)
Q Consensus       134 sV~  136 (192)
                      +|+
T Consensus        81 ~v~   83 (83)
T TIGR00062        81 SVV   83 (83)
T ss_pred             EEC
Confidence            884

Eubacterial, chloroplast, and mitochondrial. Mitochondrial members have an additional C-terminal domain.

>PRK09521 exosome complex RNA-binding protein Csl4; Provisional

Probab=95.48  E-value=0.039  Score=45.51  Aligned_cols=59  Identities=19%  Similarity=0.329  Sum_probs=46.4

Q ss_pred             CCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEEEEeCCCCCCCC
Q 029509           81 GDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPREVQPENP  145 (192)
Q Consensus        81 ~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV~p~~~~~~~P  145 (192)
                      +++.|.||+.|.-.  -.|.||.|+.. +|.+|||.+-|.+.++.   +++.|+|.|.......|
T Consensus         4 ~~~~V~PGe~l~~~--~e~~~G~Gty~-~~~~i~as~~G~~~id~---~~~~Isv~P~~~~~~~~   62 (189)
T PRK09521          4 QGDLVLPGDYLAVI--EEYLPGEGTYE-DNGEVYASVVGKVFIDD---INRKISVIPFKKTPPLL   62 (189)
T ss_pred             cCCEECCCCccccc--cceEcCCCEEe-eCCEEEEEeeEEEEEcC---CCCEEEEecCcCCCCCC
Confidence            67899999999765  36899999987 68889999999999853   45678888866534433

>PF14382 ECR1_N: Exosome complex exonuclease RRP4 N-terminal region; PDB: 2NN6_I 3M7N_C 2BA1_A 3M85_C

Probab=94.85  E-value=0.056  Score=35.50  Aligned_cols=38  Identities=24%  Similarity=0.557  Sum_probs=31.9

Q ss_pred             EeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEE
Q 029509           84 VAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFE  124 (192)
Q Consensus        84 ~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~  124 (192)
                      .|.||+.|-..  ..|.||.|+.+ +|..|||.+-|.|+..
T Consensus         1 iV~PG~~l~~~--~e~~~G~GTY~-~~g~I~asv~G~v~~~   38 (39)
T PF14382_consen    1 IVVPGDRLGSS--EEYMPGHGTYV-RDGNIYASVAGTVKID   38 (39)
T ss_dssp             EE-TT-EEEET--TTSEESTTEEE-ETTEEEESSSEEEEEE
T ss_pred             CCCCCCEeecC--CCEecCCCEEE-eCCEEEEEeeEEEEEc
Confidence            47899999986  47899999999 8999999999999864

>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]

Probab=92.44  E-value=0.44  Score=41.15  Aligned_cols=62  Identities=23%  Similarity=0.361  Sum_probs=51.0

Q ss_pred             eCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEEEEeCCCCCCCCch
Q 029509           80 FGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPREVQPENPNS  147 (192)
Q Consensus        80 ~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV~p~~~~~~~P~s  147 (192)
                      ..|..|.||+.|..+  =.|.||+|+--= |+-|+|...|.+..+.   +...++|.|....|.-|.-
T Consensus         3 ~~g~~v~PGd~~a~~--EE~~~G~gt~~~-~g~i~Aa~~G~~~~d~---~n~~~~V~p~~~~~~~~K~   64 (188)
T COG1096           3 KDGTFVLPGDVLAVI--EEFLPGEGTYEE-GGEIRAAATGVVRRDD---KNRVISVKPGKKTPPLPKG   64 (188)
T ss_pred             ccCcEEcCcceeeee--eeeecCCCeEeE-CCEEEEeecccEEEcc---cceEEEeccCCCCCCCCCC
Confidence            468899999999976  479999999876 9999999999999986   4578889998765555543

>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional

Probab=91.38  E-value=0.6  Score=40.19  Aligned_cols=53  Identities=23%  Similarity=0.481  Sum_probs=42.3

Q ss_pred             eeCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEEEEeCCC
Q 029509           79 IFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPREV  140 (192)
Q Consensus        79 ~~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV~p~~~  140 (192)
                      +..+..|.||+.|.-   -.|.||.|+.. +|..|+|.+-|.+.+..     +.++|.|...
T Consensus         5 ~~~~~~V~PGd~l~~---~~~~~G~Gty~-~~g~i~As~~G~~~~~~-----~~i~V~p~~~   57 (235)
T PRK04163          5 VEDRKIVVPGDLLAE---GEFKAGRGTYK-ENGKIYSTVVGLVDIKD-----DKVRVIPLEG   57 (235)
T ss_pred             eeCCcEECCCCCcCc---CCeecCCceEE-eCCEEEEEEeEEEEEEC-----CEEEEEECCC
Confidence            456789999999953   36899999987 78999999999999863     2677777553

>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function

Probab=83.87  E-value=2.5  Score=39.09  Aligned_cols=37  Identities=35%  Similarity=0.554  Sum_probs=29.6

Q ss_pred             CeEecCCCeeec-cc-ccEEeeeceEEEEEEeCCCcEEEEEEeC
Q 029509           97 TKFHPGKNVGLG-KD-HTIFSLIDGLVKFEKFGPDRKQISVYPR  138 (192)
Q Consensus        97 tkfhPG~NVg~G-rD-~TLfAlv~G~V~F~k~~~~r~~VsV~p~  138 (192)
                      ..|.+|+||-+- .| .+|||.++|++.|+..     .++|.|.
T Consensus       143 ~~~~~g~~~~~~~~d~~~~~A~~~G~~~~~~~-----~i~V~~~  181 (451)
T PF03961_consen  143 IPLKAGKNTEVSEEDGNKLYAAIDGRPVFENG-----KISVDPV  181 (451)
T ss_pred             cceeCCCCEEEEcCCCCEEEEecCCEEEEECC-----EEEEEEe
Confidence            678899999999 77 5799999999999842     2566553

The proteins are in the region of 500-600 amino acid residues in length.

>PF01551 Peptidase_M23: Peptidase family M23; InterPro: IPR016047 Members of this family are zinc metallopeptidases with a range of specificities

Probab=80.25  E-value=3.6  Score=29.54  Aligned_cols=39  Identities=18%  Similarity=0.293  Sum_probs=27.2

Q ss_pred             eEecCCCeeecccccEEeeeceEEEEEEeC-CCcEEEEEE
Q 029509           98 KFHPGKNVGLGKDHTIFSLIDGLVKFEKFG-PDRKQISVY  136 (192)
Q Consensus        98 kfhPG~NVg~GrD~TLfAlv~G~V~F~k~~-~~r~~VsV~  136 (192)
                      +||.|-.+.......++|+.+|+|.|.... ....+|.+.
T Consensus         1 r~h~Gid~~~~~g~~V~A~~~G~V~~~~~~~~~g~~V~i~   40 (96)
T PF01551_consen    1 RFHNGIDFAAPEGTPVYAPADGKVVFVGEDPGYGNYVIIQ   40 (96)
T ss_dssp             -EE-SEEEEETTT-EEEESSSEEEEEEEEETTTEEEEEEE
T ss_pred             CCeeeEEeCCCCCCEEEeCccEEEEEEEeccCCccEEEEE
Confidence            588888888887888999999999997653 234455544

