Citrus Sinensis ID: 032363

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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--
Protein Sequence
MATASMSASLIGSFKGLSLSSSSSSSFLKGDFTVCPKSVTVSLPPTSPLPLTIESAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAITNCL
Secondary Structure (PSIPRED)
ccccccHHHHHHHccccccccccccccccccEEcccccEEEcccccccccEEEEEEEcccccccccccccccccccEEEEccEEEEcccEEEEccccccccccccccccccEEEEEEcEEEEEEEEcccccEEEEEEccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHcccEEccccccHHcccccccccccccccccccccccEEEEEEccccccccccccccccccccEEEcccEEEEcccEEEEccccEEccccccccccccEEEEEEccEEEEEEEccccEEEEEEEcHHcc
Coil and Loop (DISEMBL)
MATASMSASLIGSFkglslsssssssflkgdftvcpksvtvslpptsplpltiesahkkgagstkngrdsrgqrlgvkifgdqvakpgaiivrqrgtkfhpgknvglgkdhTIFSLIDGLVkfekfgpdrkqVKYFAITNCL
Flexible Loop (DISEMBL)
MATASMSASLIGSFKGLSLSSSSSSSFLKGDFTVCPKSVTVSLPPTSPLPLTIesahkkgagstkngrdsrgqRLGVkifgdqvakpgaiivrqrgtkfhpgknvglgkdHTIFSLIDGLVKFEkfgpdrkqVKYFAITNCL
Low Complexity Region (SEG)
MATASMSAsligsfkglslsssssssflkGDFTVCPKsvtvslpptsplpltIESAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAITNCL
Disordered region (IsUnstruct)
******************************DFTVCP**************************************LGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAITN**
Disordered Region (DISOPRED)
********SLIGSFKG*********************************PLT**********************LGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAITNCL
Disordered Region (DISEMBL)
*********LIGSFK************LKGDFTVCPKSVTVSLPPTSPLPLTIESAH************SRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAITNCL
Disordered Region (DISPRO)
*********LIGSFKGLSL****************************PLPLTIESAHKK*************QRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAITN**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MATASMSASLIGSFKGLSLSSSSSSSFLKGDFTVCPKSVTVSLPPTSPLPLTIESAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAITNCL
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	142	2.2.26 [Sep-21-2011]
Q9FLN4	198	50S ribosomal protein L27	yes	no	0.936	0.671	0.764	7e-48
P30155	179	50S ribosomal protein L27	N/A	no	0.894	0.709	0.772	2e-44
O65037	195	50S ribosomal protein L27	yes	no	0.936	0.682	0.642	9e-40
A6Q4D3	85	50S ribosomal protein L27	yes	no	0.584	0.976	0.662	4e-27
B8HUY8	89	50S ribosomal protein L27	yes	no	0.584	0.932	0.614	5e-26
P82190	58	50S ribosomal protein L27	N/A	no	0.408	1.0	0.931	7e-26
B2IV09	98	50S ribosomal protein L27	yes	no	0.570	0.826	0.654	9e-26
A8EV84	85	50S ribosomal protein L27	yes	no	0.577	0.964	0.634	2e-25
B5E957	85	50S ribosomal protein L27	yes	no	0.570	0.952	0.654	3e-25
Q10ZG7	95	50S ribosomal protein L27	yes	no	0.570	0.852	0.629	3e-25

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

 Score =  188 bits (478), Expect = 7e-48,   Method: Compositional matrix adjust.
 Identities = 107/140 (76%), Positives = 120/140 (85%), Gaps = 7/140 (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 IDGLVKFEKFGPDRKQVKYF 136
           IDGLVKFEKFGPDRK++  +
Sbjct: 120 IDGLVKFEKFGPDRKKISVY 139

Arabidopsis thaliana (taxid: 3702)

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

 Score =  177 bits (449), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 105/136 (77%), Positives = 115/136 (84%), Gaps = 9/136 (6%)

Query: 5   SMSASLIGSFKGLSLSSSSSSSFLKGDF----TVCPKSVTVSLPPTSPLPLTIESAHKKG 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 VKFEKFGPDRKQVKYF 136
           VKFEKFGPDRK++  +
Sbjct: 117 VKFEKFGPDRKKISVY 132

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 =  161 bits (408), Expect = 9e-40,   Method: Compositional matrix adjust.
 Identities = 90/140 (64%), Positives = 109/140 (77%), Gaps = 7/140 (5%)

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 IDGLVKFEKFGPDRKQVKYF 136
           IDGLVKFEK+GPD+K+V  +
Sbjct: 122 IDGLVKFEKYGPDKKKVSVY 141

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 =  120 bits (300), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 55/83 (66%), Positives = 68/83 (81%)

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

Query: 116 LIDGLVKFEKFGPDRKQVKYFAI 138
           LIDG+VKFE++G DR++V  + +
Sbjct: 62  LIDGVVKFERYGKDRQKVSVYPV 84

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 =  116 bits (290), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 51/83 (61%), Positives = 65/83 (78%)

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

Query: 116 LIDGLVKFEKFGPDRKQVKYFAI 138
            IDG+V FE++G DRK++  + +
Sbjct: 62  TIDGVVTFERYGKDRKRISVYPV 84

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

>sp|P82190|RK27_SPIOL 50S ribosomal protein L27, chloroplastic (Fragment) OS=Spinacia oleracea GN=RPL27 PE=1 SV=1

 Score =  115 bits (289), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 54/58 (93%), Positives = 58/58 (100%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTI 113
           AHKKGAGSTKNGRDS+GQRLGVKI+GDQVAKPGAII+RQRGTKFHPGKNVG+GKDHTI
Sbjct: 1   AHKKGAGSTKNGRDSKGQRLGVKIYGDQVAKPGAIIIRQRGTKFHPGKNVGIGKDHTI 58

Spinacia oleracea (taxid: 3562)

>sp|B2IV09|RL27_NOSP7 50S ribosomal protein L27 OS=Nostoc punctiforme (strain ATCC 29133 / PCC 73102) GN=rpmA PE=3 SV=1

 Score =  115 bits (288), Expect = 9e-26,   Method: Compositional matrix adjust.
 Identities = 53/81 (65%), Positives = 64/81 (79%)

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

Query: 116 LIDGLVKFEKFGPDRKQVKYF 136
           LIDG+V FE+ G  RK+V  +
Sbjct: 62  LIDGVVMFERKGKTRKKVSVY 82

Nostoc punctiforme (strain ATCC 29133 / PCC 73102) (taxid: 63737)

>sp|A8EV84|RL27_ARCB4 50S ribosomal protein L27 OS=Arcobacter butzleri (strain RM4018) GN=rpmA PE=3 SV=1

 Score =  114 bits (285), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 52/82 (63%), Positives = 67/82 (81%)

Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GST+N RDS G+RLGVK +G +V + G II+RQRGT+ H G+NVG+GKDHTI+S
Sbjct: 2   AHKKGQGSTQNNRDSAGRRLGVKKYGGEVVRAGNIIIRQRGTRVHLGQNVGMGKDHTIYS 61

Query: 116 LIDGLVKFEKFGPDRKQVKYFA 137
           LIDG+VKFE+   +RK+V  +A
Sbjct: 62  LIDGVVKFEQKDKNRKKVSVYA 83

Arcobacter butzleri (strain RM4018) (taxid: 367737)

>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 =  114 bits (284), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 53/81 (65%), Positives = 64/81 (79%)

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 LIDGLVKFEKFGPDRKQVKYF 136
           LI+G+VKFE+ G DRK+V  +
Sbjct: 62  LIEGVVKFERMGKDRKKVSVY 82

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

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

 Score =  113 bits (283), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 51/81 (62%), Positives = 65/81 (80%)

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 LIDGLVKFEKFGPDRKQVKYF 136
           L++G+V FE+ G  RK+V  +
Sbjct: 62  LVEGMVTFERKGKSRKKVSVY 82

Trichodesmium erythraeum (strain IMS101) (taxid: 203124)

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	142
15237524	198	50S ribosomal protein L27 [Arabidopsis t	0.936	0.671	0.764	5e-46
229893934	198	auxin-repressed protein 1 [Brassica rapa	0.943	0.676	0.758	6e-46
297805558	198	hypothetical protein ARALYDRAFT_493880 [	0.936	0.671	0.75	6e-46
21553582	196	50S ribosomal protein L27 [Arabidopsis t	0.936	0.678	0.75	3e-45
343173028	170	50S ribosomal protein L27, partial [Sile	0.922	0.770	0.730	3e-43
147815337	186	hypothetical protein VITISV_010521 [Viti	0.894	0.682	0.772	7e-43
225451461	186	PREDICTED: 50S ribosomal protein L27, ch	0.894	0.682	0.772	8e-43
266936	179	RecName: Full=50S ribosomal protein L27,	0.894	0.709	0.772	1e-42
255536879	195	ribosomal protein L27, putative [Ricinus	0.957	0.697	0.744	2e-42
218189635	195	hypothetical protein OsI_04988 [Oryza sa	0.936	0.682	0.657	4e-42

