Citrus Sinensis ID: 032493

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------14
Protein Sequence
MAQTLPNTFFQIKPSAPILPTRKVKNCAATGSGYRTRAVTCRKKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIMEIPVLKGEIVLPPKRKSAAAKGGKKK
Secondary Structure (PSIPRED)
cccccccEEEEEcccccccccccccccccccccccccccccccccccccccccEEEEEccccEEEEccccccEEEEEEccccccEEccEEEEEccccHHHHHHHHHccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccEEEEccccccEEEEEccccccccccccccEEEEcccEEEEEccccccEEEEEEccccccEcccEEEEEccccHHHHHHHHHccccccccccccccEEEcccHHHHHHHcccccc
Coil and Loop (DISEMBL)
maqtlpntffqikpsapilptrkvkncaatgsgyrtravtcrkkdihpqfyeDAKVycngelvmttggtqKEYVVDVWSgnhafylggrsavvvDADQVEKFRQkfgglseimeipvlkgeivlppkrksaaakggkkk
Flexible Loop (DISEMBL)
maqtlpntffqikpsapilptrkvkncaatgsgyrtravtcrkkdihpqfyedAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQkfgglseimeipvlkgeivlppkrksaaakggkkk
Low Complexity Region (SEG)
MAQTLPNTFFQIKPSAPILPTRKVKNCAATGSGYRTRAVTCRKKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIMEIPVLKGEIVLPPkrksaaakggkkk
Disordered region (IsUnstruct)
********FFQIKPSAPILPTRKVKNCAATGSGYRTRAVTCRKKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIMEIPVLKGEIVL***************
Disordered Region (DISOPRED)
***TLPNTFFQIKPSA*************************RKKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQ***********************************
Disordered Region (DISEMBL)
MAQTLPNTFFQIKPSAPILPTRKVKNCAATGSGYRTRAVTCRKKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIMEIPVLKGEIVLPP*************
Disordered Region (DISPRO)
****LPNTFFQIKPSAPILPTRKVKNCAATGSGYRTRAVTCRKKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIMEIPVLKGEIVLPPKRKS*********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAQTLPNTFFQIKPSAPILPTRKVKNCAATGSGYRTRAVTCRKKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIMEIPVLKGEIVLPPKRKSAAAKGGKKK
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	139	2.2.26 [Sep-21-2011]
Q9FWS4	144	50S ribosomal protein L31	yes	no	0.899	0.868	0.666	2e-47
Q5N0T7	77	50S ribosomal protein L31	yes	no	0.482	0.870	0.573	5e-16
Q31L35	77	50S ribosomal protein L31	yes	no	0.482	0.870	0.573	5e-16
Q8DMK6	91	50S ribosomal protein L31	yes	no	0.460	0.703	0.537	7e-16
Q7V9Y9	94	50S ribosomal protein L31	yes	no	0.460	0.680	0.569	7e-16
A9BCL9	94	50S ribosomal protein L31	yes	no	0.460	0.680	0.553	3e-15
B2ITM6	80	50S ribosomal protein L31	yes	no	0.460	0.8	0.553	3e-15
Q7V519	93	50S ribosomal protein L31	yes	no	0.460	0.688	0.553	4e-15
B1XJH9	76	50S ribosomal protein L31	yes	no	0.482	0.881	0.529	4e-15
Q0ID33	88	50S ribosomal protein L31	yes	no	0.460	0.727	0.553	5e-15

>sp|Q9FWS4|RK31_ARATH 50S ribosomal protein L31, chloroplastic OS=Arabidopsis thaliana GN=RPL31 PE=1 SV=1

 Score =  187 bits (475), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 88/132 (66%), Positives = 102/132 (77%), Gaps = 7/132 (5%)

Query: 1   MAQTLPNTFFQIKPSAPILPTRKVKNCAATGSGYRTR-------AVTCRKKDIHPQFYED 53
           MA +LPN+F QI P  P L  RK    A  G     R        +TCRKK++HP+F+ED
Sbjct: 1   MAVSLPNSFLQISPCVPSLQLRKPVMAAVKGGKQSVRRSSNTVVQITCRKKELHPEFHED 60

Query: 54  AKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIM 113
           AKVYCNGELVMTTGGT+KEYVVDVWSGNH FYLG RSA++VDADQVEKFR++F GLSEIM
Sbjct: 61  AKVYCNGELVMTTGGTKKEYVVDVWSGNHPFYLGNRSALMVDADQVEKFRKRFAGLSEIM 120

Query: 114 EIPVLKGEIVLP 125
           EIPVLKGEI++P
Sbjct: 121 EIPVLKGEIIMP 132

Binds the 23S rRNA.
Arabidopsis thaliana (taxid: 3702)

>sp|Q5N0T7|RL31_SYNP6 50S ribosomal protein L31 OS=Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) GN=rpmE PE=3 SV=1

 Score = 82.8 bits (203), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 39/68 (57%), Positives = 48/68 (70%), Gaps = 1/68 (1%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKF 102
           K DIHPQ+Y +AKVYCNGE VMT G TQ E  VDVWSGNH FY G +  +  +  +VE+F
Sbjct: 3   KADIHPQWYPEAKVYCNGEEVMTVGSTQPELHVDVWSGNHPFYTGTQKIIDTEG-RVERF 61

Query: 103 RQKFGGLS 110
            +K+G L 
Sbjct: 62  LRKYGMLE 69

Binds the 23S rRNA.

Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) (taxid: 269084)

>sp|Q31L35|RL31_SYNE7 50S ribosomal protein L31 OS=Synechococcus elongatus (strain PCC 7942) GN=rpmE PE=3 SV=1

 Score = 82.8 bits (203), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 39/68 (57%), Positives = 48/68 (70%), Gaps = 1/68 (1%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKF 102
           K DIHPQ+Y +AKVYCNGE VMT G TQ E  VDVWSGNH FY G +  +  +  +VE+F
Sbjct: 3   KADIHPQWYPEAKVYCNGEEVMTVGSTQPELHVDVWSGNHPFYTGTQKIIDTEG-RVERF 61

Query: 103 RQKFGGLS 110
            +K+G L 
Sbjct: 62  LRKYGMLE 69

Binds the 23S rRNA.

Synechococcus elongatus (strain PCC 7942) (taxid: 1140)

>sp|Q8DMK6|RL31_THEEB 50S ribosomal protein L31 OS=Thermosynechococcus elongatus (strain BP-1) GN=rpmE PE=3 SV=1

 Score = 82.4 bits (202), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 36/67 (53%), Positives = 52/67 (77%), Gaps = 3/67 (4%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDAD-QVEK 101
           K +IHPQ+Y +AKVYC+GE++MT G T+ E  VD+WSGNH F+ G +   +VDA+ +VE+
Sbjct: 3   KPNIHPQWYPEAKVYCDGEVIMTVGSTKPELHVDIWSGNHPFFTGTQK--IVDAEGRVER 60

Query: 102 FRQKFGG 108
           FR+K+ G
Sbjct: 61  FRRKYSG 67

Binds the 23S rRNA.

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

>sp|Q7V9Y9|RL31_PROMA 50S ribosomal protein L31 OS=Prochlorococcus marinus (strain SARG / CCMP1375 / SS120) GN=rpmE PE=3 SV=1

 Score = 82.4 bits (202), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 37/65 (56%), Positives = 48/65 (73%), Gaps = 1/65 (1%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKF 102
           KKDIHP +Y DAKV CNGE+VMTTG TQ E  VDVWSGNH F+ G +  +  +  +V++F
Sbjct: 3   KKDIHPNWYPDAKVICNGEVVMTTGSTQPEIHVDVWSGNHPFFTGTQKILDTEG-RVDRF 61

Query: 103 RQKFG 107
            +K+G
Sbjct: 62  MRKYG 66

Binds the 23S rRNA.

Prochlorococcus marinus (strain SARG / CCMP1375 / SS120) (taxid: 167539)

>sp|A9BCL9|RL31_PROM4 50S ribosomal protein L31 OS=Prochlorococcus marinus (strain MIT 9211) GN=rpmE PE=3 SV=1

 Score = 80.5 bits (197), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 36/65 (55%), Positives = 48/65 (73%), Gaps = 1/65 (1%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKF 102
           K+DIHP +Y DAKV CNGE+VMTTG TQ E  VDVWSGNH F+ G +  +  +  +V++F
Sbjct: 3   KEDIHPTWYPDAKVICNGEVVMTTGSTQPEIHVDVWSGNHPFFTGTQKILDTEG-RVDRF 61

Query: 103 RQKFG 107
            +K+G
Sbjct: 62  MRKYG 66

Binds the 23S rRNA.

Prochlorococcus marinus (strain MIT 9211) (taxid: 93059)

>sp|B2ITM6|RL31_NOSP7 50S ribosomal protein L31 OS=Nostoc punctiforme (strain ATCC 29133 / PCC 73102) GN=rpmE PE=3 SV=1

 Score = 80.5 bits (197), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 36/65 (55%), Positives = 48/65 (73%), Gaps = 1/65 (1%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKF 102
           K DIHP++Y DAKVYCNG++VMT G T+ E  VDVWSGNH FY G +  +  +  +VE+F
Sbjct: 3   KADIHPKWYPDAKVYCNGQVVMTIGSTKPELHVDVWSGNHPFYTGTQKIIDTEG-RVERF 61

Query: 103 RQKFG 107
            +K+G
Sbjct: 62  LRKYG 66

Binds the 23S rRNA.

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

>sp|Q7V519|RL31_PROMM 50S ribosomal protein L31 OS=Prochlorococcus marinus (strain MIT 9313) GN=rpmE PE=3 SV=1

 Score = 80.1 bits (196), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 36/65 (55%), Positives = 47/65 (72%), Gaps = 1/65 (1%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKF 102
           K DIHP +Y DAKV CNGE+VMTTG TQ E  VDVWSGNH F+ G +  +  +  +V++F
Sbjct: 3   KPDIHPNWYPDAKVICNGEVVMTTGSTQPELHVDVWSGNHPFFTGTQKILDTEG-RVDRF 61

Query: 103 RQKFG 107
            +K+G
Sbjct: 62  MRKYG 66

Binds the 23S rRNA.