The peptidase family M23 is included in this family, these are Gly-Gly endopeptidases. Peptidase family M23 are also endopeptidases. This family also includes some bacterial lipoproteins such as Swiss:P33648 for which no proteolytic activity has been demonstrated. This family also includes leukocyte cell-derived chemotaxin 2 (LECT2) proteins. LECT2 is a liver-specific protein which is thought to be linked to hepatocyte growth although the exact function of this protein is unknown.; PDB: 3IT5_A 3IT7_B 2GU1_A 3NYY_A 2HSI_B 3SLU_B 3UZ0_D 3TUF_B 1QWY_A 2B44_B ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	192
3bbo_X	198	Homology Model For The Spinach Chloroplast 50s Subu		2e-59
1p85_U	84	Real Space Refined Coordinates Of The 50s Subunit F		4e-22
1vs6_W	85	Crystal Structure Of The Bacterial Ribosome From Es		4e-22
1vsa_U	85	Crystal Structure Of A 70s Ribosome-Trna Complex Re		5e-22
3mrz_W	84	Recognition Of The Amber Stop Codon By Release Fact		6e-22
1v8q_A	85	Crystal Structure Of Ribosomal Protein L27 From The		1e-21
2v47_0	85	Structure Of The Ribosome Recycling Factor Bound To		1e-20
3fik_W	79	Ternary Complex-Bound E.Coli 70s Ribosome. This Ent		8e-20
1nkw_U	91	Crystal Structure Of The Large Ribosomal Subunit Fr		2e-19
1pnu_U	86	Crystal Structure Of A Streptomycin Dependent Ribos		3e-19
3r8s_W	76	Structures Of The Bacterial Ribosome In Classical A		8e-19
3tvh_3	77	Crystal Structure Analysis Of Ribosomal Decoding. T		3e-18
3r8t_W	75	Structures Of The Bacterial Ribosome In Classical A		4e-18
3pyo_W	76	Crystal Structure Of A Complex Containing Domain 3		5e-18
3tve_3	76	Crystal Structure Analysis Of Ribosomal Decoding. T		9e-18
2ftc_O	69	Structural Model For The Large Subunit Of The Mamma		1e-07

>pdb|3BBO|X Chain X, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 198

Iteration: 1
 Score =  224 bits (572), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 112/143 (78%), Positives = 118/143 (82%), Gaps = 3/143 (2%)
Query: 53  IESAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHT 112
           IESAHKKGAGSTKNGRDS GQRLGVKI+GDQVAKPGAIIVRQRGTKFH GKNVG+GKDHT
Sbjct: 56  IESAHKKGAGSTKNGRDSPGQRLGVKIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKDHT 115
Query: 113 IFSLIDGLVKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAY-- 170
           IFSLIDGLVKFEKFGPDRK+ISVYPRE+ PENPNSYRARKRE FRLQREKKKAR+E Y  
Sbjct: 116 IFSLIDGLVKFEKFGPDRKKISVYPREIVPENPNSYRARKRENFRLQREKKKARRENYSY 175
Query: 171 -LAQPQXXXXXXXXXXXXXXPNC 192
            L  P+              P C
Sbjct: 176 TLPTPELVLASASVDDAEANPEC 198

>pdb|1P85|U Chain U, 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 = 84

Iteration: 1
 Score =  100 bits (250), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 52/81 (64%), Positives = 61/81 (75%), Gaps = 1/81 (1%)
Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKK  GST+NGRDS  +RLGVK FG +    G+IIVRQRGTKFH G NVG G+DHT+F+
Sbjct: 1   AHKKAGGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFA 60
Query: 116 LIDGLVKFEKFGP-DRKQISV 135
             DG VKFE  GP +RK IS+
Sbjct: 61  KADGKVKFEVKGPKNRKFISI 81

>pdb|1VS6|W Chain W, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With The Antibiotic Kasugamyin At 3.5a Resolution. This File Contains The 50s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 85

Iteration: 1
 Score =  100 bits (250), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 52/81 (64%), Positives = 61/81 (75%), Gaps = 1/81 (1%)
Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKK  GST+NGRDS  +RLGVK FG +    G+IIVRQRGTKFH G NVG G+DHT+F+
Sbjct: 2   AHKKAGGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFA 61
Query: 116 LIDGLVKFEKFGP-DRKQISV 135
             DG VKFE  GP +RK IS+
Sbjct: 62  KADGKVKFEVKGPKNRKFISI 82

>pdb|1VSA|U Chain U, 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 = 85

Iteration: 1
 Score =  100 bits (249), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 48/82 (58%), Positives = 64/82 (78%)
Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GSTKNGRDS+ +RLGVK +  QV + G I+VRQRGT+F PGKNVG+G+D T+F+
Sbjct: 2   AHKKGLGSTKNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFA 61
Query: 116 LIDGLVKFEKFGPDRKQISVYP 137
           L+DG+V+F+  G   + + V P
Sbjct: 62  LVDGVVEFQDRGRLGRYVHVRP 83

>pdb|3MRZ|W Chain W, 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 = 84

Iteration: 1
 Score =  100 bits (249), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 48/82 (58%), Positives = 64/82 (78%)
Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GSTKNGRDS+ +RLGVK +  QV + G I+VRQRGT+F PGKNVG+G+D T+F+
Sbjct: 1   AHKKGLGSTKNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFA 60
Query: 116 LIDGLVKFEKFGPDRKQISVYP 137
           L+DG+V+F+  G   + + V P
Sbjct: 61  LVDGVVEFQDRGRLGRYVHVRP 82

>pdb|1V8Q|A Chain A, Crystal Structure Of Ribosomal Protein L27 From Thermus Thermophilus Hb8 Length = 85

Iteration: 1
 Score = 99.4 bits (246), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 47/82 (57%), Positives = 64/82 (78%)
Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GST+NGRDS+ +RLGVK +  QV + G I+VRQRGT+F PGKNVG+G+D T+F+
Sbjct: 2   AHKKGLGSTRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFA 61
Query: 116 LIDGLVKFEKFGPDRKQISVYP 137
           L+DG+V+F+  G   + + V P
Sbjct: 62  LVDGVVEFQDRGRLGRYVHVRP 83

>pdb|2V47|0 Chain 0, Structure Of The Ribosome Recycling Factor Bound To The Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And Trna-Fmet (Part 2 Of 4). This File Contains The 50s Subunit For Molecule 1. Length = 85

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 45/82 (54%), Positives = 62/82 (75%)
Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKK   ST+NGRDS+ +RLGVK +  QV + G I+VRQRGT+F PGKNVG+G+D T+F+
Sbjct: 2   AHKKALASTRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFA 61
Query: 116 LIDGLVKFEKFGPDRKQISVYP 137
           L+DG+V+F+  G   + + V P
Sbjct: 62  LVDGVVEFQDRGRLGRYVHVRP 83

>pdb|3FIK|W Chain W, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry Consists Of The 50s Subunit. Length = 79

Iteration: 1
 Score = 93.2 bits (230), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 48/76 (63%), Positives = 57/76 (75%), Gaps = 1/76 (1%)
Query: 61  AGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGL 120
            GST+NGRDS  +RLGVK FG +    G+IIVRQRGTKFH G NVG G+DHT+F+  DG 
Sbjct: 1   GGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGK 60
Query: 121 VKFEKFGP-DRKQISV 135
           VKFE  GP +RK IS+
Sbjct: 61  VKFEVKGPKNRKFISI 76

>pdb|1NKW|U Chain U, Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans Length = 91