>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 =  188 bits (478), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 107/140 (76%), Positives = 120/140 (85%), Gaps = 7/140 (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 IDGLVKFEKFGPDRKQVKYF 136
           IDGLVKFEKFGPDRK++  +
Sbjct: 120 IDGLVKFEKFGPDRKKISVY 139

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 =  188 bits (478), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 107/141 (75%), Positives = 120/141 (85%), Gaps = 7/141 (4%)

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 LIDGLVKFEKFGPDRKQVKYF 136
           LIDGLVKFEKFGPDRK++  +
Sbjct: 119 LIDGLVKFEKFGPDRKKISVY 139

Source: Brassica rapa subsp. pekinensis

Species: Brassica rapa

Genus: Brassica

Family: Brassicaceae

Order: Brassicales

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 =  188 bits (478), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 105/140 (75%), Positives = 119/140 (85%), Gaps = 7/140 (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 IDGLVKFEKFGPDRKQVKYF 136
           IDGLVKFEKFGPDRKQ+  +
Sbjct: 120 IDGLVKFEKFGPDRKQISVY 139

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 =  186 bits (471), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 105/140 (75%), Positives = 120/140 (85%), Gaps = 7/140 (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 IDGLVKFEKFGPDRKQVKYF 136
           IDGLVKFEKFGPDRK++  +
Sbjct: 118 IDGLVKFEKFGPDRKKISVY 137

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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 =  179 bits (454), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 103/141 (73%), Positives = 120/141 (85%), Gaps = 10/141 (7%)

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 LIDGLVKFEKFGPDRKQVKYF 136
           LIDGLVKFEK+GPD+K+V  +
Sbjct: 118 LIDGLVKFEKYGPDKKKVSVY 138

Source: Silene latifolia

Species: Silene latifolia

Genus: Silene

Family: Caryophyllaceae

Order: Caryophyllales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  178 bits (451), Expect = 7e-43,   Method: Compositional matrix adjust.
 Identities = 102/132 (77%), Positives = 112/132 (84%), Gaps = 5/132 (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 KFGPDRKQVKYF 136
           KFGPDRK++  +
Sbjct: 120 KFGPDRKKISVY 131

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  178 bits (451), Expect = 8e-43,   Method: Compositional matrix adjust.
 Identities = 102/132 (77%), Positives = 112/132 (84%), Gaps = 5/132 (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 KFGPDRKQVKYF 136
           KFGPDRK++  +
Sbjct: 120 KFGPDRKKISVY 131

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|266936|sp|P30155.1|RK27_TOBAC RecName: Full=50S ribosomal protein L27, chloroplastic; AltName: Full=CL27; Flags: Precursor gi|170306|gb|AAA34104.1| ribosomal protein L27 [Nicotiana tabacum] gi|170326|gb|AAA34115.1| ribosomal protein L27 [Nicotiana tabacum]

 Score =  177 bits (449), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 105/136 (77%), Positives = 115/136 (84%), Gaps = 9/136 (6%)

Query: 5   SMSASLIGSFKGLSLSSSSSSSFLKGDF----TVCPKSVTVSLPPTSPLPLTIESAHKKG 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 VKFEKFGPDRKQVKYF 136
           VKFEKFGPDRK++  +
Sbjct: 117 VKFEKFGPDRKKISVY 132

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

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 =  177 bits (448), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 102/137 (74%), Positives = 112/137 (81%), Gaps = 1/137 (0%)

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 LVKFEKFGPDRKQVKYF 136
           LVKFEKFGPDRK+V  +
Sbjct: 124 LVKFEKFGPDRKKVSVY 140

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218189635|gb|EEC72062.1| hypothetical protein OsI_04988 [Oryza sativa Indica Group]

 Score =  175 bits (444), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 92/140 (65%), Positives = 112/140 (80%), Gaps = 7/140 (5%)

Query: 4   ASMSASLIGSFKGLSLSS----SSSSSFLKGDFTVCPKSVTVSL--PPTSPLP-LTIESA 56
           ASM+ +L+G+FKG+SLSS    SSS+SFL+ D         V +  P T P+  LTI+ A
Sbjct: 2   ASMAFTLVGAFKGMSLSSPCHYSSSASFLRADRVSLSVGGGVGMGVPMTMPVRRLTIQMA 61

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

Query: 117 IDGLVKFEKFGPDRKQVKYF 136
           IDGLVKFEK+GPD+K+V  +
Sbjct: 122 IDGLVKFEKYGPDKKKVSVY 141

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	142
TAIR|locus:2162971	198	RPL27 "ribosomal protein large	0.591	0.424	0.892	4.9e-37
TIGR_CMR|GSU_3235	85	GSU_3235 "ribosomal protein L2	0.570	0.952	0.641	9.7e-25
TIGR_CMR|CJE_0090	84	CJE_0090 "ribosomal protein L2	0.570	0.964	0.641	1.1e-23
TIGR_CMR|CHY_0368	88	CHY_0368 "ribosomal protein L2	0.570	0.920	0.604	7.8e-23
UNIPROTKB|Q9KUS9	86	rpmA "50S ribosomal protein L2	0.542	0.895	0.649	1.3e-22
TIGR_CMR|VC_0436	86	VC_0436 "ribosomal protein L27	0.542	0.895	0.649	1.3e-22
TIGR_CMR|SO_3651	84	SO_3651 "ribosomal protein L27	0.570	0.964	0.614	2.1e-22
TIGR_CMR|CPS_4511	85	CPS_4511 "ribosomal protein L2	0.577	0.964	0.626	3.4e-22
TIGR_CMR|DET_1326	84	DET_1326 "ribosomal protein L2	0.577	0.976	0.609	3.4e-22
TIGR_CMR|ECH_0546	88	ECH_0546 "ribosomal protein L2	0.492	0.795	0.7	5.5e-22

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

 Score = 398 (145.2 bits), Expect = 4.9e-37, P = 4.9e-37
 Identities = 75/84 (89%), Positives = 80/84 (95%)

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

Query:   113 IFSLIDGLVKFEKFGPDRKQVKYF 136
             IFSLIDGLVKFEKFGPDRK++  +
Sbjct:   116 IFSLIDGLVKFEKFGPDRKKISVY 139

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 = 282 (104.3 bits), Expect = 9.7e-25, P = 9.7e-25
 Identities = 52/81 (64%), Positives = 63/81 (77%)

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 LIDGLVKFEKFGPDRKQVKYF 136
             LIDG+VKFE+ G DRK+V  +
Sbjct:    62 LIDGVVKFERLGRDRKKVSVY 82

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 = 272 (100.8 bits), Expect = 1.1e-23, P = 1.1e-23
 Identities = 52/81 (64%), Positives = 62/81 (76%)

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

Query:   116 LIDGLVKFEKFGPDRKQVKYF 136
             LIDG VKFE+   DRK+V  +
Sbjct:    62 LIDGFVKFERKDKDRKKVSVY 82

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 = 264 (98.0 bits), Expect = 7.8e-23, P = 7.8e-23
 Identities = 49/81 (60%), Positives = 62/81 (76%)

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

Query:   116 LIDGLVKFEKFGPDRKQVKYF 136
              IDG V FE+ G ++KQV  +
Sbjct:    62 KIDGYVVFERKGKNKKQVSVY 82

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 = 262 (97.3 bits), Expect = 1.3e-22, P = 1.3e-22
 Identities = 50/77 (64%), Positives = 59/77 (76%)

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

Query:   116 LIDGLVKFEKFGPDRKQ 132
             L DG VKFE  GP+ ++
Sbjct:    62 LSDGKVKFEVKGPNNRK 78

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 = 262 (97.3 bits), Expect = 1.3e-22, P = 1.3e-22
 Identities = 50/77 (64%), Positives = 59/77 (76%)

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

Query:   116 LIDGLVKFEKFGPDRKQ 132
             L DG VKFE  GP+ ++
Sbjct:    62 LSDGKVKFEVKGPNNRK 78

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 = 260 (96.6 bits), Expect = 2.1e-22, P = 2.1e-22
 Identities = 51/83 (61%), Positives = 62/83 (74%)

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

Query:   116 LIDGLVKFEKFGPDRKQVKYFAI 138
             L DG VKFE  GP+ +  K+ +I
Sbjct:    62 LTDGKVKFEVKGPNNR--KFISI 82

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

GO:0006412 "translation" evidence=ISS

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

 Score = 258 (95.9 bits), Expect = 3.4e-22, P = 3.4e-22
 Identities = 52/83 (62%), Positives = 61/83 (73%)