Prochlorococcus marinus (strain MIT 9313) (taxid: 74547)

>sp|B1XJH9|RL31_SYNP2 50S ribosomal protein L31 OS=Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) GN=rpmE PE=3 SV=1

 Score = 79.7 bits (195), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 36/68 (52%), Positives = 49/68 (72%), Gaps = 1/68 (1%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKF 102
           K DIHP++Y DAKV CNGE+VMT G TQ E  V++WSGNH FY G +  +  +  +V++F
Sbjct: 3   KADIHPEWYPDAKVICNGEVVMTIGSTQPEINVEIWSGNHPFYTGTQKIIDTEG-RVDRF 61

Query: 103 RQKFGGLS 110
            +K+G LS
Sbjct: 62  LRKYGMLS 69

Binds the 23S rRNA.

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

>sp|Q0ID33|RL31_SYNS3 50S ribosomal protein L31 OS=Synechococcus sp. (strain CC9311) GN=rpmE PE=3 SV=1

 Score = 79.7 bits (195), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 36/65 (55%), Positives = 47/65 (72%), Gaps = 1/65 (1%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKF 102
           K DIHP +Y DAKV CNGE+VMTTG TQ E  VDVWSGNH F+ G +  +  +  +V++F
Sbjct: 3   KPDIHPTWYPDAKVICNGEVVMTTGSTQPEINVDVWSGNHPFFTGTQKILDTEG-RVDRF 61

Query: 103 RQKFG 107
            +K+G
Sbjct: 62  MRKYG 66

Binds the 23S rRNA.

Synechococcus sp. (strain CC9311) (taxid: 64471)

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	139
255538710	134	50S ribosomal protein L31, putative [Ric	0.892	0.925	0.75	6e-49
147772110	241	hypothetical protein VITISV_040159 [Viti	0.884	0.510	0.751	2e-46
225458215	135	PREDICTED: 50S ribosomal protein L31, ch	0.884	0.911	0.751	2e-46
297839413	145	EMB2184 [Arabidopsis lyrata subsp. lyrat	0.899	0.862	0.681	3e-46
18410833	144	50S ribosomal protein L31 [Arabidopsis t	0.899	0.868	0.666	1e-45
449460241	163	PREDICTED: LOW QUALITY PROTEIN: 50S ribo	0.877	0.748	0.706	4e-44
449476845	163	PREDICTED: LOW QUALITY PROTEIN: 50S ribo	0.877	0.748	0.706	4e-44
307136371	161	50S ribosomal protein l31 [Cucumis melo	0.884	0.763	0.688	6e-44
358348462	136	50S ribosomal protein L31 [Medicago trun	0.899	0.919	0.687	7e-43
358348464	134	50S ribosomal protein L31 [Medicago trun	0.884	0.917	0.679	7e-42

>gi|255538710|ref|XP_002510420.1| 50S ribosomal protein L31, putative [Ricinus communis] gi|223551121|gb|EEF52607.1| 50S ribosomal protein L31, putative [Ricinus communis]

 Score =  198 bits (504), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 96/128 (75%), Positives = 107/128 (83%), Gaps = 4/128 (3%)

Query: 1   MAQTLPNTFFQIKP-SAPILPTRKVKNCAATGSGYRTRAVTCRKKDIHPQFYEDAKVYCN 59
           MA TL NTF QIKP S P++P +KVK  A      +   VTCRKKDIHP+F+EDAKVYCN
Sbjct: 1   MAHTLTNTFLQIKPLSPPLVPIKKVKASAVRNFNLQ---VTCRKKDIHPEFHEDAKVYCN 57

Query: 60  GELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIMEIPVLK 119
           GELVMTTGGTQKEYVVDVWSGNH FYLG RSAV+VDADQVEKFR+KFG LS+IMEIPVLK
Sbjct: 58  GELVMTTGGTQKEYVVDVWSGNHPFYLGNRSAVLVDADQVEKFRKKFGELSQIMEIPVLK 117

Query: 120 GEIVLPPK 127
           GEI+LP +
Sbjct: 118 GEIILPSR 125

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147772110|emb|CAN64555.1| hypothetical protein VITISV_040159 [Vitis vinifera]

 Score =  190 bits (482), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 97/129 (75%), Positives = 104/129 (80%), Gaps = 6/129 (4%)

Query: 1   MAQTLPNTFFQIKPSAPILPTRKVKNCAATGSGYRTRAVTCRKKDIHPQFYEDAKVYCNG 60
           MA TL NTF Q K S P LP +K    A     YR +  TCRKKDIHPQFYEDAKVYCNG
Sbjct: 1   MALTLSNTFLQRKLSPPTLPIKK----ANAVRAYRPQW-TCRKKDIHPQFYEDAKVYCNG 55

Query: 61  ELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIMEIPVLK- 119
           ELVMTTGGTQKEYVVDVWSGNH FYLG RS ++VDADQVEKFR+KFG +S+IMEIPVLK 
Sbjct: 56  ELVMTTGGTQKEYVVDVWSGNHPFYLGNRSGLLVDADQVEKFRKKFGEISQIMEIPVLKY 115

Query: 120 GEIVLPPKR 128
           GEIVLPPKR
Sbjct: 116 GEIVLPPKR 124

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225458215|ref|XP_002281680.1| PREDICTED: 50S ribosomal protein L31, chloroplastic isoform 1 [Vitis vinifera] gi|359492152|ref|XP_003634370.1| PREDICTED: 50S ribosomal protein L31, chloroplastic isoform 2 [Vitis vinifera] gi|302142528|emb|CBI19731.3| unnamed protein product [Vitis vinifera]

 Score =  190 bits (482), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 97/129 (75%), Positives = 104/129 (80%), Gaps = 6/129 (4%)

Query: 1   MAQTLPNTFFQIKPSAPILPTRKVKNCAATGSGYRTRAVTCRKKDIHPQFYEDAKVYCNG 60
           MA TL NTF Q K S P LP +K     A    YR +  TCRKKDIHPQFYEDAKVYCNG
Sbjct: 1   MALTLSNTFLQRKLSPPTLPIKKANAVRA----YRPQW-TCRKKDIHPQFYEDAKVYCNG 55

Query: 61  ELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIMEIPVLK- 119
           ELVMTTGGTQKEYVVDVWSGNH FYLG RS ++VDADQVEKFR+KFG +S+IMEIPVLK 
Sbjct: 56  ELVMTTGGTQKEYVVDVWSGNHPFYLGNRSGLLVDADQVEKFRKKFGEISQIMEIPVLKY 115

Query: 120 GEIVLPPKR 128
           GEIVLPPKR
Sbjct: 116 GEIVLPPKR 124

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297839413|ref|XP_002887588.1| EMB2184 [Arabidopsis lyrata subsp. lyrata] gi|297333429|gb|EFH63847.1| EMB2184 [Arabidopsis lyrata subsp. lyrata]

 Score =  189 bits (481), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 90/132 (68%), Positives = 102/132 (77%), Gaps = 7/132 (5%)

Query: 1   MAQTLPNTFFQIKPSAPILPTRKVKNCAATGSGYRTR-------AVTCRKKDIHPQFYED 53
           MA +LPN+F QI P  P L  RK    A  G     R        +TCRKKD+HP+F+ED
Sbjct: 1   MAVSLPNSFLQINPCVPSLELRKPVMAAVKGGKQSARRSSNTVVQITCRKKDLHPEFHED 60

Query: 54  AKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIM 113
           AKVYCNGELVMTTGGT+KEYVVDVWSGNH FYLG RSA++VDADQVEKFR++F GLSEIM
Sbjct: 61  AKVYCNGELVMTTGGTKKEYVVDVWSGNHPFYLGNRSALMVDADQVEKFRKRFAGLSEIM 120

Query: 114 EIPVLKGEIVLP 125
           EIPVLKGEIV+P
Sbjct: 121 EIPVLKGEIVMP 132

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18410833|ref|NP_565109.1| 50S ribosomal protein L31 [Arabidopsis thaliana] gi|75172893|sp|Q9FWS4.1|RK31_ARATH RecName: Full=50S ribosomal protein L31, chloroplastic; AltName: Full=CL31; AltName: Full=Protein EMBRYO DEFECTIVE 2184; Flags: Precursor gi|189096149|pdb|3BBO|1 Chain 1, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome gi|10120448|gb|AAG13073.1|AC023754_11 Unknown protein [Arabidopsis thaliana] gi|13877927|gb|AAK44041.1|AF370226_1 putative chloroplast 50S ribosomal protein L31 [Arabidopsis thaliana] gi|16323460|gb|AAL15224.1| putative chloroplast 50S ribosomal protein L31 [Arabidopsis thaliana] gi|21593299|gb|AAM65248.1| chloroplast 50S ribosomal protein L31, putative [Arabidopsis thaliana] gi|332197584|gb|AEE35705.1| 50S ribosomal protein L31 [Arabidopsis thaliana]

 Score =  187 bits (475), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 88/132 (66%), Positives = 102/132 (77%), Gaps = 7/132 (5%)

Query: 1   MAQTLPNTFFQIKPSAPILPTRKVKNCAATGSGYRTR-------AVTCRKKDIHPQFYED 53
           MA +LPN+F QI P  P L  RK    A  G     R        +TCRKK++HP+F+ED
Sbjct: 1   MAVSLPNSFLQISPCVPSLQLRKPVMAAVKGGKQSVRRSSNTVVQITCRKKELHPEFHED 60

Query: 54  AKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIM 113
           AKVYCNGELVMTTGGT+KEYVVDVWSGNH FYLG RSA++VDADQVEKFR++F GLSEIM
Sbjct: 61  AKVYCNGELVMTTGGTKKEYVVDVWSGNHPFYLGNRSALMVDADQVEKFRKRFAGLSEIM 120

Query: 114 EIPVLKGEIVLP 125
           EIPVLKGEI++P
Sbjct: 121 EIPVLKGEIIMP 132

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449460241|ref|XP_004147854.1| PREDICTED: LOW QUALITY PROTEIN: 50S ribosomal protein L31, chloroplastic-like [Cucumis sativus]