Iteration: 1
 Score = 91.7 bits (226), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 47/86 (54%), Positives = 60/86 (69%)
Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GS+KNGRDS  + LGVK FG +V K G I+VRQRGTKF  G+ VG+G+DHT+F+
Sbjct: 2   AHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLFA 61
Query: 116 LIDGLVKFEKFGPDRKQISVYPREVQ 141
           L DG V F   G   + IS+   + +
Sbjct: 62  LSDGKVVFINKGKGARFISIEAAQTE 87

>pdb|1PNU|U Chain U, 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 = 86

Iteration: 1
 Score = 91.3 bits (225), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 47/86 (54%), Positives = 60/86 (69%)
Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GS+KNGRDS  + LGVK FG +V K G I+VRQRGTKF  G+ VG+G+DHT+F+
Sbjct: 1   AHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLFA 60
Query: 116 LIDGLVKFEKFGPDRKQISVYPREVQ 141
           L DG V F   G   + IS+   + +
Sbjct: 61  LSDGKVVFINKGKGARFISIEAAQTE 86

>pdb|3R8S|W Chain W, Structures Of The Bacterial Ribosome In Classical And Hybrid States Of Trna Binding Length = 76

Iteration: 1
 Score = 89.7 bits (221), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 46/73 (63%), Positives = 55/73 (75%), Gaps = 1/73 (1%)
Query: 64  TKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKF 123
           T+NGRDS  +RLGVK FG +    G+IIVRQRGTKFH G NVG G+DHT+F+  DG VKF
Sbjct: 1   TRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGKVKF 60
Query: 124 EKFGP-DRKQISV 135
           E  GP +RK IS+
Sbjct: 61  EVKGPKNRKFISI 73

>pdb|3TVH|3 Chain 3, Crystal Structure Analysis Of Ribosomal Decoding. This Entry Contains The 50s Ribosomal Subunit Of The Second 70s Molecule In The Asymmetric Unit For The Cognate Trna-Leu Complex Length = 77

Iteration: 1
 Score = 88.2 bits (217), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 41/75 (54%), Positives = 58/75 (77%)
Query: 63  STKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVK 122
           ST+NGRDS+ +RLGVK +  QV + G I+VRQRGT+F PGKNVG+G+D T+F+L+DG+V+
Sbjct: 1   STRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVE 60
Query: 123 FEKFGPDRKQISVYP 137
           F+  G   + + V P
Sbjct: 61  FQDRGRLGRYVHVRP 75

>pdb|3R8T|W Chain W, Structures Of The Bacterial Ribosome In Classical And Hybrid States Of Trna Binding Length = 75

Iteration: 1
 Score = 87.4 bits (215), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 45/72 (62%), Positives = 54/72 (75%), Gaps = 1/72 (1%)
Query: 65  KNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFE 124
           +NGRDS  +RLGVK FG +    G+IIVRQRGTKFH G NVG G+DHT+F+  DG VKFE
Sbjct: 1   RNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGKVKFE 60
Query: 125 KFGP-DRKQISV 135
             GP +RK IS+
Sbjct: 61  VKGPKNRKFISI 72

>pdb|3PYO|W Chain W, 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 = 76

Iteration: 1
 Score = 87.0 bits (214), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 41/74 (55%), Positives = 57/74 (77%)
Query: 64  TKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKF 123
           TKNGRDS+ +RLGVK +  QV + G I+VRQRGT+F PGKNVG+G+D T+F+L+DG+V+F
Sbjct: 1   TKNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEF 60
Query: 124 EKFGPDRKQISVYP 137
           +  G   + + V P
Sbjct: 61  QDRGRLGRYVHVRP 74

>pdb|3TVE|3 Chain 3, 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 = 76

Iteration: 1
 Score = 86.3 bits (212), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 40/74 (54%), Positives = 57/74 (77%)
Query: 64  TKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKF 123
           T+NGRDS+ +RLGVK +  QV + G I+VRQRGT+F PGKNVG+G+D T+F+L+DG+V+F
Sbjct: 1   TRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEF 60
Query: 124 EKFGPDRKQISVYP 137
           +  G   + + V P
Sbjct: 61  QDRGRLGRYVHVRP 74

>pdb|2FTC|O Chain O, Structural Model For The Large Subunit Of The Mammalian Mitochondrial Ribosome Length = 69

Iteration: 1
 Score = 52.4 bits (124), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/69 (40%), Positives = 43/69 (62%), Gaps = 1/69 (1%)
Query: 56  AHKKGAGSTKN-GRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIF 114
           A KK  GS+KN G  S G+R G+K         G II  QR  ++HPG +VG+GK+  ++
Sbjct: 1   ASKKSGGSSKNLGGKSSGRRQGIKKMEGHYVHAGNIIATQRHFRWHPGAHVGVGKNKCLY 60
Query: 115 SLIDGLVKF 123
           +L +G+V++
Sbjct: 61  ALEEGIVRY 69

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	192
3bbo_X	198	Ribosomal protein L27; large ribosomal subunit, sp	6e-82
2zjr_T	91	50S ribosomal protein L27; ribosome, large ribosom	1e-52
3v2d_0	85	50S ribosomal protein L27; ribosome associated inh	6e-52
3r8s_W	76	50S ribosomal protein L27; protein biosynthesis, R	3e-43
2ftc_O	69	L27MT, MRP-L27, mitochondrial 39S ribosomal protei	2e-41

>3bbo_X Ribosomal protein L27; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 Length = 198

 Score =  240 bits (614), Expect = 6e-82
 Identities = 154/200 (77%), Positives = 169/200 (84%), Gaps = 10/200 (5%)

Query: 1   MATA-SMSASLIGSFKGLSLSSSSSSSFLKGDFTVCPK-SVTVSLP---PTSPLPLTIES 55
           MA A SMS +LIG+FKGLSLSS+SS  FL+GD +  PK S TV+LP     +P+PLTIES
Sbjct: 1   MAMATSMSLNLIGAFKGLSLSSTSS--FLRGDLSFSPKTSFTVTLPLENLQAPIPLTIES 58

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKGAGSTKNGRDS GQRLGVKI+GDQVAKPGAIIVRQRGTKFH GKNVG+GKDHTIFS
Sbjct: 59  AHKKGAGSTKNGRDSPGQRLGVKIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKDHTIFS 118

Query: 116 LIDGLVKFEKFGPDRKQISVYPREVQPENPNSYRARKREYFRLQREKKKARKEAY---LA 172
           LIDGLVKFEKFGPDRK+ISVYPRE+ PENPNSYRARKRE FRLQREKKKAR+E Y   L 
Sbjct: 119 LIDGLVKFEKFGPDRKKISVYPREIVPENPNSYRARKRENFRLQREKKKARRENYSYTLP 178

Query: 173 QPQLVLASALDDAADGLPNC 192
            P+LVLASA  D A+  P C
Sbjct: 179 TPELVLASASVDDAEANPEC 198

>2zjr_T 50S ribosomal protein L27; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.84.4.1 PDB: 1nwx_U* 1nwy_U* 1sm1_U* 1xbp_U* 1y69_U 1yl3_3 2b66_0 2b9n_0 2b9p_0 2zjp_T* 2zjq_T 1nkw_U 3cf5_T* 3dll_T* 3pio_T* 3pip_T* 1pnu_U 1pny_U 1vor_X 1vou_X ... Length = 91

 Score =  162 bits (412), Expect = 1e-52
 Identities = 47/88 (53%), Positives = 60/88 (68%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GS+KNGRDS  + LGVK FG +V K G I+VRQRGTKF  G+ VG+G+DHT+F+
Sbjct: 2   AHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLFA 61