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

Query:   116 LIDGLVKFEKFGP-DRKQVKYFA 137
             L DG V+FE  GP  RK V   A
Sbjct:    62 LSDGKVQFEVKGPKSRKFVSIIA 84

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

GO:0006412 "translation" evidence=ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

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

 Score = 258 (95.9 bits), Expect = 3.4e-22, P = 3.4e-22
 Identities = 50/82 (60%), Positives = 62/82 (75%)

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

Query:   116 LIDGLVKFEKFGPDRKQVKYFA 137
               +G+VKFE    DR++V   A
Sbjct:    62 TCEGVVKFEPTTNDRRKVSVVA 83

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

GO:0006412 "translation" evidence=ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

TIGR_CMR|ECH_0546 ECH_0546 "ribosomal protein L27" [Ehrlichia chaffeensis str. Arkansas (taxid:205920)]

 Score = 256 (95.2 bits), Expect = 5.5e-22, P = 5.5e-22
 Identities = 49/70 (70%), Positives = 55/70 (78%)

Query:    56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
             A KK  GS+ NGRDSRG+RLGVK FG +   PG II+RQRGTK+HPGKNVG+GKDHTIFS
Sbjct:     2 ATKKSGGSSGNGRDSRGRRLGVKKFGSEKVIPGNIIIRQRGTKYHPGKNVGIGKDHTIFS 61

Query:   116 LIDGLVKFEK 125
              I G V F K
Sbjct:    62 KISGFVHFRK 71

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

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

GO:0006412 "translation" 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	0.6428	0.9366	0.6820	yes	no
Q9FLN4	RK27_ARATH	No assigned EC number	0.7642	0.9366	0.6717	yes	no
P30155	RK27_TOBAC	No assigned EC number	0.7720	0.8943	0.7094	N/A	no
P82190	RK27_SPIOL	No assigned EC number	0.9310	0.4084	1.0	N/A	no
Q7NME2	RL27_GLOVI	No assigned EC number	0.5813	0.6056	0.9052	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	fgenesh2_kg.7__3313__AT5G40950.1	annotation not avaliable (198 aa)
		(Arabidopsis lyrata)
Predicted Functional Partners:
	fgenesh2_kg.1__3647__AT1G35680.1	annotation not avaliable (215 aa)	•			•	•		•		0.975
	fgenesh2_kg.6__1874__AT5G18570.1	annotation not avaliable (681 aa)	•			•			•		0.943
	fgenesh2_kg.1__466__AT1G05190.1	annotation not avaliable (223 aa)	•			•	•		•		0.916
	fgenesh2_kg.6__3575__AT4G01310.1	annotation not avaliable (264 aa)	•			•	•		•		0.910
	fgenesh2_kg.4__2465__AT2G43030.1	annotation not avaliable (271 aa)	•			•	•		•		0.905
	fgenesh2_kg.2__2158__AT1G78630.1	annotation not avaliable (242 aa)	•			•	•		•		0.878
	scaffold_503640.1	annotation not avaliable (344 aa)				•	•		•		0.868
	fgenesh2_kg.5__880__AT3G44890.1	annotation not avaliable (197 aa)				•	•		•		0.864
	fgenesh2_kg.2__1766__AT1G74970.1	annotation not avaliable (208 aa)	•			•	•		•		0.821
	scaffold_503605.1	annotation not avaliable (275 aa)				•	•		•		0.820

---

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	142
PRK05435	82	PRK05435, rpmA, 50S ribosomal protein L27; Validat	2e-52
pfam01016	80	pfam01016, Ribosomal_L27, Ribosomal L27 protein	1e-46
COG0211	87	COG0211, RpmA, Ribosomal protein L27 [Translation,	4e-46
CHL00121	86	CHL00121, rpl27, ribosomal protein L27; Reviewed	2e-39
TIGR00062	83	TIGR00062, L27, ribosomal protein L27	1e-36

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

 Score =  160 bits (407), Expect = 2e-52
 Identities = 56/78 (71%), Positives = 64/78 (82%)

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

Query: 116 LIDGLVKFEKFGPDRKQV 133
           L+DG+VKFE+ G +RK V
Sbjct: 62  LVDGVVKFERKGRNRKYV 79

Length = 82

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

 Score =  145 bits (368), Expect = 1e-46
 Identities = 58/78 (74%), Positives = 65/78 (83%)

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

Query: 116 LIDGLVKFEKFGPDRKQV 133
           L+DG VKFEK   +RK V
Sbjct: 61  LVDGYVKFEKKPKNRKYV 78

Length = 80

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

 Score =  144 bits (365), Expect = 4e-46
 Identities = 56/78 (71%), Positives = 64/78 (82%)

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

Query: 116 LIDGLVKFEKFGPDRKQV 133
           L+DG+VKFE  G +RK V
Sbjct: 62  LVDGVVKFETKGKNRKYV 79

Length = 87

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

 Score =  127 bits (322), Expect = 2e-39
 Identities = 51/87 (58%), Positives = 62/87 (71%), Gaps = 3/87 (3%)

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

Query: 116 LIDGLVKFEKFGPDRKQVKYFAITNCL 142
           LIDG VKF+K     K+ K   + N +
Sbjct: 62  LIDGFVKFKKK---NKKQKSINVINIV 85

Length = 86

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

 Score =  120 bits (303), Expect = 1e-36
 Identities = 55/79 (69%), Positives = 62/79 (78%), Gaps = 1/79 (1%)

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

Query: 116 LIDGLVKFEKFG-PDRKQV 133
           L DG+VKFEK G   RK V
Sbjct: 62  LSDGVVKFEKKGKRSRKFV 80

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	142
COG0211	87	RpmA Ribosomal protein L27 [Translation, ribosomal	100.0
KOG4600	144	consensus Mitochondrial ribosomal protein MRP7 (L2	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
PF14382	39	ECR1_N: Exosome complex exonuclease RRP4 N-termina	95.63
PRK09521	189	exosome complex RNA-binding protein Csl4; Provisio	95.41
COG1096	188	Predicted RNA-binding protein (consists of S1 doma	93.41
PRK04163	235	exosome complex RNA-binding protein Rrp4; Provisio	92.77
PF03961	451	DUF342: Protein of unknown function (DUF342); Inte	88.21
PF01551	96	Peptidase_M23: Peptidase family M23; InterPro: IPR	86.45

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

Probab=100.00  E-value=1.2e-48  Score=283.15  Aligned_cols=86  Identities=65%  Similarity=1.020  Sum_probs=84.4

Q ss_pred             eeeccCCCcCCCCCCCCCccceeEeeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEE
Q 032363           55 SAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVK  134 (142)
Q Consensus        55 ~A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~  134 (142)
                      |||||++|||+|||||++||||+|+++||.|.+|+||||||||+||||+|||+|+|||||||+||+|+|++..++|+||+
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            89999999999999999999999999999999999999999999999999999999999999999999999988999999


Q ss_pred             EEecCC
Q 032363          135 YFAITN  140 (142)
Q Consensus       135 V~p~~~  140 (142)
                      |+|+++
T Consensus        81 V~~~~~   86 (87)
T COG0211          81 VVPEAE   86 (87)
T ss_pred             EEeecc
Confidence            999875

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

Probab=100.00  E-value=6.1e-48  Score=299.86  Aligned_cols=112  Identities=56%  Similarity=0.787  Sum_probs=100.5

Q ss_pred             eeeeeeccCCccceeecCceeccccceecCCCCCCcceeEEeeeccCCCcCCCCCCCCCccceeEeeCCeEeecCcEEee
Q 032363           14 FKGLSLSSSSSSSFLKGDFTVCPKSVTVSLPPTSPLPLTIESAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVR   93 (142)
Q Consensus        14 f~glsl~s~~sss~~~g~~~~~~~~~~~~~~~~~~~~~~ir~A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIvR   93 (142)
                      +++|.|++  +|+++.|+.+.+             ..+.||+|+||++|||||+|||+|+|||||+|+||+|+|||||+|
T Consensus         2 ~~~l~l~t--as~~~~~~ss~~-------------~~l~vR~AtKk~aGStKN~~dS~grrlGvKk~egq~V~~G~IIvr   66 (144)
T KOG4600|consen    2 VNALRLST--ASSSLDGSSSGL-------------SFLAVRWATKKGAGSTKNGRDSAGRRLGVKKYEGQSVIPGNIIVR   66 (144)
T ss_pred             ccceecch--hhhhhcCCCCcc-------------eeeeeeeecccccCccccCCCCCcccccceecCCeeeecccEEEE
Confidence            67788888  566777765443             356899999999999999999999999999999999999999999