 Score =  182 bits (462), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 89/126 (70%), Positives = 101/126 (80%), Gaps = 4/126 (3%)

Query: 1   MAQTLPNTFFQI-KPSAPILPTRKVKNCAATGSGYRTRAVTCRKKDIHPQFYEDAKVYCN 59
           MA  L N+F Q+ +P +P +   K K   A    YR   VTCRKKD+HPQFYEDAKVYCN
Sbjct: 30  MALNLTNSFLQLQRPISPAVAPPKRKESGARS--YRP-VVTCRKKDLHPQFYEDAKVYCN 86

Query: 60  GELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIMEIPVLK 119
           GELVMTTGGTQKEY VDVWSGNH FYLG RSA++VDADQVEKFR+KFG LS++MEIPVLK
Sbjct: 87  GELVMTTGGTQKEYSVDVWSGNHPFYLGSRSALLVDADQVEKFRKKFGELSQLMEIPVLK 146

Query: 120 GEIVLP 125
           GEI+LP
Sbjct: 147 GEIILP 152

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449476845|ref|XP_004154851.1| PREDICTED: LOW QUALITY PROTEIN: 50S ribosomal protein L31, chloroplastic-like [Cucumis sativus]

 Score =  182 bits (462), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 89/126 (70%), Positives = 101/126 (80%), Gaps = 4/126 (3%)

Query: 1   MAQTLPNTFFQI-KPSAPILPTRKVKNCAATGSGYRTRAVTCRKKDIHPQFYEDAKVYCN 59
           MA  L N+F Q+ +P +P +   K K   A    YR   VTCRKKD+HPQFYEDAKVYCN
Sbjct: 30  MALNLTNSFLQLQRPISPAVAPPKRKESGARS--YRP-VVTCRKKDLHPQFYEDAKVYCN 86

Query: 60  GELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIMEIPVLK 119
           GELVMTTGGTQKEY VDVWSGNH FYLG RSA++VDADQVEKFR+KFG LS++MEIPVLK
Sbjct: 87  GELVMTTGGTQKEYSVDVWSGNHPFYLGSRSALLVDADQVEKFRKKFGELSQLMEIPVLK 146

Query: 120 GEIVLP 125
           GEI+LP
Sbjct: 147 GEIILP 152

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307136371|gb|ADN34183.1| 50S ribosomal protein l31 [Cucumis melo subsp. melo]

 Score =  181 bits (460), Expect = 6e-44,   Method: Compositional matrix adjust.
 Identities = 86/125 (68%), Positives = 98/125 (78%), Gaps = 2/125 (1%)

Query: 1   MAQTLPNTFFQIKPSAPILPTRKVKNCAATGSGYRTRAVTCRKKDIHPQFYEDAKVYCNG 60
           MA  L N+F Q++   PI P         +G+      VTCRKKD+HPQFYEDAKVYCNG
Sbjct: 28  MALNLTNSFLQLQ--RPISPAVAPPKHKESGARSHRPVVTCRKKDLHPQFYEDAKVYCNG 85

Query: 61  ELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIMEIPVLKG 120
           ELVMTTGGTQKEY VDVWSGNH FYLG RSA++VDADQVEKFR+KFG LS++MEIPVLKG
Sbjct: 86  ELVMTTGGTQKEYSVDVWSGNHPFYLGSRSALLVDADQVEKFRKKFGELSQLMEIPVLKG 145

Query: 121 EIVLP 125
           EI+LP
Sbjct: 146 EIILP 150

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358348462|ref|XP_003638265.1| 50S ribosomal protein L31 [Medicago truncatula] gi|355504200|gb|AES85403.1| 50S ribosomal protein L31 [Medicago truncatula]

 Score =  178 bits (451), Expect = 7e-43,   Method: Compositional matrix adjust.
 Identities = 88/128 (68%), Positives = 101/128 (78%), Gaps = 3/128 (2%)

Query: 1   MAQTLPNTFFQIKPSAPILPTRKVKNCAATGSGYRTRAVTCRKKDIHPQFYEDAKVYCNG 60
           MAQ + NTF Q KP  P LPT+ ++N    G       V C+KKDIHP+F+EDAKVYCN 
Sbjct: 1   MAQCITNTFVQGKPFLP-LPTKNLQN--QKGKKVGNFGVYCKKKDIHPKFHEDAKVYCNN 57

Query: 61  ELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIMEIPVLKG 120
           ELVMTTGGTQKEYVVDVWSGNH FYLG RSA++V  DQVEKFR+KFG LS+IMEIPVLKG
Sbjct: 58  ELVMTTGGTQKEYVVDVWSGNHPFYLGNRSALMVSDDQVEKFRKKFGELSQIMEIPVLKG 117

Query: 121 EIVLPPKR 128
           EIV+P +R
Sbjct: 118 EIVIPSRR 125

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358348464|ref|XP_003638266.1| 50S ribosomal protein L31 [Medicago truncatula] gi|355504201|gb|AES85404.1| 50S ribosomal protein L31 [Medicago truncatula] gi|388495130|gb|AFK35631.1| unknown [Medicago truncatula]

 Score =  174 bits (442), Expect = 7e-42,   Method: Compositional matrix adjust.
 Identities = 87/128 (67%), Positives = 100/128 (78%), Gaps = 5/128 (3%)

Query: 1   MAQTLPNTFFQIKPSAPILPTRKVKNCAATGSGYRTRAVTCRKKDIHPQFYEDAKVYCNG 60
           MAQ + NTF Q KP  P LPT+  +     G+      V C+KKDIHP+F+EDAKVYCN 
Sbjct: 1   MAQCITNTFVQGKPFLP-LPTKNNQKGKKVGN----FGVYCKKKDIHPKFHEDAKVYCNN 55

Query: 61  ELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIMEIPVLKG 120
           ELVMTTGGTQKEYVVDVWSGNH FYLG RSA++V  DQVEKFR+KFG LS+IMEIPVLKG
Sbjct: 56  ELVMTTGGTQKEYVVDVWSGNHPFYLGNRSALMVSDDQVEKFRKKFGELSQIMEIPVLKG 115

Query: 121 EIVLPPKR 128
           EIV+P +R
Sbjct: 116 EIVIPSRR 123

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	139
TAIR|locus:2018442	144	emb2184 "embryo defective 2184	0.899	0.868	0.666	4.5e-43
TIGR_CMR|CJE_0151	66	CJE_0151 "ribosomal protein L3	0.438	0.924	0.415	2.6e-06
TIGR_CMR|CHY_2565	65	CHY_2565 "ribosomal protein L3	0.446	0.953	0.393	1.1e-05
TIGR_CMR|CBU_0905	79	CBU_0905 "ribosomal protein L3	0.446	0.784	0.369	1.9e-05
TIGR_CMR|DET_1327	68	DET_1327 "ribosomal protein L3	0.460	0.941	0.353	2.4e-05
TIGR_CMR|GSU_3107	65	GSU_3107 "ribosomal protein L3	0.453	0.969	0.338	8.1e-05
TIGR_CMR|SO_4120	70	SO_4120 "ribosomal protein L31	0.482	0.957	0.314	0.00045
TIGR_CMR|SPO_3256	73	SPO_3256 "ribosomal protein L3	0.474	0.904	0.295	0.00073
UNIPROTKB|P66187	80	rpmE "50S ribosomal protein L3	0.453	0.787	0.328	0.00093

TAIR|locus:2018442 emb2184 "embryo defective 2184" [Arabidopsis thaliana (taxid:3702)]

 Score = 455 (165.2 bits), Expect = 4.5e-43, P = 4.5e-43
 Identities = 88/132 (66%), Positives = 102/132 (77%)

Query:     1 MAQTLPNTFFQIKPSAPILPTRKVKNCAATGSGYRTRA-------VTCRKKDIHPQFYED 53
             MA +LPN+F QI P  P L  RK    A  G     R        +TCRKK++HP+F+ED
Sbjct:     1 MAVSLPNSFLQISPCVPSLQLRKPVMAAVKGGKQSVRRSSNTVVQITCRKKELHPEFHED 60

Query:    54 AKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIM 113
             AKVYCNGELVMTTGGT+KEYVVDVWSGNH FYLG RSA++VDADQVEKFR++F GLSEIM
Sbjct:    61 AKVYCNGELVMTTGGTKKEYVVDVWSGNHPFYLGNRSALMVDADQVEKFRKRFAGLSEIM 120

Query:   114 EIPVLKGEIVLP 125
             EIPVLKGEI++P
Sbjct:   121 EIPVLKGEIIMP 132

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

GO:0005840 "ribosome" evidence=ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM;IDA

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

GO:0042254 "ribosome biogenesis" evidence=ISS

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0006098 "pentose-phosphate shunt" evidence=RCA

GO:0006364 "rRNA processing" evidence=RCA

GO:0009657 "plastid organization" evidence=RCA

GO:0009773 "photosynthetic electron transport in photosystem I" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0015979 "photosynthesis" evidence=RCA

GO:0015995 "chlorophyll biosynthetic process" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

TIGR_CMR|CJE_0151 CJE_0151 "ribosomal protein L31" [Campylobacter jejuni RM1221 (taxid:195099)]

 Score = 108 (43.1 bits), Expect = 2.6e-06, P = 2.6e-06
 Identities = 27/65 (41%), Positives = 38/65 (58%)

Query:    43 KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDA-DQVEK 101
             KK+IHP++ E  KV C      TT   + E  VD+ S  H F+ G  S  +VDA  +VEK
Sbjct:     2 KKEIHPEYVE-CKVSCACGNTFTTKSNKAELRVDICSNCHPFFTG--SEKIVDAAGRVEK 58

Query:   102 FRQKF 106
             F++K+
Sbjct:    59 FKKKY 63

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

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|CHY_2565 CHY_2565 "ribosomal protein L31" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 102 (41.0 bits), Expect = 1.1e-05, P = 1.1e-05
 Identities = 26/66 (39%), Positives = 37/66 (56%)