Query: 116 LIDGLVKFEKFGPDRKQISVYPREVQPE 143
           L DG V F   G   + IS+   + +  
Sbjct: 62  LSDGKVVFINKGKGARFISIEAAQTEVA 89

>3v2d_0 50S ribosomal protein L27; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgj_Z 2hgq_Z 2hgu_Z 2j01_0 2j03_0 2jl6_0 2jl8_0 2wdi_0 2wdj_0 2wdl_0 2wdn_0 2wh2_0 2wh4_0 2wrj_0 2wrl_0 2wro_0 2wrr_0 2x9s_0 2x9u_0 2xg0_0 ... Length = 85

 Score =  160 bits (407), Expect = 6e-52
 Identities = 47/82 (57%), Positives = 64/82 (78%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GST+NGRDS+ +RLGVK +  QV + G I+VRQRGT+F PGKNVG+G+D T+F+
Sbjct: 2   AHKKGLGSTRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFA 61

Query: 116 LIDGLVKFEKFGPDRKQISVYP 137
           L+DG+V+F+  G   + + V P
Sbjct: 62  LVDGVVEFQDRGRLGRYVHVRP 83

>3r8s_W 50S ribosomal protein L27; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 2qam_W* 1p85_U 1p86_U 2awb_W 2gya_U 2gyc_U 2aw4_W 2i2v_W 2j28_W 2i2t_W* 2qao_W* 2qba_W* 2qbc_W* 2qbe_W 2qbg_W 2qbi_W* 2qbk_W* 2qov_W 2qox_W 2qoz_W* ... Length = 76

 Score =  138 bits (349), Expect = 3e-43
 Identities = 46/75 (61%), Positives = 55/75 (73%), Gaps = 1/75 (1%)

Query: 64  TKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKF 123
           T+NGRDS  +RLGVK FG +    G+IIVRQRGTKFH G NVG G+DHT+F+  DG VKF
Sbjct: 1   TRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGKVKF 60

Query: 124 EKFGP-DRKQISVYP 137
           E  GP +RK IS+  
Sbjct: 61  EVKGPKNRKFISIEA 75

>2ftc_O L27MT, MRP-L27, mitochondrial 39S ribosomal protein L27; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_O Length = 69

 Score =  133 bits (336), Expect = 2e-41
 Identities = 28/69 (40%), Positives = 43/69 (62%), Gaps = 1/69 (1%)

Query: 56  AHKKGAGSTKN-GRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIF 114
           A KK  GS+KN G  S G+R G+K         G II  QR  ++HPG +VG+GK+  ++
Sbjct: 1   ASKKSGGSSKNLGGKSSGRRQGIKKMEGHYVHAGNIIATQRHFRWHPGAHVGVGKNKCLY 60

Query: 115 SLIDGLVKF 123
           +L +G+V++
Sbjct: 61  ALEEGIVRY 69

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	192
3bbo_X	198	Ribosomal protein L27; large ribosomal subunit, sp	100.0
2zjr_T	91	50S ribosomal protein L27; ribosome, large ribosom	100.0
3v2d_0	85	50S ribosomal protein L27; ribosome associated inh	100.0
2ftc_O	69	L27MT, MRP-L27, mitochondrial 39S ribosomal protei	100.0
3r8s_W	76	50S ribosomal protein L27; protein biosynthesis, R	100.0
2xha_A	193	NUSG, transcription antitermination protein NUSG;	94.34
2xhc_A	352	Transcription antitermination protein NUSG; 2.45A	93.7
3m7n_A	179	Putative uncharacterized protein AF_0206; exosome,	92.51
2nn6_I	209	3'-5' exoribonuclease CSL4 homolog; RNA, exosome,	90.43
2je6_I	251	RRP4, exosome complex RNA-binding protein 1; nucle	90.32
2ba0_A	229	Archeal exosome RNA binding protein RRP4; RNAse PH	83.06

>3bbo_X Ribosomal protein L27; 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-78  Score=508.58  Aligned_cols=190  Identities=81%  Similarity=1.218  Sum_probs=85.0

Q ss_pred             Cccc-cccceecceeceeeeccCCccceeecCccccC-CceeeecCCC---CCCceeEEeeeccCCCcCCCCCCCCCccc
Q 029509            1 MATA-SMSASLIGSFKGLSLSSSSSSSFLKGDFTVCP-KSVTVSLPPT---SPLPLTIESAHKKGAGSTKNGRDSRGQRL   75 (192)
Q Consensus         1 ~~~~-~~~~~~~~~f~glslss~~sssf~~g~~~~~~-~~~~v~~~~~---~~~~l~ir~A~KKggGSTkNGRdS~~KrL   75 (192)
                      |||| +|+|||+|+|+||||||  |||||+||.++.. ...++++|..   +++.++|||||||++|||+|||||++|||
T Consensus         1 ~~~~~~~~~~l~~~f~g~s~ss--sssf~~~~~~~~~~~~~~~~~p~~~~~~~~~l~VRmAhKKggGSTkNGRDS~~KRL   78 (198)
T 3bbo_X            1 MAMATSMSLNLIGAFKGLSLSS--TSSFLRGDLSFSPKTSFTVTLPLENLQAPIPLTIESAHKKGAGSTKNGRDSPGQRL   78 (198)
T ss_dssp             ------------------------------------------------------------CCCCSSCCCCCCCCCCCCCC
T ss_pred             ChHHHHHHHHHHHHhccccccc--ccceecccccccccccccccccccccccchhhheeeeeccCCCCCCCCCCCCCcee
Confidence            4444 49999999999999999  6889999997766 6677888854   67889999999999999999999999999


Q ss_pred             ceeeeCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEEEEeCCCCCCCCchhhhhhhhh
Q 029509           76 GVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPREVQPENPNSYRARKREY  155 (192)
Q Consensus        76 GvK~~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV~p~~~~~~~P~s~r~r~r~~  155 (192)
                      |||+|+||+|+||+|||||||||||||+||||||||||||+++|+|+|+++++++++|+|+|++.+++||+++|.|+|++
T Consensus        79 GVK~~gGq~V~aGnIIVRQRGTkfhPG~NVG~GkDhTLFAl~~G~VkF~~~~~~Rk~VsV~p~~~~~~~p~~~r~~~re~  158 (198)
T 3bbo_X           79 GVKIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKDHTIFSLIDGLVKFEKFGPDRKKISVYPREIVPENPNSYRARKREN  158 (198)
T ss_dssp             SCSSSBCCSSCSCCSSSSCCCCSSCCCCSSSSCCCCCSBCCSCCCCCSSSSCCCCSCCCSSCCCCC--------------
T ss_pred             eEEecCCeEeccCcEEEeccCceEcCCCCeeecCCCceEeccceEEEEEEcCCCcEEEEEEeCCccccCchhhhhhHHHH
Confidence            99999999999999999999999999999999999999999999999998789999999999999999999999999999


Q ss_pred             hhhHHHHHHHhhhcc---ccccceeehhccccccccCCCC
Q 029509          156 FRLQREKKKARKEAY---LAQPQLVLASALDDAADGLPNC  192 (192)
Q Consensus       156 ~~~~re~~~a~~~~~---~~~~~~~~a~~~~~~~~~~~~~  192 (192)
                      ||++||++||+|||+   +++|||||||+.+|..+.|++|
T Consensus       159 ~r~r~e~~ka~~e~~~~~~~~~~l~~a~~~~~~~~~~~~c  198 (198)
T 3bbo_X          159 FRLQREKKKARRENYSYTLPTPELVLASASVDDAEANPEC  198 (198)
T ss_dssp             ----------------------------------------
T ss_pred             HHHHHHHHHHHHhCcccccCCcceeeeeccccccccCCCC
Confidence            999999999999997   9999999999988999999999

>2zjr_T 50S ribosomal protein L27; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.84.4.1 PDB: 1nwx_U* 1nwy_U* 1sm1_U* 1xbp_U* 1y69_U 1yl3_3 2b66_0 2b9n_0 2b9p_0 2zjp_T* 2zjq_T 1nkw_U 3cf5_T* 3dll_T* 3pio_T* 3pip_T* 1pnu_U 1pny_U 1vor_X 1vou_X ...