Q ss_pred             cccceEEcCCCeeecccceEEEeeceEEEEEEe--CCCceEEEEEecCC
Q 032363           94 QRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKF--GPDRKQVKYFAITN  140 (142)
Q Consensus        94 QRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~--~p~r~~V~V~p~~~  140 (142)
                      |||||||||+|||||||||||||++|+|+|++.  .|.|++|+|.|.++
T Consensus        67 QRgtkfHPG~nVGiGKDhtifaL~eG~Vrf~k~~~~~~Rk~i~V~~~~~  115 (144)
T KOG4600|consen   67 QRGTKFHPGDNVGIGKDHTIFALEEGRVRFEKSKITPPRKWIGVDPRGG  115 (144)
T ss_pred             ecccccCCCcccccCCcceEEEeeccEEEEEEccCCCCcceEEEeecCC
Confidence            999999999999999999999999999999986  56789999999754

>CHL00121 rpl27 ribosomal protein L27; Reviewed

Probab=100.00  E-value=7.6e-47  Score=273.60  Aligned_cols=85  Identities=59%  Similarity=0.949  Sum_probs=82.5

Q ss_pred             eeeccCCCcCCCCCCCCCccceeEeeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEE
Q 032363           55 SAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVK  134 (142)
Q Consensus        55 ~A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~  134 (142)
                      |||||++|||+|||||+|||||+|+++||+|.||+||||||||+||||+||||||||||||+++|+|+|++...++++|+
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            89999999999999999999999999999999999999999999999999999999999999999999998877899999


Q ss_pred             EEecC
Q 032363          135 YFAIT  139 (142)
Q Consensus       135 V~p~~  139 (142)
                      |+|..
T Consensus        81 v~~~~   85 (86)
T CHL00121         81 VINIV   85 (86)
T ss_pred             Eeecc
Confidence            99963

>PRK05435 rpmA 50S ribosomal protein L27; Validated

Probab=100.00  E-value=2.1e-46  Score=269.32  Aligned_cols=82  Identities=68%  Similarity=1.076  Sum_probs=80.1

Q ss_pred             eeeccCCCcCCCCCCCCCccceeEeeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEE
Q 032363           55 SAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVK  134 (142)
Q Consensus        55 ~A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~  134 (142)
                      |||||++|||+|||||+|||||||+++||+|.||+||||||||+||||+||+|||||||||+++|+|+|++..+++++|+
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            89999999999999999999999999999999999999999999999999999999999999999999998878899999


Q ss_pred             EE
Q 032363          135 YF  136 (142)
Q Consensus       135 V~  136 (142)
                      |+
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=5.2e-46  Score=266.46  Aligned_cols=81  Identities=68%  Similarity=1.056  Sum_probs=74.1

Q ss_pred             eeccCCCcCCCCCCCCCccceeEeeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEE
Q 032363           56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKY  135 (142)
Q Consensus        56 A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V  135 (142)
                      ||||++|||+|||||+|||||||+++||+|.||+||||||||+||||+||+|||||||||++||+|+|++..+++++|+|
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            89999999999999999999999999999999999999999999999999999999999999999999998888999999


Q ss_pred             E
Q 032363          136 F  136 (142)
Q Consensus       136 ~  136 (142)
                      +
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=1.3e-45  Score=265.75  Aligned_cols=82  Identities=67%  Similarity=1.019  Sum_probs=79.0

Q ss_pred             eeeccCCCcCCCCCCCCCccceeEeeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeC-CCceEE
Q 032363           55 SAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFG-PDRKQV  133 (142)
Q Consensus        55 ~A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~-p~r~~V  133 (142)
                      |||||++|||+|||||+|||||||+++||+|.||+||||||||+||||+||+|||||||||+++|+|+|++.. +++++|
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            8999999999999999999999999999999999999999999999999999999999999999999999874 589999


Q ss_pred             EEE
Q 032363          134 KYF  136 (142)
Q Consensus       134 ~V~  136 (142)
                      +|+
T Consensus        81 ~v~   83 (83)
T TIGR00062        81 SVV   83 (83)
T ss_pred             EEC
Confidence            984

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

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

Probab=95.63  E-value=0.026  Score=35.47  Aligned_cols=38  Identities=24%  Similarity=0.557  Sum_probs=32.0

Q ss_pred             EeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEE
Q 032363           84 VAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFE  124 (142)
Q Consensus        84 ~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~  124 (142)
                      .|.||+.|...  ..|.||.++.. +|..|||.+-|.|+..
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            48899999986  48899999999 9999999999999864

>PRK09521 exosome complex RNA-binding protein Csl4; Provisional

Probab=95.41  E-value=0.05  Score=42.77  Aligned_cols=53  Identities=11%  Similarity=0.303  Sum_probs=43.6

Q ss_pred             CCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEEEecC
Q 032363           81 GDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAIT  139 (142)
Q Consensus        81 ~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~~  139 (142)
                      +++.|.||+.|...  -.|.||.|+.. +|..|||.+-|.++++.   +++.|+|.|..
T Consensus         4 ~~~~V~PGe~l~~~--~e~~~G~Gty~-~~~~i~as~~G~~~id~---~~~~Isv~P~~   56 (189)
T PRK09521          4 QGDLVLPGDYLAVI--EEYLPGEGTYE-DNGEVYASVVGKVFIDD---INRKISVIPFK   56 (189)
T ss_pred             cCCEECCCCccccc--cceEcCCCEEe-eCCEEEEEeeEEEEEcC---CCCEEEEecCc
Confidence            67899999999765  36899999987 68889999999999853   45678888754

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

Probab=93.41  E-value=0.24  Score=40.88  Aligned_cols=55  Identities=15%  Similarity=0.196  Sum_probs=46.5

Q ss_pred             eCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEEEecCC
Q 032363           80 FGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAITN  140 (142)
Q Consensus        80 ~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~~~  140 (142)
                      -.|.+|.||+.|..+  -.|.||+++--= |+.|+|...|.+..+..   .+.++|.|...
T Consensus         3 ~~g~~v~PGd~~a~~--EE~~~G~gt~~~-~g~i~Aa~~G~~~~d~~---n~~~~V~p~~~   57 (188)
T COG1096           3 KDGTFVLPGDVLAVI--EEFLPGEGTYEE-GGEIRAAATGVVRRDDK---NRVISVKPGKK   57 (188)
T ss_pred             ccCcEEcCcceeeee--eeeecCCCeEeE-CCEEEEeecccEEEccc---ceEEEeccCCC
Confidence            468899999999976  489999999876 99999999999999764   47788888754

>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional

Probab=92.77  E-value=0.34  Score=39.73  Aligned_cols=52  Identities=19%  Similarity=0.476  Sum_probs=42.0

Q ss_pred             eeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEEEecC
Q 032363           79 IFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAIT  139 (142)
Q Consensus        79 ~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~~  139 (142)
                      +..+..|.||+.|.-   -.|.||.|+.. +|..|+|.+-|.+....     +.++|.|..
T Consensus         5 ~~~~~~V~PGd~l~~---~~~~~G~Gty~-~~g~i~As~~G~~~~~~-----~~i~V~p~~   56 (235)
T PRK04163          5 VEDRKIVVPGDLLAE---GEFKAGRGTYK-ENGKIYSTVVGLVDIKD-----DKVRVIPLE   56 (235)
T ss_pred             eeCCcEECCCCCcCc---CCeecCCceEE-eCCEEEEEEeEEEEEEC-----CEEEEEECC
Confidence            456789999999963   36999999987 89999999999999753     267777753

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

Probab=88.21  E-value=1.4  Score=38.86  Aligned_cols=51  Identities=24%  Similarity=0.458  Sum_probs=39.4

Q ss_pred             eEeecCcEEeecc----c------------------ceEEcCCCeeec-cc-ceEEEeeceEEEEEEeCCCceEEEEEec
Q 032363           83 QVAKPGAIIVRQR----G------------------TKFHPGKNVGLG-KD-HTIFSLIDGLVKFEKFGPDRKQVKYFAI  138 (142)
Q Consensus        83 q~V~~G~IIvRQR----G------------------tkfhPG~NVg~G-rD-~TLfAl~~G~V~F~k~~p~r~~V~V~p~  138 (142)
                      +.|.+|+.|++--    |                  ..|.+|+|+-+- .| .+|+|.++|++.|+..     .++|.|.
T Consensus       107 ~~V~~G~~la~~~p~~~G~~G~~V~G~~I~~~~~~~~~~~~g~~~~~~~~d~~~~~A~~~G~~~~~~~-----~i~V~~~  181 (451)
T PF03961_consen  107 PSVKKGDVLAEKIPPTPGEPGRDVFGEPIPAKPGKDIPLKAGKNTEVSEEDGNKLYAAIDGRPVFENG-----KISVDPV  181 (451)
T ss_pred             eEECCCCEEEEEccCCCCCCCcccCCCCcCCCCCCccceeCCCCEEEEcCCCCEEEEecCCEEEEECC-----EEEEEEe
Confidence            3488888888743    2                  678899999999 76 4799999999999842     2666664

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=86.45  E-value=1.7  Score=29.69  Aligned_cols=39  Identities=23%  Similarity=0.331  Sum_probs=27.3