Query:    43 KKDIHPQFYEDAKVYCN-GELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEK 101
             K  IHP+ Y  A+V C  GE    TG T+KE  V++ S  H FY G +  V     + E+
Sbjct:     2 KPGIHPE-YGKARVICACGE-TFETGSTKKEIRVEICSKCHPFYTGSQRTVEARG-RAEQ 58

Query:   102 FRQKFG 107
             F++K+G
Sbjct:    59 FKKKYG 64

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|CBU_0905 CBU_0905 "ribosomal protein L31" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 100 (40.3 bits), Expect = 1.9e-05, P = 1.9e-05
 Identities = 24/65 (36%), Positives = 38/65 (58%)

Query:    43 KKDIHPQFYEDAKVYCN-GELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEK 101
             K++IHP  Y+  KV C+ G   MT     +E  +++ S  H FY G +  +V  A +VE+
Sbjct:     2 KENIHPP-YKQIKVTCSCGNTFMTGSTLDRELHLEICSACHPFYTG-QQKMVDTAGRVER 59

Query:   102 FRQKF 106
             FR+K+
Sbjct:    60 FRKKY 64

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|DET_1327 DET_1327 "ribosomal protein L31" [Dehalococcoides ethenogenes 195 (taxid:243164)]

 Score = 99 (39.9 bits), Expect = 2.4e-05, P = 2.4e-05
 Identities = 23/65 (35%), Positives = 35/65 (53%)

Query:    43 KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKF 102
             K+ IHP++     V C      T G T+    V++ +  H FY G +  +V  A +VEKF
Sbjct:     2 KEKIHPKYNTATNVSCACGNTFTVGSTKDSIKVELCAQCHPFYTGEKR-MVDTAGRVEKF 60

Query:   103 RQKFG 107
             RQ++G
Sbjct:    61 RQRYG 65

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

GO:0006412 "translation" evidence=ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

TIGR_CMR|GSU_3107 GSU_3107 "ribosomal protein L31" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 94 (38.1 bits), Expect = 8.1e-05, P = 8.1e-05
 Identities = 22/65 (33%), Positives = 35/65 (53%)

Query:    43 KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKF 102
             K+ IHP+ Y D  V C       T  T+ E   ++ S  H F+ G +  ++  A +VE+F
Sbjct:     2 KEGIHPK-YNDVMVKCACGNSFQTRSTKTEISTEICSACHPFFTG-KQKLIDTAGRVERF 59

Query:   103 RQKFG 107
             R+K+G
Sbjct:    60 RKKYG 64

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

GO:0006412 "translation" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|SO_4120 SO_4120 "ribosomal protein L31" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 87 (35.7 bits), Expect = 0.00045, P = 0.00045
 Identities = 22/70 (31%), Positives = 35/70 (50%)

Query:    43 KKDIHPQFYE-DAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEK 101
             K  IHP++ E  A   C G ++       K+  +DV    H FY G +  VV    +++K
Sbjct:     2 KPGIHPEYAEITANCTC-GNVIKVNSTVGKDLHLDVCGACHPFYTGTQK-VVDTGGRIDK 59

Query:   102 FRQKFGGLSE 111
             F ++FG L +
Sbjct:    60 FNKRFGMLGK 69

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|SPO_3256 SPO_3256 "ribosomal protein L31" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 85 (35.0 bits), Expect = 0.00073, P = 0.00072
 Identities = 21/71 (29%), Positives = 42/71 (59%)

Query:    43 KKDIHPQFYE-DAKVYCNGELVM--TTGGTQKEYV-VDVWSGNHAFYLGGRSAVVVDADQ 98
             KKDIHP ++  D K+  +G ++   +T G + + + +++   +H  + GG S ++    +
Sbjct:     2 KKDIHPDYHMIDVKL-TDGTVIQMKSTWGKEGDTLSLEIDPSSHPAWTGGSSRLMDTGGR 60

Query:    99 VEKFRQKFGGL 109
             V KF++K+ GL
Sbjct:    61 VSKFKKKYEGL 71

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

GO:0006412 "translation" evidence=ISS

GO:0042255 "ribosome assembly" evidence=ISS

UNIPROTKB|P66187 rpmE "50S ribosomal protein L31" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 84 (34.6 bits), Expect = 0.00093, P = 0.00093
 Identities = 22/67 (32%), Positives = 33/67 (49%)

Query:    43 KKDIHPQFYEDAKVYCNGELVMTTGGTQK--EYVVDVWSGNHAFYLGGRSAVVVDADQVE 100
             K DIHP  YE+  V C       T  T+     VV+V S  H FY G +  ++    +V 
Sbjct:     2 KSDIHPA-YEETTVVCGCGNTFQTRSTKPGGRIVVEVCSQCHPFYTG-KQKILDSGGRVA 59

Query:   101 KFRQKFG 107
             +F +++G
Sbjct:    60 RFEKRYG 66


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.320   0.136   0.414    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      139       126   0.00091  102 3  11 22  0.38    31
                                                     29  0.40    33


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  9
  No. of states in DFA:  587 (62 KB)
  Total size of DFA:  132 KB (2082 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  12.16u 0.10s 12.26t   Elapsed:  00:00:00
  Total cpu time:  12.16u 0.10s 12.26t   Elapsed:  00:00:01
  Start:  Sat May 11 07:05:35 2013   End:  Sat May 11 07:05:36 2013

GO:0040007 "growth" evidence=IMP

---

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)
Q9FWS4	RK31_ARATH	No assigned EC number	0.6666	0.8992	0.8680	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	139
CHL00136	68	CHL00136, rpl31, ribosomal protein L31; Validated	9e-26
PRK00528	71	PRK00528, rpmE, 50S ribosomal protein L31; Reviewe	1e-19
pfam01197	69	pfam01197, Ribosomal_L31, Ribosomal protein L31	3e-14
TIGR00105	68	TIGR00105, L31, ribosomal protein L31	8e-13
COG0254	75	COG0254, RpmE, Ribosomal protein L31 [Translation,	1e-12
PRK00019	72	PRK00019, rpmE, 50S ribosomal protein L31; Reviewe	8e-10
PRK01678	87	PRK01678, rpmE2, 50S ribosomal protein L31 type B;	0.002

>gnl|CDD|177058 CHL00136, rpl31, ribosomal protein L31; Validated

 Score = 92.0 bits (229), Expect = 9e-26
 Identities = 35/67 (52%), Positives = 50/67 (74%), Gaps = 3/67 (4%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDAD-QVEK 101
           KK+IHPQ++ + KVYC+G+LVMT G T+ E  VD+WSGNH FY G  S  ++D + +VE+
Sbjct: 3   KKNIHPQWFPETKVYCDGQLVMTVGSTKPELNVDIWSGNHPFYTG--SQKIIDTEGRVER 60

Query: 102 FRQKFGG 108
           F +K+G 
Sbjct: 61  FMKKYGL 67

Length = 68

>gnl|CDD|179057 PRK00528, rpmE, 50S ribosomal protein L31; Reviewed

 Score = 76.1 bits (188), Expect = 1e-19
 Identities = 27/70 (38%), Positives = 37/70 (52%), Gaps = 3/70 (4%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTT---GGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQV 99
           KKDIHP ++    V  +G    T    G T  E  +D+ SGNH  + GG   ++    +V
Sbjct: 2   KKDIHPDYHPIKVVMTDGTEYETRSTWGKTGPELRLDIDSGNHPAWTGGTQKLLDTGGRV 61

Query: 100 EKFRQKFGGL 109
            KF +KFGGL
Sbjct: 62  AKFNKKFGGL 71

Length = 71

>gnl|CDD|216357 pfam01197, Ribosomal_L31, Ribosomal protein L31

 Score = 62.6 bits (153), Expect = 3e-14
 Identities = 27/70 (38%), Positives = 38/70 (54%), Gaps = 7/70 (10%)

Query: 43  KKDIHPQFYEDAKVYCNG-ELVMTTGGTQKEYV--VDVWSGNHAFYLGGRSAVVVDAD-Q 98
           KK IHP+ Y +    C+    V  TG T++  V  +DV S  H FY G +   +VD   +
Sbjct: 2   KKGIHPE-YREVVFTCSSCGNVFVTGSTKEYPVIKIDVCSACHPFYTGKQK--LVDTAGR 58

Query: 99  VEKFRQKFGG 108
           VEKF ++FG 
Sbjct: 59  VEKFNKRFGK 68

Length = 69

>gnl|CDD|129211 TIGR00105, L31, ribosomal protein L31

 Score = 58.8 bits (143), Expect = 8e-13
 Identities = 29/70 (41%), Positives = 37/70 (52%), Gaps = 6/70 (8%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYV--VDVWSGNHAFYLGGRSAVVVDAD-QV 99
           KKDIHP  Y +  V C    V TT  T  +    +D+ S  H FY G     +VD   +V
Sbjct: 2   KKDIHPD-YHEITVTCTCGNVFTTRSTWGKETLNLDICSKCHPFYTG--KQKIVDTGGRV 58

Query: 100 EKFRQKFGGL 109
           +KF +KFGGL
Sbjct: 59  DKFNKKFGGL 68

This family consists exclusively of bacterial (and organellar) 50S ribosomal protein L31. In some species, such as Bacillus subtilis, this protein exists in two forms (RpmE and YtiA), one of which (RpmE) contains a pair of motifs, CXC and CXXC, for binding zinc [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 68

>gnl|CDD|223332 COG0254, RpmE, Ribosomal protein L31 [Translation, ribosomal structure and biogenesis]

 Score = 58.5 bits (142), Expect = 1e-12
 Identities = 28/72 (38%), Positives = 38/72 (52%), Gaps = 6/72 (8%)

Query: 43  KKDIHPQFYEDAKVYC-NGELVMTTGGT--QKEYVVDVWSGNHAFYLGGRSAVVVDAD-Q 98
           KKDIHP++Y      C +     TT  T    E  +DV S  H FY G +   +VD + +
Sbjct: 2   KKDIHPEYYRPVVFVCSSCGNEFTTRSTKGTDEINLDVCSKCHPFYTGKQK--IVDTEGR 59