Probab=100.00  E-value=2e-47  Score=289.22  Aligned_cols=86  Identities=55%  Similarity=0.866  Sum_probs=82.3

Q ss_pred             eeeccCCCcCCCCCCCCCcccceeeeCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEE
Q 029509           55 SAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQIS  134 (192)
Q Consensus        55 ~A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~Vs  134 (192)
                      |||||++|||+|||||++||||||+|+||+|.||+||||||||+||||+||||||||||||+++|+|+|+++.+++++|+
T Consensus         1 mAhKK~~GSt~NGRdS~~krLGvK~~gGq~V~aG~IivRQRGtk~hPG~NVg~GkD~TLfAl~~G~V~f~~~~~~r~~V~   80 (91)
T 2zjr_T            1 MAHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLFALSDGKVVFINKGKGARFIS   80 (91)
T ss_dssp             -CCSSCSSCSSCCCCCCCCCCCCSSCTTCEECSSCEEECCSSSSSEECTTEECCTTSCEEESSCEEEEEEEETTTEEEEE
T ss_pred             CCcccCCCCCCCCCCCCCceeeEEecCCeEEcCCeEEEecCCCEEcCCCCEEEcCCCcEEeccceEEEEEEcCCCcEEEE
Confidence            89999999999999999999999999999999999999999999999999999999999999999999998889999999


Q ss_pred             EEeCCC
Q 029509          135 VYPREV  140 (192)
Q Consensus       135 V~p~~~  140 (192)
                      |+|++.
T Consensus        81 V~p~~~   86 (91)
T 2zjr_T           81 IEAAQT   86 (91)
T ss_dssp             ECCCC-
T ss_pred             EEeChh
Confidence            999653

>3v2d_0 50S ribosomal protein L27; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgj_Z 2hgq_Z 2hgu_Z 2j01_0 2j03_0 2jl6_0 2jl8_0 2wdi_0 2wdj_0 2wdl_0 2wdn_0 2wh2_0 2wh4_0 2wrj_0 2wrl_0 2wro_0 2wrr_0 2x9s_0 2x9u_0 2xg0_0 ...

Probab=100.00  E-value=3.2e-47  Score=285.12  Aligned_cols=84  Identities=56%  Similarity=0.964  Sum_probs=74.6

Q ss_pred             eeeccCCCcCCCCCCCCCcccceeeeCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEE
Q 029509           55 SAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQIS  134 (192)
Q Consensus        55 ~A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~Vs  134 (192)
                      |||||++|||+|||||++||||||+|+||+|.||+||||||||+||||+||||||||||||++||+|+|++...++++|+
T Consensus         1 MAhKK~gGStkNGrdS~~krLGvK~~~Gq~V~aG~IivRQRGtk~hPG~NVg~GkD~TLfAl~~G~V~f~~~~~~r~~Vs   80 (85)
T 3v2d_0            1 MAHKKGLGSTRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDRGRLGRYVH   80 (85)
T ss_dssp             --------CCSCCCCCCCCCCEESSCTTCEECTTCEEEECSSCSEEECTTEEECTTCCEEESSSEEEEEEECGGGCEEEE
T ss_pred             CCcccCCCCCCCCCCCCCccceeEecCCeEEcCCeEEEecCCccCcCCCCEeEcCCCeEEEecCEEEEEEEcCCCCEEEE
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999878999999


Q ss_pred             EEeC
Q 029509          135 VYPR  138 (192)
Q Consensus       135 V~p~  138 (192)
                      |+|.
T Consensus        81 V~p~   84 (85)
T 3v2d_0           81 VRPL   84 (85)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            9985

>2ftc_O L27MT, MRP-L27, mitochondrial 39S ribosomal protein L27; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_O

Probab=100.00  E-value=7.9e-42  Score=247.70  Aligned_cols=68  Identities=41%  Similarity=0.793  Sum_probs=67.4

Q ss_pred             eeccCCCcCCC-CCCCCCcccceeeeCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEE
Q 029509           56 AHKKGAGSTKN-GRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKF  123 (192)
Q Consensus        56 A~KKggGSTkN-GRdS~~KrLGvK~~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F  123 (192)
                      ||||++|||+| ||||++||||||+|+||+|.||+||||||||+||||+||||||||||||+++|+|+|
T Consensus         1 A~KK~~GSt~N~grdS~~krlGvK~~~Gq~V~aG~IivrQRgtk~hPG~nVg~GkD~TLfAl~~G~V~f   69 (69)
T 2ftc_O            1 ASKKSGGSSKNLGGKSSGRRQGIKKMEGHYVHAGNIIATQRHFRWHPGAHVGVGKNKCLYALEEGIVRY   69 (69)
T ss_pred             CcccccCcccCCCCCCCCceeeEEecCCeEecCCeEEEecCCCeEcCCCCeeecCCCcEEEccceEEeC
Confidence            89999999999 999999999999999999999999999999999999999999999999999999997

>3r8s_W 50S ribosomal protein L27; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3j19_W 2qam_W* 1p85_U 1p86_U 2awb_W 2gya_U 2gyc_U 2aw4_W 2i2v_W 2j28_W 2i2t_W* 2qao_W* 2qba_W* 2qbc_W* 2qbe_W 2qbg_W 2qbi_W* 2qbk_W* 2qov_W 2qox_W ...

Probab=100.00  E-value=1.9e-41  Score=249.56  Aligned_cols=75  Identities=59%  Similarity=0.896  Sum_probs=72.0

Q ss_pred             CCCCCCCCCcccceeeeCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEe-CCCcEEEEEEeC
Q 029509           64 TKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKF-GPDRKQISVYPR  138 (192)
Q Consensus        64 TkNGRdS~~KrLGvK~~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~-~~~r~~VsV~p~  138 (192)
                      |+|||||++||||||+|+||+|.||+||||||||+||||+||||||||||||++||+|+|++. .+++++|+|+|+
T Consensus         1 t~NGRDS~~krLGvK~~~Gq~V~aG~IivRQRGtk~hPG~NVG~GkD~TLfAl~~G~V~f~~~~~~~r~~VsV~p~   76 (76)
T 3r8s_W            1 TRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGKVKFEVKGPKNRKFISIEAE   76 (76)
T ss_dssp             CCCCCCCCCCCCEESSCTTCEECTTCEEEECSSCSSEECTTEEECTTSCEEESSSEEEEEEEETTTTEEEEEEECC
T ss_pred             CCCCCCCCcccceEEecCCeEEecCcEEEeccCccCcCCCCeeecCCCeEEEccCEEEEEEEeCCCCCEEEEEEeC
Confidence            799999999999999999999999999999999999999999999999999999999999865 568999999984

>2xha_A NUSG, transcription antitermination protein NUSG; 1.91A {Thermotoga maritima}