Q ss_pred             eEEcCCCeeecccceEEEeeceEEEEEEeCC-CceEEEEE
Q 032363           98 KFHPGKNVGLGKDHTIFSLIDGLVKFEKFGP-DRKQVKYF  136 (142)
Q Consensus        98 kfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p-~r~~V~V~  136 (142)
                      |||.|-.+.......++|+.+|+|.|....+ .-.+|.|.
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            6889988888888889999999999966532 24455544

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	142
3bbo_X	198	Homology Model For The Spinach Chloroplast 50s Subu		2e-39
1vsa_U	85	Crystal Structure Of A 70s Ribosome-Trna Complex Re		1e-21
3mrz_W	84	Recognition Of The Amber Stop Codon By Release Fact		1e-21
1vs6_W	85	Crystal Structure Of The Bacterial Ribosome From Es		2e-21
1p85_U	84	Real Space Refined Coordinates Of The 50s Subunit F		2e-21
1v8q_A	85	Crystal Structure Of Ribosomal Protein L27 From The		2e-21
2v47_0	85	Structure Of The Ribosome Recycling Factor Bound To		2e-20
3fik_W	79	Ternary Complex-Bound E.Coli 70s Ribosome. This Ent		3e-19
1nkw_U	91	Crystal Structure Of The Large Ribosomal Subunit Fr		1e-18
1pnu_U	86	Crystal Structure Of A Streptomycin Dependent Ribos		1e-18
3r8s_W	76	Structures Of The Bacterial Ribosome In Classical A		3e-18
3tvh_3	77	Crystal Structure Analysis Of Ribosomal Decoding. T		4e-18
3pyo_W	76	Crystal Structure Of A Complex Containing Domain 3		9e-18
3r8t_W	75	Structures Of The Bacterial Ribosome In Classical A		1e-17
3tve_3	76	Crystal Structure Analysis Of Ribosomal Decoding. T		1e-17
2ftc_O	69	Structural Model For The Large Subunit Of The Mamma		4e-08

>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 =  157 bits (398), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 75/84 (89%), Positives = 80/84 (95%)
Query: 53  IESAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHT 112
           IESAHKKGAGSTKNGRDS GQRLGVKI+GDQVAKPGAIIVRQRGTKFH GKNVG+GKDHT
Sbjct: 56  IESAHKKGAGSTKNGRDSPGQRLGVKIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKDHT 115
Query: 113 IFSLIDGLVKFEKFGPDRKQVKYF 136
           IFSLIDGLVKFEKFGPDRK++  +
Sbjct: 116 IFSLIDGLVKFEKFGPDRKKISVY 139

>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 = 98.6 bits (244), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 46/72 (63%), Positives = 60/72 (83%)
Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GSTKNGRDS+ +RLGVK +  QV + G I+VRQRGT+F PGKNVG+G+D T+F+
Sbjct: 2   AHKKGLGSTKNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFA 61
Query: 116 LIDGLVKFEKFG 127
           L+DG+V+F+  G
Sbjct: 62  LVDGVVEFQDRG 73

>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 = 98.2 bits (243), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 46/72 (63%), Positives = 60/72 (83%)
Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GSTKNGRDS+ +RLGVK +  QV + G I+VRQRGT+F PGKNVG+G+D T+F+
Sbjct: 1   AHKKGLGSTKNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFA 60
Query: 116 LIDGLVKFEKFG 127
           L+DG+V+F+  G
Sbjct: 61  LVDGVVEFQDRG 72

>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 = 98.2 bits (243), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 51/83 (61%), Positives = 60/83 (72%), Gaps = 2/83 (2%)
Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKK  GST+NGRDS  +RLGVK FG +    G+IIVRQRGTKFH G NVG G+DHT+F+
Sbjct: 2   AHKKAGGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFA 61
Query: 116 LIDGLVKFEKFGPDRKQVKYFAI 138
             DG VKFE  GP  K  K+ +I
Sbjct: 62  KADGKVKFEVKGP--KNRKFISI 82

>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 = 97.8 bits (242), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 51/83 (61%), Positives = 60/83 (72%), Gaps = 2/83 (2%)
Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKK  GST+NGRDS  +RLGVK FG +    G+IIVRQRGTKFH G NVG G+DHT+F+
Sbjct: 1   AHKKAGGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFA 60
Query: 116 LIDGLVKFEKFGPDRKQVKYFAI 138
             DG VKFE  GP  K  K+ +I
Sbjct: 61  KADGKVKFEVKGP--KNRKFISI 81

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

Iteration: 1
 Score = 97.8 bits (242), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 45/72 (62%), Positives = 60/72 (83%)
Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKKG GST+NGRDS+ +RLGVK +  QV + G I+VRQRGT+F PGKNVG+G+D T+F+
Sbjct: 2   AHKKGLGSTRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFA 61
Query: 116 LIDGLVKFEKFG 127
           L+DG+V+F+  G
Sbjct: 62  LVDGVVEFQDRG 73

>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 = 94.4 bits (233), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 43/72 (59%), Positives = 58/72 (80%)
Query: 56  AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFS 115
           AHKK   ST+NGRDS+ +RLGVK +  QV + G I+VRQRGT+F PGKNVG+G+D T+F+
Sbjct: 2   AHKKALASTRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFA 61
Query: 116 LIDGLVKFEKFG 127
           L+DG+V+F+  G
Sbjct: 62  LVDGVVEFQDRG 73

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

Iteration: 1
 Score = 90.5 bits (223), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 47/77 (61%), Positives = 56/77 (72%), Gaps = 2/77 (2%)
Query: 62  GSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLV 121
           GST+NGRDS  +RLGVK FG +    G+IIVRQRGTKFH G NVG G+DHT+F+  DG V
Sbjct: 2   GSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGKV 61
Query: 122 KFEKFGPDRKQVKYFAI 138
           KFE  GP  K  K+ +I
Sbjct: 62  KFEVKGP--KNRKFISI 76

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

Iteration: 1
 Score = 88.6 bits (218), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 44/68 (64%), Positives = 53/68 (77%)
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 LIDGLVKF 123
           L DG V F
Sbjct: 62  LSDGKVVF 69

>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 = 88.2 bits (217), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 44/68 (64%), Positives = 53/68 (77%)
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 LIDGLVKF 123
           L DG V F
Sbjct: 61  LSDGKVVF 68

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

Iteration: 1
 Score = 87.0 bits (214), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 45/75 (60%), Positives = 54/75 (72%), Gaps = 2/75 (2%)
Query: 64  TKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKF 123
           T+NGRDS  +RLGVK FG +    G+IIVRQRGTKFH G NVG G+DHT+F+  DG VKF
Sbjct: 1   TRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGKVKF 60
Query: 124 EKFGPDRKQVKYFAI 138
           E  GP  K  K+ +I
Sbjct: 61  EVKGP--KNRKFISI 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 = 86.7 bits (213), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 39/65 (60%), Positives = 54/65 (83%)
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 FEKFG 127
           F+  G
Sbjct: 61  FQDRG 65

>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 = 85.5 bits (210), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 39/64 (60%), Positives = 53/64 (82%)
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 EKFG 127
           +  G
Sbjct: 61  QDRG 64

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

Iteration: 1
 Score = 85.1 bits (209), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 44/74 (59%), Positives = 53/74 (71%), Gaps = 2/74 (2%)
Query: 65  KNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFE 124
           +NGRDS  +RLGVK FG +    G+IIVRQRGTKFH G NVG G+DHT+F+  DG VKFE
Sbjct: 1   RNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGKVKFE 60
Query: 125 KFGPDRKQVKYFAI 138
             GP  K  K+ +I
Sbjct: 61  VKGP--KNRKFISI 72

>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 = 84.7 bits (208), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 38/64 (59%), Positives = 53/64 (82%)
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 EKFG 127
           +  G
Sbjct: 61  QDRG 64

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

Iteration: 1
 Score = 53.5 bits (127), Expect = 4e-08,   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	142
3bbo_X	198	Ribosomal protein L27; large ribosomal subunit, sp	5e-60
2zjr_T	91	50S ribosomal protein L27; ribosome, large ribosom	2e-48
3v2d_0	85	50S ribosomal protein L27; ribosome associated inh	5e-48
2ftc_O	69	L27MT, MRP-L27, mitochondrial 39S ribosomal protei	2e-40
3r8s_W	76	50S ribosomal protein L27; protein biosynthesis, R	6e-40

>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 =  182 bits (464), Expect = 5e-60
 Identities = 109/138 (78%), Positives = 121/138 (87%), Gaps = 7/138 (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 LIDGLVKFEKFGPDRKQV 133
           LIDGLVKFEKFGPDRK++
Sbjct: 119 LIDGLVKFEKFGPDRKKI 136