Query: 99  VEKFRQKFGGLS 110
           VEKF ++FGG  
Sbjct: 60  VEKFNKRFGGFK 71

Length = 75

>gnl|CDD|234576 PRK00019, rpmE, 50S ribosomal protein L31; Reviewed

 Score = 51.5 bits (124), Expect = 8e-10
 Identities = 28/67 (41%), Positives = 37/67 (55%), Gaps = 4/67 (5%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGT--QKEYVVDVWSGNHAFYLGGRSAVVVDADQVE 100
           KKDIHP+ YE+  V C+   V  T  T  + E  VDV S  H FY G +  V     +VE
Sbjct: 2   KKDIHPK-YEEVTVTCSCGNVFETRSTLGKDEINVDVCSKCHPFYTGKQKIVDT-GGRVE 59

Query: 101 KFRQKFG 107
           +F ++FG
Sbjct: 60  RFNKRFG 66

Length = 72

>gnl|CDD|234969 PRK01678, rpmE2, 50S ribosomal protein L31 type B; Reviewed

 Score = 35.2 bits (82), Expect = 0.002
 Identities = 24/82 (29%), Positives = 34/82 (41%), Gaps = 19/82 (23%)

Query: 43  KKDIHPQFYE--------DAKVYCNGELVMTTGGTQ-----KEY---VVDVWSGNHAFYL 86
           KK IHP++            K        +TT  T      K Y    V++ S +H FY 
Sbjct: 2   KKGIHPEYRPVVFHDTSTGFKFLTGS--TITTDETIEWEDGKTYPLVKVEISSASHPFYT 59

Query: 87  GGRSAVVVDADQVEKFRQKFGG 108
           G +   V    +VEKF ++FG 
Sbjct: 60  G-KQKFVDTEGRVEKFNKRFGR 80

Length = 87

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	139
CHL00136	68	rpl31 ribosomal protein L31; Validated	100.0
PRK00019	72	rpmE 50S ribosomal protein L31; Reviewed	100.0
COG0254	75	RpmE Ribosomal protein L31 [Translation, ribosomal	100.0
TIGR00105	68	L31 ribosomal protein L31. This family consists ex	100.0
PRK01678	87	rpmE2 50S ribosomal protein L31 type B; Reviewed	100.0
PRK01397	78	50S ribosomal protein L31; Provisional	100.0
PRK00528	71	rpmE 50S ribosomal protein L31; Reviewed	99.97
PF01197	69	Ribosomal_L31: Ribosomal protein L31; InterPro: IP	99.96

>CHL00136 rpl31 ribosomal protein L31; Validated

Probab=100.00  E-value=9.6e-35  Score=200.60  Aligned_cols=66  Identities=50%  Similarity=1.028  Sum_probs=63.4

Q ss_pred             cCCCCCCCCCcceeEEEeCCCeEEEEeeeeCcEEEeecCCCCCcccCceeeeeecchhHHHHHHHhc
Q 032493           41 CRKKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFG  107 (139)
Q Consensus        41 ~MKK~IHP~y~~vv~v~cs~g~~~~~gST~~~i~vDIcS~cHPFYTGkqk~~vdt~GRVeKFnKKfg  107 (139)
                      +||+||||+|+.++.|.|+|+++|+++||.++|.|||||+|||||||+|+ ++|++|||||||+||+
T Consensus         1 mMKk~IHP~y~~~~~v~c~~~~~~~~~ST~~~i~vdv~s~~HPfyTG~~~-~~~~~Grv~kF~kr~~   66 (68)
T CHL00136          1 MPKKNIHPQWFPETKVYCDGQLVMTVGSTKPELNVDIWSGNHPFYTGSQK-IIDTEGRVERFMKKYG   66 (68)
T ss_pred             CCCCCCCCCceeeEEEEEcCCCEEEEeecCCCEEEEeCCCCCccCcCCee-EecccccHHHHHHHhC
Confidence            59999999998788999999999999999999999999999999999986 8999999999999998

>PRK00019 rpmE 50S ribosomal protein L31; Reviewed

Probab=100.00  E-value=8.6e-34  Score=197.70  Aligned_cols=67  Identities=40%  Similarity=0.628  Sum_probs=61.0

Q ss_pred             CCCCCCCCCcceeEEEeCCCeEEEEeeee--CcEEEeecCCCCCcccCceeeeeecchhHHHHHHHhcCCc
Q 032493           42 RKKDIHPQFYEDAKVYCNGELVMTTGGTQ--KEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLS  110 (139)
Q Consensus        42 MKK~IHP~y~~vv~v~cs~g~~~~~gST~--~~i~vDIcS~cHPFYTGkqk~~vdt~GRVeKFnKKfg~~~  110 (139)
                      ||+||||+|++ +.+.|+||..|+++||.  ++|.|||||+|||||||+|+ ++|++|||||||+||+.+.
T Consensus         1 MKk~IHP~y~~-v~~~c~~g~~f~~~ST~~~~~i~vdi~s~~HPFyTG~q~-~~dt~GRvekF~kry~~~~   69 (72)
T PRK00019          1 MKKDIHPKYEE-VTVTCSCGNVFETRSTLGKDEINVDVCSKCHPFYTGKQK-IVDTGGRVERFNKRFGKKG   69 (72)
T ss_pred             CCCCCCCCCEE-EEEEECCCCEEEEeecCCCCcEEEEeCCCCCCcCcCCEe-EeccCCcHHHHHHHhcccc
Confidence            99999999987 56668899999999994  56999999999999999987 8999999999999999753

>COG0254 RpmE Ribosomal protein L31 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.7e-33  Score=197.99  Aligned_cols=69  Identities=39%  Similarity=0.667  Sum_probs=61.3

Q ss_pred             CCCCCCCCCcceeEEEeC-CCeEEEEeeee--CcEEEeecCCCCCcccCceeeeeecchhHHHHHHHhcCCcc
Q 032493           42 RKKDIHPQFYEDAKVYCN-GELVMTTGGTQ--KEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSE  111 (139)
Q Consensus        42 MKK~IHP~y~~vv~v~cs-~g~~~~~gST~--~~i~vDIcS~cHPFYTGkqk~~vdt~GRVeKFnKKfg~~~~  111 (139)
                      ||+||||+|+..+.+.|+ |++.|+++||.  ++|+|||||.|||||||+|+ ++|++|||||||+||+.+..
T Consensus         1 MKk~IHP~y~~~v~~~~~s~g~~f~~~ST~~~~~i~vdV~s~~HPFyTG~qk-~~d~~Grv~kF~kRf~~~~~   72 (75)
T COG0254           1 MKKDIHPEYYRPVVFVCSSCGNEFTTRSTKGTDEINLDVCSKCHPFYTGKQK-IVDTEGRVEKFNKRFGGFKG   72 (75)
T ss_pred             CCCCcCCCccceEEEEeCCCCCEEEEEeccCCceEEEEeCCCCCCcCcCcee-EeeccccHHHHHHHhccccc
Confidence            999999997444555564 99999999999  48999999999999999997 99999999999999998644

>TIGR00105 L31 ribosomal protein L31

Probab=100.00  E-value=2.5e-33  Score=192.76  Aligned_cols=65  Identities=40%  Similarity=0.640  Sum_probs=60.4

Q ss_pred             CCCCCCCCCcceeEEEeCCCeEEEEeeeeCc--EEEeecCCCCCcccCceeeeeecchhHHHHHHHhcC
Q 032493           42 RKKDIHPQFYEDAKVYCNGELVMTTGGTQKE--YVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGG  108 (139)
Q Consensus        42 MKK~IHP~y~~vv~v~cs~g~~~~~gST~~~--i~vDIcS~cHPFYTGkqk~~vdt~GRVeKFnKKfg~  108 (139)
                      ||+||||+|+++.++ |+||..|+++||.++  |.|||||+|||||||+|+ ++|++|||||||+||+.
T Consensus         1 MKk~IHP~y~~v~~~-~s~g~~f~~~ST~~~~~i~vdi~s~~HPfyTG~~~-~~~~~GRv~KF~kry~~   67 (68)
T TIGR00105         1 MKKDIHPDYHEITVT-CTCGNVFTTRSTWGKETLNLDICSKCHPFYTGKQK-IVDTGGRVDKFNKKFGG   67 (68)
T ss_pred             CCCCCCCCCEEEEEE-ECCCCEEEEeeecCCceEEEEECCCCcccCCCceE-EeccCCcHHHHHHHhcC
Confidence            999999999986555 999999999999976  999999999999999886 89999999999999985

This family consists exclusively of bacterial (and organellar) 50S ribosomal protein L31. In some species, such as Bacillus subtilis, this protein exists in two forms (RpmE and YtiA), one of which (RpmE) contains a pair of motifs, CXC and CXXC, for binding zinc.