Probab=94.34  E-value=0.023  Score=47.57  Aligned_cols=41  Identities=17%  Similarity=0.159  Sum_probs=32.8

Q ss_pred             eCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEEEEeCC
Q 029509           80 FGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPRE  139 (192)
Q Consensus        80 ~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV~p~~  139 (192)
                      -+|+.|.+|.||.                ||+.+.|-+||+|.|.+   +++.|-|.|..
T Consensus        86 ~dG~~V~~GdvLA----------------Kd~AIiaEIdG~V~fgk---gkrrivI~~~~  126 (193)
T 2xha_A           86 RVGTKVKQGLPLS----------------KNEEYICELDGKIVEIE---RMKKVVVQTPD  126 (193)
T ss_dssp             CTTCEECTTSBSS----------------TTSCSBCCSSEEEEEEE---EEEEEEEECTT
T ss_pred             CCCCEEcCCCEEe----------------cCCeEEEccceEEEECC---CeEEEEEECCC
Confidence            4567777777776                99999999999999987   66777777754

>2xhc_A Transcription antitermination protein NUSG; 2.45A {Thermotoga maritima}

Probab=93.70  E-value=0.047  Score=48.73  Aligned_cols=41  Identities=17%  Similarity=0.135  Sum_probs=31.9

Q ss_pred             eCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEEEEeCC
Q 029509           80 FGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPRE  139 (192)
Q Consensus        80 ~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV~p~~  139 (192)
                      -+|+.|.+|+||.                ||+.+.|-+||+|.|.+.   ++.|-|.|..
T Consensus       126 ~~g~~v~~G~vla----------------k~~aiiaeidG~V~fg~~---kr~i~i~~~~  166 (352)
T 2xhc_A          126 RVGTKVKQGLPLS----------------KNEEYICELDGKIVEIER---MKKVVVQTPD  166 (352)
T ss_dssp             CTTCEECTTCBSB----------------SSSSCBCCSCEEEEEEEE---EEEEEEECTT
T ss_pred             CCCCEEccCcEEe----------------cCceEEeccceEEEECCc---EEEEEEECCC
Confidence            4566666666666                999999999999999874   6666676644

>3m7n_A Putative uncharacterized protein AF_0206; exosome, RNA, exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus fulgidus} PDB: 2ba1_A 3m85_A

Probab=92.51  E-value=0.24  Score=39.61  Aligned_cols=55  Identities=18%  Similarity=0.239  Sum_probs=42.3

Q ss_pred             eEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEEEEeCCCCCCCC
Q 029509           83 QVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPREVQPENP  145 (192)
Q Consensus        83 q~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV~p~~~~~~~P  145 (192)
                      +.|.||+.|.-.  ..|.||.++..- |..|+|.+-|.|.+.     .+.|+|.|....+..|
T Consensus         2 ~iV~PGd~l~~~--~~~~~G~Gty~~-~~~i~as~~G~v~~~-----~~~v~V~~~~~~~y~p   56 (179)
T 3m7n_A            2 RFVMPGDRIGSA--EEYVKGEGVYEE-GGELFAAVAGKLIIK-----DRVAKVESISPIPEIV   56 (179)
T ss_dssp             CEECTTCEEEET--TTSEECTTEEEE-TTEEEESSSEEEEEE-----TTEEEEEESSCCCCCC
T ss_pred             eEEcCCCCCCCC--CCEeccCCEEEe-CCEEEEEEEEEEEEe-----CCEEEEEECCCCcccC
Confidence            478999999754  358999999884 889999999999983     2578898865443333

>2nn6_I 3'-5' exoribonuclease CSL4 homolog; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: b.40.4.5 b.84.4.2

Probab=90.43  E-value=0.064  Score=44.24  Aligned_cols=57  Identities=18%  Similarity=0.131  Sum_probs=39.9

Q ss_pred             eCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEEEEeCC
Q 029509           80 FGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPRE  139 (192)
Q Consensus        80 ~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV~p~~  139 (192)
                      ..++.|.||+.|...  ..|.||.|+.. .|..|||.+-|.|.++..+.....|+|.|..
T Consensus        17 ~~~~iV~PGd~l~~~--~~~~~G~Gty~-~~g~I~Asv~G~v~~~~~~~~~~vi~V~p~~   73 (209)
T 2nn6_I           17 PPVRYCIPGERLCNL--EEGSPGSGTYT-RHGYIFSSLAGCLMKSSENGALPVVSVVRET   73 (209)
T ss_dssp             ---CCCCTTCEEEET--TTCCCSSSCEE-ETTEEECCSCSCBCCCBCTTSSBC-CBCCSC
T ss_pred             CCCcEEcCCCCCCCC--CCeeecCCEEE-ECCEEEEEEEEEEEEeccCCcccEEEEecCC
Confidence            347789999999854  35899999876 4678999999999875433334556777654

>2je6_I RRP4, exosome complex RNA-binding protein 1; nuclease, hydrolase, exonuclease, phosphorolytic, exoribonuclease, RNA degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus} SCOP: b.40.4.5 b.84.4.2 d.51.1.1 PDB: 2jea_I* 2jeb_I* 3l7z_C

Probab=90.32  E-value=0.49  Score=39.99  Aligned_cols=56  Identities=20%  Similarity=0.280  Sum_probs=43.3

Q ss_pred             CCeEeecCcEeeeccCCeEecCC--CeeecccccEEeeeceEEEEEEeCCCcEEEEEEeCCCCCCCC
Q 029509           81 GDQVAKPGAIIVRQRGTKFHPGK--NVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPREVQPENP  145 (192)
Q Consensus        81 ~Gq~V~~G~IIVRQRGtkfhPG~--NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV~p~~~~~~~P  145 (192)
                      +++.|.||+.|...   .|.||.  ++.. .|..|||.+-|.|.+..     +.|+|.|....++.|
T Consensus        15 ~~~iV~PGd~l~~~---~~~~G~~~Gty~-~~g~i~as~~G~v~~~~-----~~v~V~p~~~~~y~p   72 (251)
T 2je6_I           15 PRSIVVPGELLAEG---EFQIPWSPYILK-INSKYYSTVVGLFDVKD-----TQFEVIPLEGSFYYP   72 (251)
T ss_dssp             SSCEECTTCEEEEE---CCCCCCCTTEEE-ETTEEEECSSEEEEEET-----TEEEEEESCCSCCCC
T ss_pred             CCcEEcCCCCCccC---CeeeCCCCCEEE-ECCEEEEEEEEEEEEeC-----CEEEEEECCCcccCC
Confidence            58899999999853   488999  9876 57789999999998752     368888876533333

>2ba0_A Archeal exosome RNA binding protein RRP4; RNAse PH, RNA degradation, exoribonuclease, S1domain, KH domain, archaeal; 2.70A {Archaeoglobus fulgidus} SCOP: b.40.4.5 b.84.4.2 d.51.1.1

Probab=83.06  E-value=1.2  Score=36.99  Aligned_cols=48  Identities=17%  Similarity=0.351  Sum_probs=37.7