>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 =  149 bits (379), Expect = 2e-48
 Identities = 45/78 (57%), Positives = 56/78 (71%)

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 LIDGLVKFEKFGPDRKQV 133
           L DG V F   G   + +
Sbjct: 62  LSDGKVVFINKGKGARFI 79

>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 =  148 bits (376), Expect = 5e-48
 Identities = 46/78 (58%), Positives = 62/78 (79%)

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

Query: 116 LIDGLVKFEKFGPDRKQV 133
           L+DG+V+F+  G   + V
Sbjct: 62  LVDGVVEFQDRGRLGRYV 79

>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 =  128 bits (325), Expect = 2e-40
 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

>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 =  127 bits (322), Expect = 6e-40
 Identities = 44/71 (61%), Positives = 53/71 (74%), Gaps = 1/71 (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-DRKQV 133
           E  GP +RK +
Sbjct: 61  EVKGPKNRKFI 71

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	142
3bbo_X	198	Ribosomal protein L27; large ribosomal subunit, sp	100.0
3v2d_0	85	50S ribosomal protein L27; ribosome associated inh	100.0
2zjr_T	91	50S ribosomal protein L27; ribosome, large ribosom	100.0
3r8s_W	76	50S ribosomal protein L27; protein biosynthesis, R	100.0
2ftc_O	69	L27MT, MRP-L27, mitochondrial 39S ribosomal protei	100.0
2xha_A	193	NUSG, transcription antitermination protein NUSG;	95.54
2xhc_A	352	Transcription antitermination protein NUSG; 2.45A	95.0
3m7n_A	179	Putative uncharacterized protein AF_0206; exosome,	92.9
2je6_I	251	RRP4, exosome complex RNA-binding protein 1; nucle	91.1
2nn6_I	209	3'-5' exoribonuclease CSL4 homolog; RNA, exosome,	90.13
2ba0_A	229	Archeal exosome RNA binding protein RRP4; RNAse PH	88.73
2d5d_A	74	Methylmalonyl-COA decarboxylase gamma chain; bioti	83.62
1dcz_A	77	Transcarboxylase 1.3S subunit; antiparallel beta s	83.12
2nn6_H	308	Exosome complex exonuclease RRP4; RNA, exosome, PM	82.24
2z0s_A	235	Probable exosome complex RNA-binding protein 1; al	80.54

>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=2.6e-63  Score=400.28  Aligned_cols=137  Identities=79%  Similarity=1.204  Sum_probs=82.0

Q ss_pred             Cccc-cceeeeeeeeeeeeeccCCccceeecCceecc-ccceecCCCC---CCcceeEEeeeccCCCcCCCCCCCCCccc
Q 032363            1 MATA-SMSASLIGSFKGLSLSSSSSSSFLKGDFTVCP-KSVTVSLPPT---SPLPLTIESAHKKGAGSTKNGRDSRGQRL   75 (142)
Q Consensus         1 ~~~~-~~~~~~~~~f~glsl~s~~sss~~~g~~~~~~-~~~~~~~~~~---~~~~~~ir~A~KKggGSTkNGRdS~~KrL   75 (142)
                      |||| +|+|||+++||||||||  |||||+||.++.+ ....+++|..   .+++++|||||||++|||+|||||++|||
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            4544 49999999999999999  6889999998875 3333355543   67889999999999999999999999999


Q ss_pred             eeEeeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEEEecC
Q 032363           76 GVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAIT  139 (142)
Q Consensus        76 GvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~~  139 (142)
                      |||+++||+|+||+||||||||+||||+||||||||||||++||+|+|++.+++|++|+|+|++
T Consensus        79 GVK~~gGq~V~aGnIIVRQRGTkfhPG~NVG~GkDhTLFAl~~G~VkF~~~~~~Rk~VsV~p~~  142 (198)
T 3bbo_X           79 GVKIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKDHTIFSLIDGLVKFEKFGPDRKKISVYPRE  142 (198)
T ss_dssp             SCSSSBCCSSCSCCSSSSCCCCSSCCCCSSSSCCCCCSBCCSCCCCCSSSSCCCCSCCCSSCCC
T ss_pred             eEEecCCeEeccCcEEEeccCceEcCCCCeeecCCCceEeccceEEEEEEcCCCcEEEEEEeCC
Confidence            9999999999999999999999999999999999999999999999999777899999999964

>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=1.6e-49  Score=286.06  Aligned_cols=85  Identities=54%  Similarity=0.927  Sum_probs=74.5

Q ss_pred             eeeccCCCcCCCCCCCCCccceeEeeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEE
Q 032363           55 SAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVK  134 (142)
Q Consensus        55 ~A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~  134 (142)
                      |||||++|||+|||||++||||||+++||+|.||+||||||||+||||+||||||||||||++||+|+|++...++++|+
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            89999999999999999999999999999999999999999999999999999999999999999999999877899999


Q ss_pred             EEecC
Q 032363          135 YFAIT  139 (142)
Q Consensus       135 V~p~~  139 (142)
                      |+|++
T Consensus        81 V~p~a   85 (85)
T 3v2d_0           81 VRPLA   85 (85)
T ss_dssp             EEEC-
T ss_pred             EEECC
Confidence            99963

>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=1.3e-49  Score=289.34  Aligned_cols=85  Identities=54%  Similarity=0.846  Sum_probs=82.0

Q ss_pred             eeeccCCCcCCCCCCCCCccceeEeeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEE
Q 032363           55 SAHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVK  134 (142)
Q Consensus        55 ~A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~  134 (142)
                      |||||++|||+|||||++||||||+|+||+|.||+||||||||+||||+||||||||||||++||+|+|++..+++++|+
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            89999999999999999999999999999999999999999999999999999999999999999999998778999999


Q ss_pred             EEecC
Q 032363          135 YFAIT  139 (142)
Q Consensus       135 V~p~~  139 (142)
                      |+|++
T Consensus        81 V~p~~   85 (91)
T 2zjr_T           81 IEAAQ   85 (91)
T ss_dssp             ECCCC
T ss_pred             EEeCh
Confidence            99964

>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=1.4e-43  Score=250.73  Aligned_cols=75  Identities=57%  Similarity=0.856  Sum_probs=72.0

Q ss_pred             CCCCCCCCCccceeEeeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEe-CCCceEEEEEec
Q 032363           64 TKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKF-GPDRKQVKYFAI  138 (142)
Q Consensus        64 TkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~-~p~r~~V~V~p~  138 (142)
                      |+|||||++||||+|+++||+|.||+||||||||+||||+||||||||||||++||+|+|++. .+++++|+|+|+
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 468999999995

>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=2e-43  Score=246.18  Aligned_cols=68  Identities=41%  Similarity=0.793  Sum_probs=67.4

Q ss_pred             eeccCCCcCCC-CCCCCCccceeEeeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEE
Q 032363           56 AHKKGAGSTKN-GRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKF  123 (142)
Q Consensus        56 A~KKggGSTkN-GRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F  123 (142)
                      ||||++|||+| ||||++||||||+++||+|.||+||||||||+||||+||||||||||||+++|+|+|
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 999999999999999999999999999999999999999999999999999999998

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

Probab=95.54  E-value=0.006  Score=48.86  Aligned_cols=40  Identities=18%  Similarity=0.082  Sum_probs=31.5

Q ss_pred             eCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEEEec
Q 032363           80 FGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAI  138 (142)
Q Consensus        80 ~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~  138 (142)
                      -+||.|.+|+||+                ||+.+.|-+||+|.|.+   +++.|-|.|.
T Consensus        86 ~dG~~V~~GdvLA----------------Kd~AIiaEIdG~V~fgk---gkrrivI~~~  125 (193)
T 2xha_A           86 RVGTKVKQGLPLS----------------KNEEYICELDGKIVEIE---RMKKVVVQTP  125 (193)
T ss_dssp             CTTCEECTTSBSS----------------TTSCSBCCSSEEEEEEE---EEEEEEEECT
T ss_pred             CCCCEEcCCCEEe----------------cCCeEEEccceEEEECC---CeEEEEEECC
Confidence            3566666666666                99999999999999987   5677777774

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

Probab=95.00  E-value=0.014  Score=49.60  Aligned_cols=40  Identities=18%  Similarity=0.058  Sum_probs=31.2

Q ss_pred             eCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEEEec
Q 032363           80 FGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAI  138 (142)
Q Consensus        80 ~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~  138 (142)
                      -+|+.|.+|+||+                ||+.+.|-+||+|.|.+.   ++.|-|.|.
T Consensus       126 ~~g~~v~~G~vla----------------k~~aiiaeidG~V~fg~~---kr~i~i~~~  165 (352)
T 2xhc_A          126 RVGTKVKQGLPLS----------------KNEEYICELDGKIVEIER---MKKVVVQTP  165 (352)
T ss_dssp             CTTCEECTTCBSB----------------SSSSCBCCSCEEEEEEEE---EEEEEEECT
T ss_pred             CCCCEEccCcEEe----------------cCceEEeccceEEEECCc---EEEEEEECC
Confidence            3566666666666                999999999999999874   677777774