>PRK01678 rpmE2 50S ribosomal protein L31 type B; Reviewed

Probab=100.00  E-value=2.4e-33  Score=201.69  Aligned_cols=69  Identities=30%  Similarity=0.464  Sum_probs=63.8

Q ss_pred             CCCCCCCCCcceeEEEeCCCeEEEEeeeeC--------------cEEEeecCCCCCcccCceeeeeecchhHHHHHHHhc
Q 032493           42 RKKDIHPQFYEDAKVYCNGELVMTTGGTQK--------------EYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFG  107 (139)
Q Consensus        42 MKK~IHP~y~~vv~v~cs~g~~~~~gST~~--------------~i~vDIcS~cHPFYTGkqk~~vdt~GRVeKFnKKfg  107 (139)
                      ||+||||+|++++|.+|+||..|.++||.+              +|.|||||+|||||||+|+ ++|++|||||||+||+
T Consensus         1 MKk~IHP~y~~v~~~~~t~g~~f~~~ST~~~~~t~~~~dg~~yp~i~vdi~S~~HPFyTGkq~-~vdt~GRVekF~kry~   79 (87)
T PRK01678          1 MKKGIHPEYRPVVFHDTSTGFKFLTGSTITTDETIEWEDGKTYPLVKVEISSASHPFYTGKQK-FVDTEGRVEKFNKRFG   79 (87)
T ss_pred             CCCCCCCCCEEEEEEECCCCCEEEEeeeccccceeeecCCcccceEEEEeCCCCCCcCcCCee-EeccCCcHHHHHHHHh
Confidence            999999999998888899999999999875              5999999999999999987 9999999999999999


Q ss_pred             CCcc
Q 032493          108 GLSE  111 (139)
Q Consensus       108 ~~~~  111 (139)
                      .+..
T Consensus        80 ~~~~   83 (87)
T PRK01678         80 RFAS   83 (87)
T ss_pred             hhhh
Confidence            7643

>PRK01397 50S ribosomal protein L31; Provisional

Probab=100.00  E-value=4.8e-33  Score=196.66  Aligned_cols=73  Identities=27%  Similarity=0.302  Sum_probs=62.8

Q ss_pred             CCCCCCCCCcceeEEEeCCCeEEEEeeee--CcEEEeecCCCCCcccCceeeeeec-chhHHHHHHHhcCCccccccc
Q 032493           42 RKKDIHPQFYEDAKVYCNGELVMTTGGTQ--KEYVVDVWSGNHAFYLGGRSAVVVD-ADQVEKFRQKFGGLSEIMEIP  116 (139)
Q Consensus        42 MKK~IHP~y~~vv~v~cs~g~~~~~gST~--~~i~vDIcS~cHPFYTGkqk~~vdt-~GRVeKFnKKfg~~~~~~~~~  116 (139)
                      ||+||||+|+++++ .| ||..|.++||.  ++|+|||||+|||||||+|+.++|+ +|||||||+||+.+...+.++
T Consensus         1 MKk~IHP~y~~v~~-~~-~G~~f~~~ST~~~~~i~vdi~s~~HPFyTG~q~~~vdt~~GRVeKF~kry~~~~~~~~~~   76 (78)
T PRK01397          1 MKSGIHPEYKKFLI-KV-GSDVFETMSTHPTGEILMDVDFRKHPAWNKDSGNVVNQSNKSVSDFNKRFSGLSFGSKKE   76 (78)
T ss_pred             CCCCCCCCCEEEEE-EE-CCCEEEEeECCCCCcEEEEeCCCCCCcCcCCeeEEecCCCccHHHHHHHHcCcccccccc
Confidence            99999999998665 47 79999999998  5799999999999999998645786 799999999999986544443

>PRK00528 rpmE 50S ribosomal protein L31; Reviewed

Probab=99.97  E-value=1.2e-32  Score=190.86  Aligned_cols=66  Identities=35%  Similarity=0.504  Sum_probs=59.8

Q ss_pred             CCCCCCCCCcceeEEEeCCCeEEEEeee----eCcEEEeecCCCCCccc-CceeeeeecchhHHHHHHHhcCC
Q 032493           42 RKKDIHPQFYEDAKVYCNGELVMTTGGT----QKEYVVDVWSGNHAFYL-GGRSAVVVDADQVEKFRQKFGGL  109 (139)
Q Consensus        42 MKK~IHP~y~~vv~v~cs~g~~~~~gST----~~~i~vDIcS~cHPFYT-Gkqk~~vdt~GRVeKFnKKfg~~  109 (139)
                      ||+||||+|+++++ .|+||..|++.||    +++|+|||||+|||||| |+|+ ++|++|||||||+||+.+
T Consensus         1 MKk~IHP~y~~v~~-~~~~g~~f~~~ST~g~~~~~i~vdv~s~~HPfyT~G~q~-~~d~~GRv~kF~kky~~l   71 (71)
T PRK00528          1 MKKDIHPDYHPIKV-VMTDGTEYETRSTWGKTGPELRLDIDSGNHPAWTGGTQK-LLDTGGRVAKFNKKFGGL   71 (71)
T ss_pred             CCCCCCCCCEEEEE-EEeCCCEEEEEEcCCCCCCeEEEEECCCCCccEeCCcCe-EecccCcHHHHHHHHccC
Confidence            99999999998655 5889999999875    67899999999999999 9886 999999999999999864

>PF01197 Ribosomal_L31: Ribosomal protein L31; InterPro: IPR002150 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.96  E-value=6.6e-32  Score=185.87  Aligned_cols=65  Identities=43%  Similarity=0.649  Sum_probs=57.5

Q ss_pred             CCCCCCCCCcceeEEEeC-CCeEEEEeeeeCc--EEEeecCCCCCcccCceeeeeecchhHHHHHHHhcC
Q 032493           42 RKKDIHPQFYEDAKVYCN-GELVMTTGGTQKE--YVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGG  108 (139)
Q Consensus        42 MKK~IHP~y~~vv~v~cs-~g~~~~~gST~~~--i~vDIcS~cHPFYTGkqk~~vdt~GRVeKFnKKfg~  108 (139)
                      ||+||||+|++ +.|.|+ ||..|.++||.+.  |.|||||+|||||||+++ ++|++|||||||+||+.
T Consensus         1 MKk~IHP~y~~-v~v~c~s~g~~~~~~St~~~~~~~vdi~s~~HPfytG~~~-~~~~~Grv~KF~kkf~~   68 (69)
T PF01197_consen    1 MKKGIHPEYRE-VKVTCSSCGNTFETRSTKEYPVIKVDICSNCHPFYTGKQK-VVDTAGRVEKFNKKFGK   68 (69)
T ss_dssp             --SSTSSSHCE-EEEEES-SSSCECECSSSSES-EEECSCSSSSCTTCSCSS-CSCCCCCCTSCCTCCCC
T ss_pred             CCCCCCCCCEE-EEEEEcCCCCEEEEEECCcceEEEEeecCCCCEEEcCcEE-EEccccCHHHHHHHHcC
Confidence            89999999987 566666 9999999999865  999999999999999876 89999999999999985

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L31 is one of the proteins from the large ribosomal subunit. L31 is a protein of 66 to 97 amino-acid residues which has only been found so far in bacteria and in some plant and algal chloroplasts.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3D5D_4 3PYO_1 3D5B_4 3PYV_1 3PYT_1 3MRZ_1 3MS1_1 3PYR_1 3F1F_4 3F1H_4 ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	139
3bbo_1	144	Homology Model For The Spinach Chloroplast 50s Subu		3e-48
1nkw_Y	73	Crystal Structure Of The Large Ribosomal Subunit Fr		7e-06

>pdb|3BBO|1 Chain 1, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 144

Iteration: 1
 Score =  186 bits (473), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 88/132 (66%), Positives = 102/132 (77%), Gaps = 7/132 (5%)
Query: 1   MAQTLPNTFFQIKPSAPILPTRKVKNCAATGSGYRTR-------AVTCRKKDIHPQFYED 53
           MA +LPN+F QI P  P L  RK    A  G     R        +TCRKK++HP+F+ED
Sbjct: 1   MAVSLPNSFLQISPCVPSLQLRKPVMAAVKGGKQSVRRSSNTVVQITCRKKELHPEFHED 60
Query: 54  AKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIM 113
           AKVYCNGELVMTTGGT+KEYVVDVWSGNH FYLG RSA++VDADQVEKFR++F GLSEIM
Sbjct: 61  AKVYCNGELVMTTGGTKKEYVVDVWSGNHPFYLGNRSALMVDADQVEKFRKRFAGLSEIM 120
Query: 114 EIPVLKGEIVLP 125
           EIPVLKGEI++P
Sbjct: 121 EIPVLKGEIIMP 132

>pdb|1NKW|Y Chain Y, Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans Length = 73

Iteration: 1
 Score = 45.8 bits (107), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 25/65 (38%), Positives = 39/65 (60%), Gaps = 2/65 (3%)
Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKF 102
           +KD+HP+     K+   G++VM T  T+ E  VDVWSG H F+ G    +  +  +V+KF
Sbjct: 2   QKDLHPKAVP-CKIIYQGQVVMETMSTRPEIHVDVWSGVHPFWTGEERFLDTEG-RVDKF 59
Query: 103 RQKFG 107
            ++FG
Sbjct: 60  NKRFG 64

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	139
3bbo_1	144	Ribosomal protein L31; large ribosomal subunit, sp	4e-38
1nkw_Y	73	50S ribosomal protein L31; ribosome, large subunit	1e-18
3v2d_4	71	50S ribosomal protein L31; ribosome associated inh	2e-18
3f1f_4	97	50S ribosomal protein L31; RF2, ribosome, terminat	8e-18
1vs6_Z	70	50S ribosomal protein L31; ribosome, kasugamycin;	6e-15

>3bbo_1 Ribosomal protein L31; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 144

 Score =  125 bits (315), Expect = 4e-38
 Identities = 88/144 (61%), Positives = 104/144 (72%), Gaps = 7/144 (4%)

Query: 1   MAQTLPNTFFQIKPSAPILPTRK-------VKNCAATGSGYRTRAVTCRKKDIHPQFYED 53
           MA +LPN+F QI P  P L  RK           +   S      +TCRKK++HP+F+ED
Sbjct: 1   MAVSLPNSFLQISPCVPSLQLRKPVMAAVKGGKQSVRRSSNTVVQITCRKKELHPEFHED 60

Query: 54  AKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIM 113
           AKVYCNGELVMTTGGT+KEYVVDVWSGNH FYLG RSA++VDADQVEKFR++F GLSEIM
Sbjct: 61  AKVYCNGELVMTTGGTKKEYVVDVWSGNHPFYLGNRSALMVDADQVEKFRKRFAGLSEIM 120

Query: 114 EIPVLKGEIVLPPKRKSAAAKGGK 137
           EIPVLKGEI++P K+        K
Sbjct: 121 EIPVLKGEIIMPTKKSKGPKGKKK 144

>1nkw_Y 50S ribosomal protein L31; ribosome, large subunit, X- RAY structure, peptidyl-transferase, peptide bond formation; 3.10A {Deinococcus radiodurans} SCOP: i.1.1.2 PDB: 1nwx_Y* 1nwy_Y* 1pnu_Y 1pny_Y 1sm1_Y* 1vor_1 1vou_1 1vow_1 1voy_1 1vp0_1 1xbp_Y* 1yl3_4 2b66_4 2b9n_4 2b9p_4 Length = 73