Q ss_pred             eEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEEEEeCC
Q 029509           83 QVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPRE  139 (192)
Q Consensus        83 q~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV~p~~  139 (192)
                      +.|.||+.|..   ..|.||.++.. .|..|||.+.|.|.+..     +.|+|.|..
T Consensus         3 ~iV~PGd~l~~---~~~~~G~Gty~-~~g~i~as~~G~v~~~~-----~~v~V~p~~   50 (229)
T 2ba0_A            3 KIVLPGDLLST---NPRAAGYGTYV-EGGKVYAKIIGLFDQTE-----THVRVIPLK   50 (229)
T ss_dssp             CEECTTCEEES---CTTSBCTTEEE-ETTEEEECSSEEEEECS-----SCEEEEECS
T ss_pred             CEEcCCCCccc---CCeEecCCEEE-eCCEEEEEEEEEEEEeC-----CEEEEEeCC
Confidence            67999999983   34789999887 67889999999988652     247888754

---

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	192
d2zjrt1	84	b.84.4.1 (T:2-85) Ribosomal protein L27 {Deinococc	2e-44
d2gycu1	84	b.84.4.1 (U:1-84) Ribosomal protein L27 {Escherich	1e-41
d1v8qa_	66	b.84.4.1 (A:) Ribosomal protein L27 {Thermus therm	4e-34

>d2zjrt1 b.84.4.1 (T:2-85) Ribosomal protein L27 {Deinococcus radiodurans [TaxId: 1299]} Length = 84

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: Ribosomal L27 protein
domain: Ribosomal protein L27
species: Deinococcus radiodurans [TaxId: 1299]

 Score =  140 bits (354), Expect = 2e-44
 Identities = 47/84 (55%), Positives = 59/84 (70%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GS+KNGRDS  + LGVK FG +V K G I+VRQRGTKF  G+ VG+G+DHT+F+
Sbjct: 1   AHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLFA 60

Query: 116 LIDGLVKFEKFGPDRKQISVYPRE 139
           L DG V F   G   + IS+   +
Sbjct: 61  LSDGKVVFINKGKGARFISIEAAQ 84

>d2gycu1 b.84.4.1 (U:1-84) Ribosomal protein L27 {Escherichia coli [TaxId: 562]} Length = 84

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: Ribosomal L27 protein
domain: Ribosomal protein L27
species: Escherichia coli [TaxId: 562]

 Score =  132 bits (335), Expect = 1e-41
 Identities = 52/83 (62%), Positives = 61/83 (73%), Gaps = 1/83 (1%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKK  GST+NGRDS  +RLGVK FG +    G+IIVRQRGTKFH G NVG G+DHT+F+
Sbjct: 1   AHKKAGGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFA 60

Query: 116 LIDGLVKFEKFGP-DRKQISVYP 137
             DG VKFE  GP +RK IS+  
Sbjct: 61  KADGKVKFEVKGPKNRKFISIEA 83

>d1v8qa_ b.84.4.1 (A:) Ribosomal protein L27 {Thermus thermophilus [TaxId: 274]} Length = 66

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: Ribosomal L27 protein
domain: Ribosomal protein L27
species: Thermus thermophilus [TaxId: 274]

 Score =  113 bits (285), Expect = 4e-34
 Identities = 34/64 (53%), Positives = 48/64 (75%)

Query: 74  RLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQI 133
           RLGVK +  QV + G I+VRQRGT+F PGKNVG+G+D T+F+L+DG+V+F+  G   + +
Sbjct: 1   RLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDRGRLGRYV 60

Query: 134 SVYP 137
            V P
Sbjct: 61  HVRP 64

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	192
d2zjrt1	84	Ribosomal protein L27 {Deinococcus radiodurans [Ta	100.0
d2gycu1	84	Ribosomal protein L27 {Escherichia coli [TaxId: 56	100.0
d1v8qa_	66	Ribosomal protein L27 {Thermus thermophilus [TaxId	100.0
d2ba0a2	51	Exosome complex RNA-binding protein 1, ECR1 {Archa	95.47
d2nn6h2	48	Ribosomal RNA-processing protein 4, RRP4 {Human (H	93.03
d2je6i2	59	Exosome complex RNA-binding protein 1, ECR1 {Sulfo	90.22
d2nn6i2	55	Exosome component 1, EXOSC1 {Human (Homo sapiens)	89.03

>d2zjrt1 b.84.4.1 (T:2-85) Ribosomal protein L27 {Deinococcus radiodurans [TaxId: 1299]}

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: Ribosomal L27 protein
domain: Ribosomal protein L27
species: Deinococcus radiodurans [TaxId: 1299]

Probab=100.00  E-value=1.4e-45  Score=274.02  Aligned_cols=84  Identities=56%  Similarity=0.892  Sum_probs=82.4

Q ss_pred             eeccCCCcCCCCCCCCCcccceeeeCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEEE
Q 029509           56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISV  135 (192)
Q Consensus        56 A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV  135 (192)
                      ||||++|||+|||||+|||||||+|+||+|.||+||||||||+||||+||||||||||||+++|+|+|++..+++++|+|
T Consensus         1 A~KK~~GSt~NgrdS~~krlGvK~~~Gq~V~~G~IivRQRGtk~hpG~nVg~GkD~TLfA~~~G~V~F~k~~~~rk~V~V   80 (84)
T d2zjrt1           1 AHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLFALSDGKVVFINKGKGARFISI   80 (84)
T ss_dssp             CCSSCSSCSSCCCCCCCCCCCCSSCTTCEECSSCEEECCSSSSSEECTTEECCTTSCEEESSCEEEEEEEETTTEEEEEE
T ss_pred             CCccccCCCCCCCCCCCccceEEECCCEEEeCCcEEEEecCceEcCCCCccccCCCcEEEeeceEEEEEEcCCCCEEEEE
Confidence            89999999999999999999999999999999999999999999999999999999999999999999998889999999


Q ss_pred             EeCC
Q 029509          136 YPRE  139 (192)
Q Consensus       136 ~p~~  139 (192)
                      +|.|
T Consensus        81 ~p~e   84 (84)
T d2zjrt1          81 EAAQ   84 (84)
T ss_dssp             CCCC
T ss_pred             EeCC
Confidence            9975

>d2gycu1 b.84.4.1 (U:1-84) Ribosomal protein L27 {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: Ribosomal L27 protein
domain: Ribosomal protein L27
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.8e-45  Score=273.30  Aligned_cols=83  Identities=60%  Similarity=0.908  Sum_probs=79.0

Q ss_pred             eeccCCCcCCCCCCCCCcccceeeeCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEe-CCCcEEEE
Q 029509           56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKF-GPDRKQIS  134 (192)
Q Consensus        56 A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~-~~~r~~Vs  134 (192)
                      ||||++|||+|||||+|||||||+|+||+|.||+||||||||+||||+||||||||||||+++|+|+|+++ ..++++|+
T Consensus         1 A~KK~~GSs~NgrdS~~krLGvK~~~Gq~V~~G~IivRQRGtk~hPG~nVg~GkD~TLfAl~~G~V~F~~~~~~~r~~V~   80 (84)
T d2gycu1           1 AHKKAGGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGKVKFEVKGPKNRKFIS   80 (84)
T ss_dssp             CCCCSCCSCCCCCCCCCBCCCCSSSCCCSSCCSBSSCCCCCCSSCCCCCSSSCCCCCCCCCSCCCCSSSSSSCSCCCCCC
T ss_pred             CCccccccCCCCCCCCCccceeEEcCCEEEcCCcEEEEeccceEcCCCCeeecCCCeEEEeccEEEEEEEcCCCCCEEEE
Confidence            89999999999999999999999999999999999999999999999999999999999999999999865 35788999


Q ss_pred             EEeC
Q 029509          135 VYPR  138 (192)
Q Consensus       135 V~p~  138 (192)
                      |+++
T Consensus        81 V~~e   84 (84)
T d2gycu1          81 IEAE   84 (84)
T ss_dssp             SSCC
T ss_pred             EEeC
Confidence            9874