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

Probab=92.90  E-value=0.17  Score=38.54  Aligned_cols=49  Identities=18%  Similarity=0.308  Sum_probs=39.7

Q ss_pred             eEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEEEecC
Q 032363           83 QVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAIT  139 (142)
Q Consensus        83 q~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~~  139 (142)
                      +.|.||+.|.-.  ..|.||.++.. .|..|+|.+-|.|++.     .+.|+|.|..
T Consensus         2 ~iV~PGd~l~~~--~~~~~G~Gty~-~~~~i~as~~G~v~~~-----~~~v~V~~~~   50 (179)
T 3m7n_A            2 RFVMPGDRIGSA--EEYVKGEGVYE-EGGELFAAVAGKLIIK-----DRVAKVESIS   50 (179)
T ss_dssp             CEECTTCEEEET--TTSEECTTEEE-ETTEEEESSSEEEEEE-----TTEEEEEESS
T ss_pred             eEEcCCCCCCCC--CCEeccCCEEE-eCCEEEEEEEEEEEEe-----CCEEEEEECC
Confidence            479999999864  35899999988 4889999999999982     2578888863

>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=91.10  E-value=0.35  Score=39.02  Aligned_cols=51  Identities=14%  Similarity=0.275  Sum_probs=41.0

Q ss_pred             CCeEeecCcEEeecccceEEcCC--CeeecccceEEEeeceEEEEEEeCCCceEEEEEecCC
Q 032363           81 GDQVAKPGAIIVRQRGTKFHPGK--NVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAITN  140 (142)
Q Consensus        81 ~Gq~V~~G~IIvRQRGtkfhPG~--NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~~~  140 (142)
                      +++.|.||+.|...   .|.||.  ++.. .|..|||.+-|.|.+..     +.|+|.|.+.
T Consensus        15 ~~~iV~PGd~l~~~---~~~~G~~~Gty~-~~g~i~as~~G~v~~~~-----~~v~V~p~~~   67 (251)
T 2je6_I           15 PRSIVVPGELLAEG---EFQIPWSPYILK-INSKYYSTVVGLFDVKD-----TQFEVIPLEG   67 (251)
T ss_dssp             SSCEECTTCEEEEE---CCCCCCCTTEEE-ETTEEEECSSEEEEEET-----TEEEEEESCC
T ss_pred             CCcEEcCCCCCccC---CeeeCCCCCEEE-ECCEEEEEEEEEEEEeC-----CEEEEEECCC
Confidence            58899999999853   489999  9886 57889999999998652     3588888643

>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=90.13  E-value=0.043  Score=43.16  Aligned_cols=56  Identities=16%  Similarity=0.087  Sum_probs=39.2

Q ss_pred             eCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEEEec
Q 032363           80 FGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAI  138 (142)
Q Consensus        80 ~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~  138 (142)
                      ..++.|.||+.|...  ..|.||.++.. .|..|||.+-|.|.++..+...+.|+|.|.
T Consensus        17 ~~~~iV~PGd~l~~~--~~~~~G~Gty~-~~g~I~Asv~G~v~~~~~~~~~~vi~V~p~   72 (209)
T 2nn6_I           17 PPVRYCIPGERLCNL--EEGSPGSGTYT-RHGYIFSSLAGCLMKSSENGALPVVSVVRE   72 (209)
T ss_dssp             ---CCCCTTCEEEET--TTCCCSSSCEE-ETTEEECCSCSCBCCCBCTTSSBC-CBCCS
T ss_pred             CCCcEEcCCCCCCCC--CCeeecCCEEE-ECCEEEEEEEEEEEEeccCCcccEEEEecC
Confidence            347789999999864  35899999876 577899999999987542223355667665

>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=88.73  E-value=0.38  Score=38.13  Aligned_cols=48  Identities=15%  Similarity=0.331  Sum_probs=37.7

Q ss_pred             eEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEEEecC
Q 032363           83 QVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAIT  139 (142)
Q Consensus        83 q~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~~  139 (142)
                      +.|.||+.|..   ..|.||.++.. .|..|||.+-|.|.+..     +.|+|.|..
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   34889999887 78889999999988642     247888754

>2d5d_A Methylmalonyl-COA decarboxylase gamma chain; biotin, BCCP, structural genomics, NPPSFA; 1.55A {Pyrococcus horikoshii} PDB: 2ejf_C* 2ejg_C* 2evb_A

Probab=83.62  E-value=0.85  Score=28.30  Aligned_cols=36  Identities=22%  Similarity=0.192  Sum_probs=28.8

Q ss_pred             EeeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEE
Q 032363           78 KIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKF  123 (142)
Q Consensus        78 K~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F  123 (142)
                      ..-.|+.|.+|++|++-.-.+.          ..+|.|+.+|+|.-
T Consensus        20 ~v~~G~~V~~G~~l~~i~~~~~----------~~~i~ap~~G~v~~   55 (74)
T 2d5d_A           20 LVRVGDRVRVGQGLLVLEAMKM----------ENEIPSPRDGVVKR   55 (74)
T ss_dssp             CCCTTCEECTTCEEEEEEETTE----------EEEEECSSSEEEEE
T ss_pred             EcCCCCEeCCCCEEEEEecccc----------eEEEeCCCCEEEEE
Confidence            4558999999999998655443          46899999999964

>1dcz_A Transcarboxylase 1.3S subunit; antiparallel beta sheet, hammerhead, biocytin, transferase; NMR {Propionibacterium freudenreichiisubsp} SCOP: b.84.1.1 PDB: 1dd2_A 1o78_A

Probab=83.12  E-value=0.9  Score=28.68  Aligned_cols=38  Identities=18%  Similarity=0.237  Sum_probs=29.8

Q ss_pred             eEeeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEE
Q 032363           77 VKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFE  124 (142)
Q Consensus        77 vK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~  124 (142)
                      +..-.|+.|.+|++|++-.-.++          ..+|.|+.+|+|.-.
T Consensus        22 ~~v~~G~~V~~G~~L~~l~~~~~----------~~~i~Ap~~G~v~~~   59 (77)
T 1dcz_A           22 ILVKEGDTVKAGQTVLVLEAMKM----------ETEINAPTDGKVEKV   59 (77)
T ss_dssp             ECCCTTCEECTTSEEEEEEETTE----------EEEEECSSSEEEEEE
T ss_pred             EEcCCcCEEcCCCEEEEEEccce----------eEEEECCCCEEEEEE
Confidence            44558999999999998655443          578999999998753

>2nn6_H Exosome complex exonuclease RRP4; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: b.40.4.5 b.84.4.2 d.51.1.1

Probab=82.24  E-value=1.5  Score=36.66  Aligned_cols=50  Identities=20%  Similarity=0.317  Sum_probs=38.0

Q ss_pred             CeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEEEecC
Q 032363           82 DQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAIT  139 (142)
Q Consensus        82 Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~~  139 (142)
                      ++.|.||+.|...  ..|.||.++.. .|..|||.+-|.|...     .+.|+|.|..
T Consensus        39 ~~iVlPGd~L~~~--~~~~~G~Gty~-~~g~I~Asv~G~v~~~-----~~~vsV~p~~   88 (308)
T 2nn6_H           39 KHLVVPGDTITTD--TGFMRGHGTYM-GEEKLIASVAGSVERV-----NKLICVKALK   88 (308)
T ss_dssp             -CBCCTTCBCCCC--TTCCBCTTEEE-CSSSEEECSSEEEEEE-----TTEEEEEESS
T ss_pred             CcEEeCCCCCCCC--CCEeecCCeEE-ECCEEEEEEEEEEEec-----CCEEEEeeCC
Confidence            4679999999853  35889999876 5678999999998854     2468888754

>2z0s_A Probable exosome complex RNA-binding protein 1; alpha/beta protein, cytoplasm, structural genomics, NPPSFA; 3.20A {Aeropyrum pernix} SCOP: b.40.4.5 d.51.1.1

Probab=80.54  E-value=0.35  Score=38.30  Aligned_cols=50  Identities=12%  Similarity=0.088  Sum_probs=0.0

Q ss_pred             CeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEEEec
Q 032363           82 DQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAI  138 (142)
Q Consensus        82 Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~  138 (142)
                      ++.|.||+.|...   .|.||.++.. .|..|+|.+-|.|.+..   ++..|+|.|.
T Consensus         9 ~~iV~PGd~l~~~---~~~~G~Gty~-~~~~I~Asv~G~v~~~~---~~~~vsV~p~   58 (235)
T 2z0s_A            9 GRIVVPGEPLPEE---VEASPPYVID-YKGVKRATVVGLLREKG---DGGGRAFVKL   58 (235)
T ss_dssp             ---------------------------------------------------------
T ss_pred             CcEEeCCCCcccC---ceEcCCCEEE-ECCEEEEEEeEEEEEeC---CccEEEEEeC
Confidence            5789999999853   4899998876 67789999999988653   2245777764