 Score = 73.4 bits (181), Expect = 1e-18
 Identities = 26/70 (37%), Positives = 40/70 (57%), Gaps = 4/70 (5%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDAD-QVEK 101
           +KD+HP+     K+   G++VM T  T+ E  VDVWSG H F+ G      +D + +V+K
Sbjct: 2   QKDLHPK-AVPCKIIYQGQVVMETMSTRPEIHVDVWSGVHPFWTG--EERFLDTEGRVDK 58

Query: 102 FRQKFGGLSE 111
           F ++FG    
Sbjct: 59  FNKRFGDSYR 68

>3v2d_4 50S ribosomal protein L31; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgq_3 2hgj_3 2hgu_3 2j03_4 2v47_4 2v49_4 2wdi_4 2wdj_4 2wdl_4 2wdn_4 2wh2_4 2wrj_4 2wrl_4 2wro_4 2wrr_4 2x9s_4 2x9u_4 2xg0_4 2xg2_4 2xqe_4 ... Length = 71

 Score = 73.0 bits (180), Expect = 2e-18
 Identities = 23/70 (32%), Positives = 38/70 (54%), Gaps = 4/70 (5%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDAD-QVEK 101
           K+ IHP+    A++ C    V+ T  T+ E  V+V S  H FY G +    VD + +VE+
Sbjct: 2   KEGIHPK-LVPARIICGCGNVIETYSTKPEIYVEVCSKCHPFYTGQQR--FVDTEGRVER 58

Query: 102 FRQKFGGLSE 111
           F++++G    
Sbjct: 59  FQRRYGDSYR 68

>3f1f_4 50S ribosomal protein L31; RF2, ribosome, termination, tRNA; 3.00A {Thermus thermophilus} PDB: 3d5d_4 3d5b_4 3f1h_4 Length = 97

 Score = 72.1 bits (177), Expect = 8e-18
 Identities = 23/70 (32%), Positives = 38/70 (54%), Gaps = 4/70 (5%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDAD-QVEK 101
           K+ IHP+    A++ C    V+ T  T+ E  V+V S  H FY G +    VD + +VE+
Sbjct: 28  KEGIHPK-LVPARIICGCGNVIETYSTKPEIYVEVCSKCHPFYTGQQR--FVDTEGRVER 84

Query: 102 FRQKFGGLSE 111
           F++++G    
Sbjct: 85  FQRRYGDSYR 94

>1vs6_Z 50S ribosomal protein L31; ribosome, kasugamycin; 3.46A {Escherichia coli} SCOP: d.325.1.2 PDB: 1vs8_Z 2aw4_Z 2awb_Z 2j28_Z 2rdo_Z 2vhm_Z 2vhn_Z 3bbx_Z 3e1b_S 3e1d_S 3iyx_A 3iyy_A 3izt_b* 3izu_b* 3j0t_2* 3j0w_2* 3j0y_2* 3j11_2* 3j12_2* 3j14_2* Length = 70

 Score = 63.8 bits (156), Expect = 6e-15
 Identities = 22/70 (31%), Positives = 34/70 (48%), Gaps = 3/70 (4%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGT-QKEYVVDVWSGNHAFYLGGRSAVVVDADQVEK 101
           KKDIHP+ YE+    C+   VM    T   +  +DV S  H F+ G +   V    +V++
Sbjct: 2   KKDIHPK-YEEITASCSCGNVMKIRSTVGHDLNLDVCSKCHPFFTGKQ-RDVATGGRVDR 59

Query: 102 FRQKFGGLSE 111
           F ++F     
Sbjct: 60  FNKRFNIPGS 69

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	139
3bbo_1	144	Ribosomal protein L31; large ribosomal subunit, sp	100.0
1nkw_Y	73	50S ribosomal protein L31; ribosome, large subunit	100.0
3v2d_4	71	50S ribosomal protein L31; ribosome associated inh	100.0
3f1f_4	97	50S ribosomal protein L31; RF2, ribosome, terminat	99.98
1vs6_Z	70	50S ribosomal protein L31; ribosome, kasugamycin;	99.97

>3bbo_1 Ribosomal protein L31; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=100.00  E-value=2.3e-46  Score=288.53  Aligned_cols=137  Identities=66%  Similarity=1.093  Sum_probs=69.3

Q ss_pred             CCccCcccceeccCCCCCcCcccc-------ccccccCccccccccccCCCCCCCCCcceeEEEeCCCeEEEEeeeeCcE
Q 032493            1 MAQTLPNTFFQIKPSAPILPTRKV-------KNCAATGSGYRTRAVTCRKKDIHPQFYEDAKVYCNGELVMTTGGTQKEY   73 (139)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~MKK~IHP~y~~vv~v~cs~g~~~~~gST~~~i   73 (139)
                      ||++|+|+|+|+.|-.|++.-|+-       ..-+.+.|.+.++++..||+||||+|+++++++|+|+++|+++||+++|
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~MKk~IHPeY~~Vv~v~cs~g~~f~t~ST~~~i   80 (144)
T 3bbo_1            1 MAVSLPNSFLQISPCVPSLQLRKPVMAAVKGGKQSVRRSSNTVVQITCRKKELHPEFHEDAKVYCNGELVMTTGGTKKEY   80 (144)
T ss_dssp             -------------------------------------------------CTTTCCCCCHHHHHCSSSCTTTSCSSCSCSS
T ss_pred             CccccccceeeccccCcchhccccccccccccccchhhcccceeeeeccCCCCCCCCEEeEEEEcCCCeEEEEEecCceE
Confidence            899999999999998888533221       1235677888999999999999999999999999999999999999999


Q ss_pred             EEeecCCCCCcccCceeeeeecchhHHHHHHHhcCCcccccccccccceecCCccccccccCCCCC
Q 032493           74 VVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEIMEIPVLKGEIVLPPKRKSAAAKGGKKK  139 (139)
Q Consensus        74 ~vDIcS~cHPFYTGkqk~~vdt~GRVeKFnKKfg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  139 (139)
                      +|||||+|||||||+|++++|++|||||||+||+.+....++|++.|+.++|+++++.++  |+||
T Consensus        81 ~VDIcS~cHPFYTGkqkk~vDt~GRVeKF~KRyg~~~~~~~~~v~~g~~~~p~~~~k~~~--g~kk  144 (144)
T 3bbo_1           81 VVDVWSGNHPFYLGNRSALMVDADQVEKFRKRFAGLSEIMEIPVLKGEIIMPTKKSKGPK--GKKK  144 (144)
T ss_dssp             SCCSSCCCCCSSSSSSSCCCCCCCCCCCSSCCCCCCSSCCC-------------------------
T ss_pred             EeeecCCCCccEeCceeeEecccccHHHHHHHHhccccccccccccCccccccccccccc--ccCC
Confidence            999999999999998865899999999999999999999999999999999999955554  4443

>1nkw_Y 50S ribosomal protein L31; ribosome, large subunit, X- RAY structure, peptidyl-transferase, peptide bond formation; 3.10A {Deinococcus radiodurans} SCOP: i.1.1.2 PDB: 1nwx_Y* 1nwy_Y* 1pnu_Y 1pny_Y 1sm1_Y* 1vor_1 1vou_1 1vow_1 1voy_1 1vp0_1 1xbp_Y* 1yl3_4 2b66_4 2b9n_4 2b9p_4

Probab=100.00  E-value=4.5e-35  Score=203.79  Aligned_cols=69  Identities=36%  Similarity=0.642  Sum_probs=63.9

Q ss_pred             CCCCCCCCCcceeEEEeCCCeEEEEeeeeCcEEEeecCCCCCcccCceeeeeecchhHHHHHHHhcCCccc
Q 032493           42 RKKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLSEI  112 (139)
Q Consensus        42 MKK~IHP~y~~vv~v~cs~g~~~~~gST~~~i~vDIcS~cHPFYTGkqk~~vdt~GRVeKFnKKfg~~~~~  112 (139)
                      ||+||||+|++ +.+.|+||+.|+++||.++|+|||||+|||||||+|+ ++|++||||||++||+.+...
T Consensus         1 MKk~IHP~y~~-v~~~~s~g~~f~t~ST~~~i~vdi~s~~HPFyTGkqk-~vdt~GRVekF~kry~~~~~~   69 (73)
T 1nkw_Y            1 MQKDLHPKAVP-CKIIYQGQVVMETMSTRPEIHVDVWSGVHPFWTGEER-FLDTEGRVDKFNKRFGDSYRR   69 (73)
T ss_pred             CCCCCCCCCEE-EEEEECCCCEEEEcccCCCEEEEECCCCCcCCcCcEE-EEeccccHHHHHHHHhccccc
Confidence            99999999997 6667899999999999999999999999999999987 999999999999999986543

>3v2d_4 50S ribosomal protein L31; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgq_3 2hgj_3 2hgu_3 2j03_4 2v47_4 2v49_4 2wdi_4 2wdj_4 2wdl_4 2wdn_4 2wh2_4 2wrj_4 2wrl_4 2wro_4 2wrr_4 2x9s_4 2x9u_4 2xg0_4 2xg2_4 2xqe_4 ...