>d1v8qa_ b.84.4.1 (A:) Ribosomal protein L27 {Thermus thermophilus [TaxId: 274]}

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: Ribosomal L27 protein
domain: Ribosomal protein L27
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=1.3e-35  Score=211.68  Aligned_cols=65  Identities=52%  Similarity=0.947  Sum_probs=63.6

Q ss_pred             ccceeeeCCeEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEEEEeC
Q 029509           74 RLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPR  138 (192)
Q Consensus        74 rLGvK~~~Gq~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV~p~  138 (192)
                      |||||+|+||+|.||+|||||||||||||+||||||||||||+++|+|+|++.++++++|+|+|.
T Consensus         1 RLGvK~~~Gq~V~~G~IivRQRGtk~~pG~nVg~GkD~TLfAl~~G~V~F~~~~~~~~~VsV~P~   65 (66)
T d1v8qa_           1 RLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDRGRLGRYVHVRPL   65 (66)
T ss_dssp             CCEECSCTTCEECTTCEEEECSSCSSEECTTEEECTTCCEEESSSEEEEEEECGGGCEEEEEEEC
T ss_pred             CCccEEeCCEEEeCCeEEEEeccCeEeCCCCeeecCCCcEEEeeeeEEEEEEeCCCCeEEEEEEC
Confidence            79999999999999999999999999999999999999999999999999998889999999996

>d2ba0a2 b.84.4.2 (A:2-52) Exosome complex RNA-binding protein 1, ECR1 {Archaeoglobus fulgidus [TaxId: 2234]}

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: ECR1 N-terminal domain-like
domain: Exosome complex RNA-binding protein 1, ECR1
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.47  E-value=0.0057  Score=39.67  Aligned_cols=48  Identities=17%  Similarity=0.345  Sum_probs=39.9

Q ss_pred             eEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEEEEeCC
Q 029509           83 QVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYPRE  139 (192)
Q Consensus        83 q~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV~p~~  139 (192)
                      +.|.||++|..  + .|.||.|+.+ .|..|+|.+-|.|...     -+.|+|.|..
T Consensus         2 ~iV~PGe~i~~--~-~~~~G~Gty~-~~~~i~ss~~G~v~~~-----n~~i~V~PL~   49 (51)
T d2ba0a2           2 KIVLPGDLLST--N-PRAAGYGTYV-EGGKVYAKIIGLFDQT-----ETHVRVIPLK   49 (51)
T ss_dssp             CEECTTCEEES--C-TTSBCTTEEE-ETTEEEECSSEEEEEC-----SSCEEEEECS
T ss_pred             CEEcCCcEeec--C-CeeCCCCcEE-ECCEEEEEEEEEEEEE-----CCEEEEEeCc
Confidence            57999999975  4 4899999998 5789999999999764     3578888864

>d2nn6h2 b.84.4.2 (H:25-72) Ribosomal RNA-processing protein 4, RRP4 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: ECR1 N-terminal domain-like
domain: Ribosomal RNA-processing protein 4, RRP4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.03  E-value=0.061  Score=34.80  Aligned_cols=47  Identities=26%  Similarity=0.455  Sum_probs=38.3

Q ss_pred             eEeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEEEEe
Q 029509           83 QVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVYP  137 (192)
Q Consensus        83 q~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV~p  137 (192)
                      +.|.||++|-.+-|  |..|-+..+- |..|+|.+.|.|.-.     -|.|+|.|
T Consensus         1 ~iv~PGe~It~~~~--~mrGHGTy~~-~~~i~aSv~G~verv-----NKLvsV~p   47 (48)
T d2nn6h2           1 HLVVPGDTITTDTG--FMRGHGTYMG-EEKLIASVAGSVERV-----NKLICVKA   47 (48)
T ss_dssp             CBCCTTCBCCCCTT--CCBCTTEEEC-SSSEEECSSEEEEEE-----TTEEEEEE
T ss_pred             CEecCCcEeecCCC--eEcccccEec-CCEEEEEEeeeEEEe-----ccEEEEEc
Confidence            46889999987755  8999999984 889999999999543     26788876

>d2je6i2 b.84.4.2 (I:7-65) Exosome complex RNA-binding protein 1, ECR1 {Sulfolobus solfataricus [TaxId: 2287]}

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: ECR1 N-terminal domain-like
domain: Exosome complex RNA-binding protein 1, ECR1
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=90.22  E-value=0.21  Score=32.95  Aligned_cols=53  Identities=19%  Similarity=0.261  Sum_probs=38.5

Q ss_pred             eeCCeEeecCcEeeeccCCeEecCCCeeec-ccccEEeeeceEEEEEEeCCCcEEEEEEeCC
Q 029509           79 IFGDQVAKPGAIIVRQRGTKFHPGKNVGLG-KDHTIFSLIDGLVKFEKFGPDRKQISVYPRE  139 (192)
Q Consensus        79 ~~~Gq~V~~G~IIVRQRGtkfhPG~NVg~G-rD~TLfAlv~G~V~F~k~~~~r~~VsV~p~~  139 (192)
                      +-+-+.|.||++|..  |..|. +.|.|.= .|..|||.+-|.|....     +.|+|+|.+
T Consensus         5 v~~r~iV~PGdvi~~--~~~~~-~~g~~ty~~~~ki~asv~G~v~~~n-----kli~ViPL~   58 (59)
T d2je6i2           5 LQPRSIVVPGELLAE--GEFQI-PWSPYILKINSKYYSTVVGLFDVKD-----TQFEVIPLE   58 (59)
T ss_dssp             CCSSCEECTTCEEEE--ECCCC-CCCTTEEEETTEEEECSSEEEEEET-----TEEEEEESC
T ss_pred             EcCCeEECCCcEeee--CCccc-cCCCEEEecCCEEEEEEEEEEEEEC-----CEEEEEECC
Confidence            446789999999986  44444 3344443 35789999999999872     588898864

>d2nn6i2 b.84.4.2 (I:6-60) Exosome component 1, EXOSC1 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: ECR1 N-terminal domain-like
domain: Exosome component 1, EXOSC1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.03  E-value=0.033  Score=36.75  Aligned_cols=50  Identities=20%  Similarity=0.198  Sum_probs=39.7

Q ss_pred             EeecCcEeeeccCCeEecCCCeeecccccEEeeeceEEEEEEeCCCcEEEEEE
Q 029509           84 VAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQISVY  136 (192)
Q Consensus        84 ~V~~G~IIVRQRGtkfhPG~NVg~GrD~TLfAlv~G~V~F~k~~~~r~~VsV~  136 (192)
                      ++.||+.|..-  -.|-||.|+.. ++..|||.+.|.|..++.+.....|+|.
T Consensus         2 ~~lPGe~L~~~--eey~~G~gTy~-~~g~I~as~~G~v~id~~~~~isVisV~   51 (55)
T d2nn6i2           2 YCIPGERLCNL--EEGSPGSGTYT-RHGYIFSSLAGCLMKSSENGALPVVSVV   51 (55)
T ss_dssp             CCCTTCEEEET--TTCCCSSSCEE-ETTEEECCSCSCBCCCBCTTSSBC-CBC
T ss_pred             cccCCcEEeeh--heecCCCCeEE-cCCEEEEEeeEEEEEecCCCEeeEEEEE
Confidence            57899999986  45789999987 5678999999999997766666666664