---

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	142
d2zjrt1	84	b.84.4.1 (T:2-85) Ribosomal protein L27 {Deinococc	8e-41
d2gycu1	84	b.84.4.1 (U:1-84) Ribosomal protein L27 {Escherich	4e-39
d1v8qa_	66	b.84.4.1 (A:) Ribosomal protein L27 {Thermus therm	6e-31

>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 =  129 bits (325), Expect = 8e-41
 Identities = 45/78 (57%), Positives = 56/78 (71%)

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 LIDGLVKFEKFGPDRKQV 133
           L DG V F   G   + +
Sbjct: 61  LSDGKVVFINKGKGARFI 78

>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 =  124 bits (314), Expect = 4e-39
 Identities = 50/79 (63%), Positives = 59/79 (74%), Gaps = 1/79 (1%)

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

Query: 116 LIDGLVKFEKFGP-DRKQV 133
             DG VKFE  GP +RK +
Sbjct: 61  KADGKVKFEVKGPKNRKFI 79

>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 =  103 bits (259), Expect = 6e-31
 Identities = 33/60 (55%), Positives = 46/60 (76%)

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

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	142
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	96.5
d2nn6h2	48	Ribosomal RNA-processing protein 4, RRP4 {Human (H	95.04
d2nn6i2	55	Exosome component 1, EXOSC1 {Human (Homo sapiens)	93.34
d2je6i2	59	Exosome complex RNA-binding protein 1, ECR1 {Sulfo	93.01

>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=9.1e-48  Score=274.55  Aligned_cols=84  Identities=55%  Similarity=0.861  Sum_probs=82.5

Q ss_pred             eeccCCCcCCCCCCCCCccceeEeeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEE
Q 032363           56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKY  135 (142)
Q Consensus        56 A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V  135 (142)
                      ||||++|||+|||||+|||||||+|+||+|.||+||||||||+||||+||||||||||||++||+|+|++..+++++|+|
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 032363          136 FAIT  139 (142)
Q Consensus       136 ~p~~  139 (142)
                      +|+|
T Consensus        81 ~p~e   84 (84)
T d2zjrt1          81 EAAQ   84 (84)
T ss_dssp             CCCC
T ss_pred             EeCC
Confidence            9986

>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=2e-47  Score=272.63  Aligned_cols=83  Identities=60%  Similarity=0.905  Sum_probs=79.2

Q ss_pred             eeccCCCcCCCCCCCCCccceeEeeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeC-CCceEEE
Q 032363           56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFG-PDRKQVK  134 (142)
Q Consensus        56 A~KKggGSTkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~-p~r~~V~  134 (142)
                      ||||++|||+|||||+|||||||+|+||+|.||+||||||||+||||+||||||||||||+++|+|+|++.. .++++|+
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            899999999999999999999999999999999999999999999999999999999999999999998654 4789999


Q ss_pred             EEec
Q 032363          135 YFAI  138 (142)
Q Consensus       135 V~p~  138 (142)
                      |+||
T Consensus        81 V~~e   84 (84)
T d2gycu1          81 IEAE   84 (84)
T ss_dssp             SSCC
T ss_pred             EEeC
Confidence            9875

>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=1.1e-37  Score=213.64  Aligned_cols=66  Identities=50%  Similarity=0.900  Sum_probs=64.1

Q ss_pred             cceeEeeCCeEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEEEecC
Q 032363           74 RLGVKIFGDQVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAIT  139 (142)
Q Consensus        74 rLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~~  139 (142)
                      |||||+|+||+|.||+||||||||+||||+||||||||||||+++|+|+|++..+++++|+|+|.+
T Consensus         1 RLGvK~~~Gq~V~~G~IivRQRGtk~~pG~nVg~GkD~TLfAl~~G~V~F~~~~~~~~~VsV~P~a   66 (66)
T d1v8qa_           1 RLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDRGRLGRYVHVRPLA   66 (66)
T ss_dssp             CCEECSCTTCEECTTCEEEECSSCSSEECTTEEECTTCCEEESSSEEEEEEECGGGCEEEEEEECC
T ss_pred             CCccEEeCCEEEeCCeEEEEeccCeEeCCCCeeecCCCcEEEeeeeEEEEEEeCCCCeEEEEEECC
Confidence            799999999999999999999999999999999999999999999999999988899999999974

>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=96.50  E-value=0.0012  Score=41.18  Aligned_cols=48  Identities=15%  Similarity=0.324  Sum_probs=40.2

Q ss_pred             eEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEEEecC
Q 032363           83 QVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAIT  139 (142)
Q Consensus        83 q~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~~  139 (142)
                      +.|.||++|..  + .|.||.++.. .|..|+|.+-|.|...     -+.|+|.|..
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 6789999999999763     2579999964

>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=95.04  E-value=0.015  Score=36.26  Aligned_cols=48  Identities=21%  Similarity=0.416  Sum_probs=39.2

Q ss_pred             eEeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEEEec
Q 032363           83 QVAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAI  138 (142)
Q Consensus        83 q~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~  138 (142)
                      +.|.||+.|-.+-+  |.+|.+..+ .|..|+|.+.|.|.  +.+   |-|+|.|.
T Consensus         1 ~iv~PGe~It~~~~--~mrGHGTy~-~~~~i~aSv~G~ve--rvN---KLvsV~pL   48 (48)
T d2nn6h2           1 HLVVPGDTITTDTG--FMRGHGTYM-GEEKLIASVAGSVE--RVN---KLICVKAL   48 (48)
T ss_dssp             CBCCTTCBCCCCTT--CCBCTTEEE-CSSSEEECSSEEEE--EET---TEEEEEES
T ss_pred             CEecCCcEeecCCC--eEcccccEe-cCCEEEEEEeeeEE--Eec---cEEEEEcC
Confidence            46889999987755  899999998 48899999999994  433   67888873

>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=93.34  E-value=0.0053  Score=39.02  Aligned_cols=53  Identities=19%  Similarity=0.150  Sum_probs=41.4

Q ss_pred             EeecCcEEeecccceEEcCCCeeecccceEEEeeceEEEEEEeCCCceEEEEEecC
Q 032363           84 VAKPGAIIVRQRGTKFHPGKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAIT  139 (142)
Q Consensus        84 ~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~~  139 (142)
                      ++.||+.|..-  -.|-||+|+.. ++..|||.+.|.|..++.+.....|+|.-++
T Consensus         2 ~~lPGe~L~~~--eey~~G~gTy~-~~g~I~as~~G~v~id~~~~~isVisV~R~~   54 (55)
T d2nn6i2           2 YCIPGERLCNL--EEGSPGSGTYT-RHGYIFSSLAGCLMKSSENGALPVVSVVRET   54 (55)
T ss_dssp             CCCTTCEEEET--TTCCCSSSCEE-ETTEEECCSCSCBCCCBCTTSSBC-CBCCSC
T ss_pred             cccCCcEEeeh--heecCCCCeEE-cCCEEEEEeeEEEEEecCCCEeeEEEEEecC
Confidence            57899999986  45889999987 6688999999999997766556667665443

>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=93.01  E-value=0.084  Score=33.43  Aligned_cols=53  Identities=15%  Similarity=0.302  Sum_probs=38.8

Q ss_pred             eeCCeEeecCcEEeecccceEEc-CCCeeecccceEEEeeceEEEEEEeCCCceEEEEEecC
Q 032363           79 IFGDQVAKPGAIIVRQRGTKFHP-GKNVGLGKDHTIFSLIDGLVKFEKFGPDRKQVKYFAIT  139 (142)
Q Consensus        79 ~~~Gq~V~~G~IIvRQRGtkfhP-G~NVg~GrD~TLfAl~~G~V~F~k~~p~r~~V~V~p~~  139 (142)
                      .-+-+.|.||++|..  |..|.| |..+. =.|..|||.+-|.|....     +.|+|+|.+
T Consensus         5 v~~r~iV~PGdvi~~--~~~~~~~g~~ty-~~~~ki~asv~G~v~~~n-----kli~ViPL~   58 (59)
T d2je6i2           5 LQPRSIVVPGELLAE--GEFQIPWSPYIL-KINSKYYSTVVGLFDVKD-----TQFEVIPLE   58 (59)
T ss_dssp             CCSSCEECTTCEEEE--ECCCCCCCTTEE-EETTEEEECSSEEEEEET-----TEEEEEESC
T ss_pred             EcCCeEECCCcEeee--CCccccCCCEEE-ecCCEEEEEEEEEEEEEC-----CEEEEEECC
Confidence            346689999999986  455553 44332 145789999999999872     579999964