Probab=100.00  E-value=7.3e-35  Score=201.98  Aligned_cols=66  Identities=33%  Similarity=0.579  Sum_probs=43.8

Q ss_pred             CCCCCCCCCcceeEEEeCCCeEEEEeeeeCcEEEeecCCCCCcccCceeeeeecchhHHHHHHHhcCC
Q 032493           42 RKKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGL  109 (139)
Q Consensus        42 MKK~IHP~y~~vv~v~cs~g~~~~~gST~~~i~vDIcS~cHPFYTGkqk~~vdt~GRVeKFnKKfg~~  109 (139)
                      ||+||||+|++ +.+.|+||+.|+++||.++|+|||||+|||||||+|+ ++|++||||||++||+..
T Consensus         1 MKk~IHP~Y~~-v~v~c~~g~~f~t~ST~~~i~vdi~S~~HPFyTGkqk-~vdt~GRVekF~kryg~~   66 (71)
T 3v2d_4            1 MKEGIHPKLVP-ARIICGCGNVIETYSTKPEIYVEVCSKCHPFYTGQQR-FVDTEGRVERFQRRYGDS   66 (71)
T ss_dssp             CCSSSSCCCEE-EEEEETTSCEEEEEESSSEEEESCCTTTSSSSSCC---------------------
T ss_pred             CCCCCCCCCeE-EEEEECCCCEEEeeeeccCEEEEecCCCCCCCCCCEE-EEcccCcHHHHHHHHccc
Confidence            99999999986 6677889999999999999999999999999999987 899999999999999864

>3f1f_4 50S ribosomal protein L31; RF2, ribosome, termination, tRNA; 3.00A {Thermus thermophilus} PDB: 3d5d_4 3d5b_4 3f1h_4

Probab=99.98  E-value=3.4e-34  Score=208.79  Aligned_cols=72  Identities=31%  Similarity=0.529  Sum_probs=27.9

Q ss_pred             ccccccCCCCCCCCCcceeEEEeCCCeEEEEeeeeCcEEEeecCCCCCcccCceeeeeecchhHHHHHHHhcCC
Q 032493           36 TRAVTCRKKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGL  109 (139)
Q Consensus        36 ~~~~~~MKK~IHP~y~~vv~v~cs~g~~~~~gST~~~i~vDIcS~cHPFYTGkqk~~vdt~GRVeKFnKKfg~~  109 (139)
                      .++...||+||||+|++ +.+.|+||+.|+++||.++|+|||||+|||||||+|+ ++|++||||||++||+..
T Consensus        21 ~~~~~~MKk~IHP~Y~~-v~v~ct~G~~f~t~ST~~~i~vDI~S~~HPFYTGkqk-~vdt~GRVeKF~kRyg~~   92 (97)
T 3f1f_4           21 AKKEANVKEGIHPKLVP-ARIICGCGNVIETYSTKPEIYVEVCSKCHPFYTGQQR-FVDTEGRVERFQRRYGDS   92 (97)
T ss_dssp             ---------------CC-CEEEETTEEEEECCCSSCCEEESSCTTC----------------------------
T ss_pred             hhhhccccCCCCCCCeE-EEEEECCCCEEEeeeeeeEEEEEECCCCCCCCcCCEE-EEcccCcHHHHHHHHccc
Confidence            45778999999999997 5677899999999999999999999999999999987 899999999999999864

>1vs6_Z 50S ribosomal protein L31; ribosome, kasugamycin; 3.46A {Escherichia coli} SCOP: d.325.1.2 PDB: 1vs8_Z 2aw4_Z 2awb_Z 2j28_Z 2rdo_Z 2vhm_Z 2vhn_Z 3bbx_Z 3e1b_S 3e1d_S 3iyx_A 3iyy_A 3izt_b* 3izu_b* 3j0t_2* 3j0w_2* 3j0y_2* 3j11_2* 3j12_2* 3j14_2*

Probab=99.97  E-value=3e-34  Score=198.13  Aligned_cols=66  Identities=32%  Similarity=0.497  Sum_probs=60.8

Q ss_pred             CCCCCCCCCcceeEEEeCCCeEEEEeeeeC-cEEEeecCCCCCcccCceeeeeecchhHHHHHHHhcCC
Q 032493           42 RKKDIHPQFYEDAKVYCNGELVMTTGGTQK-EYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGL  109 (139)
Q Consensus        42 MKK~IHP~y~~vv~v~cs~g~~~~~gST~~-~i~vDIcS~cHPFYTGkqk~~vdt~GRVeKFnKKfg~~  109 (139)
                      ||+||||+|+++ .+.|+||+.|+++||.+ +|+|||||+|||||||+|+ ++|++||||||++||+.+
T Consensus         1 MKk~IHP~y~~v-~~~~s~g~~f~t~ST~~~ei~vdi~s~~HPFyTG~qk-~vdt~GRV~kF~kry~~~   67 (70)
T 1vs6_Z            1 MKKDIHPKYEEI-TASCSCGNVMKIRSTVGHDLNLDVCSKCHPFFTGKQR-DVATGGRVDRFNKRFNIP   67 (70)
T ss_dssp             CCCTTSCCCCCC-BCCCCSSCCCCCBCCCCCCCCCBCCSSSCCBCCCCCT-TTTTHHHHSCSSTTTTTT
T ss_pred             CCCCCCCCCEEE-EEEECCCCEEEEeecCCCcEeeeecCCCCccCcCcEE-EEeccccHHHHHHHhhcc
Confidence            999999999974 56689999999999975 5999999999999999987 899999999999999975

---

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	139
d1vs6z1	70	d.325.1.2 (Z:1-70) Ribosomal protein L31p {Escheri	7e-17
d2j0141	50	d.325.1.2 (4:1-50) Ribosomal protein L31p {Thermus	8e-12

>d1vs6z1 d.325.1.2 (Z:1-70) Ribosomal protein L31p {Escherichia coli [TaxId: 562]} Length = 70

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L31p
domain: Ribosomal protein L31p
species: Escherichia coli [TaxId: 562]

 Score = 67.8 bits (166), Expect = 7e-17
 Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 3/69 (4%)

Query: 43  KKDIHPQFYEDAKVYCNGELVMTTGGT-QKEYVVDVWSGNHAFYLGGRSAVVVDADQVEK 101
           KKDIHP+ YE+    C+   VM    T   +  +DV S  H F+ G +   V    +V++
Sbjct: 2   KKDIHPK-YEEITASCSCGNVMKIRSTVGHDLNLDVCSKCHPFFTGKQR-DVATGGRVDR 59

Query: 102 FRQKFGGLS 110
           F ++F    
Sbjct: 60  FNKRFNIPG 68

>d2j0141 d.325.1.2 (4:1-50) Ribosomal protein L31p {Thermus thermophilus [TaxId: 274]} Length = 50

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L31p
domain: Ribosomal protein L31p
species: Thermus thermophilus [TaxId: 274]

 Score = 54.3 bits (131), Expect = 8e-12
 Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 1/50 (2%)

Query: 43 KKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRSAV 92
          K+ IHP+    A++ C    V+ T  T+ E  V+V S  H FY G +  V
Sbjct: 2  KEGIHPK-LVPARIICGCGNVIETYSTKPEIYVEVCSKCHPFYTGQQRFV 50

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	139
d1vs6z1	70	Ribosomal protein L31p {Escherichia coli [TaxId: 5	99.97
d2j0141	50	Ribosomal protein L31p {Thermus thermophilus [TaxI	99.91

>d1vs6z1 d.325.1.2 (Z:1-70) Ribosomal protein L31p {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L31p
domain: Ribosomal protein L31p
species: Escherichia coli [TaxId: 562]

Probab=99.97  E-value=1.5e-34  Score=197.70  Aligned_cols=67  Identities=31%  Similarity=0.515  Sum_probs=61.8

Q ss_pred             CCCCCCCCCcceeEEEeCCCeEEEEeeee-CcEEEeecCCCCCcccCceeeeeecchhHHHHHHHhcCCc
Q 032493           42 RKKDIHPQFYEDAKVYCNGELVMTTGGTQ-KEYVVDVWSGNHAFYLGGRSAVVVDADQVEKFRQKFGGLS  110 (139)
Q Consensus        42 MKK~IHP~y~~vv~v~cs~g~~~~~gST~-~~i~vDIcS~cHPFYTGkqk~~vdt~GRVeKFnKKfg~~~  110 (139)
                      ||+||||+|++ +.+.|+||..|.++||. ++|.|||||+|||||||+|+ ++|++|||||||+||+.++
T Consensus         1 MKk~IHP~y~~-v~~~~s~g~~f~~~sT~~~e~~vdi~s~~HPfyTG~q~-~~dt~GRVekF~krf~~~~   68 (70)
T d1vs6z1           1 MKKDIHPKYEE-ITASCSCGNVMKIRSTVGHDLNLDVCSKCHPFFTGKQR-DVATGGRVDRFNKRFNIPG   68 (70)
T ss_dssp             CCCTTSCCCCC-CBCCCCSSCCCCCBCCCCCCCCCBCCSSSCCBCCCCCT-TTTTHHHHSCSSTTTTTTS
T ss_pred             CCCCCCCCCEe-EEEEECCCCEEEEeeEeCCcEEEEeCCCCCCcCcCCEE-EeeccCcHHHHHHhhcccc
Confidence            99999999997 55689999999999995 68999999999999999987 8999999999999999764

>d2j0141 d.325.1.2 (4:1-50) Ribosomal protein L31p {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L31p
domain: Ribosomal protein L31p
species: Thermus thermophilus [TaxId: 274]

Probab=99.91  E-value=1.5e-27  Score=154.10  Aligned_cols=48  Identities=35%  Similarity=0.558  Sum_probs=45.1

Q ss_pred             CCCCCCCCCcceeEEEeCCCeEEEEeeeeCcEEEeecCCCCCcccCcee
Q 032493           42 RKKDIHPQFYEDAKVYCNGELVMTTGGTQKEYVVDVWSGNHAFYLGGRS   90 (139)
Q Consensus        42 MKK~IHP~y~~vv~v~cs~g~~~~~gST~~~i~vDIcS~cHPFYTGkqk   90 (139)
                      ||+||||+|++ +.+.|+||+.|+++||+++++|||||+|||||||+|+
T Consensus         1 MKk~IHP~y~~-v~~~cscg~~f~~~ST~~~~~vdIcs~cHPFyTG~qk   48 (50)
T d2j0141           1 MKEGIHPKLVP-ARIICGCGNVIETYSTKPEIYVEVCSKCHPFYTGQQR   48 (50)
T ss_dssp             CCGGGCCCCTT-TTTCTTSCGGGSCSSSSCCSSCCSCCCCCSSSCCCSC
T ss_pred             CCCCCCCCCEE-EEEEECCCCEEEecccCCcEEEEECCCCCCcCCCeEE
Confidence            99999999998 4566999999999999999999999999999999986