Citrus Sinensis ID: 033963

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------
Protein Sequence
MNAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVINHLPSSTTQST
Secondary Structure (PSIPRED)
ccHHHHHHHccccccccEEEEEEEcccccccHHHHHHHHHHcccccccEEEEcccHHHHHHHHcccccEEEEEEccHHHHHHHHHHHHcccccEEEEcccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHcccHHHcccEEEEEEEccccccHHHHHHHHHHcccccccEEEccccHHHHHHHHHHHHEEEEcHHHHHHHHHHHHHHHccccccEEEEcccccccccc
Coil and Loop (DISEMBL)
mnafkafkacvpiewspnlYITLvrgmpgtrrLHRRTLEALRLRKCNRtvmrwntptVRGMLQQVKRLVVIETEEMYKARKEKLAnhqalrppmvinhlpssttqst
Flexible Loop (DISEMBL)
mnafkafkacvpiewspnlYITLvrgmpgtrrlhrrtlealrlrkcnrtvmrwntptvrgmlqqvkRLVVIETEEMYKARKEKlanhqalrppmvinhlpssttqst
Low Complexity Region (SEG)
MNAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVINHLPSSTTQST
Disordered region (IsUnstruct)
***FKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYK*****************************
Disordered Region (DISOPRED)
********ACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEM*****************MVI***********
Disordered Region (DISEMBL)
MNAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVINHL********
Disordered Region (DISPRO)
*NAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVIN**********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MNAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVINHLPSSTTQST
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	107	2.2.26 [Sep-21-2011]
Q47J85	60	50S ribosomal protein L30	yes	no	0.504	0.9	0.444	1e-06
C3PL27	61	50S ribosomal protein L30	yes	no	0.504	0.885	0.407	2e-06
Q8FS51	61	50S ribosomal protein L30	yes	no	0.504	0.885	0.462	4e-06
A1KB09	60	50S ribosomal protein L30	yes	no	0.532	0.95	0.421	1e-05
Q8NSX3	61	50S ribosomal protein L30	yes	no	0.504	0.885	0.444	1e-05
A4QBL5	61	50S ribosomal protein L30	yes	no	0.504	0.885	0.444	2e-05
Q5HM17	60	50S ribosomal protein L30	yes	no	0.523	0.933	0.428	2e-05
Q3A9T4	60	50S ribosomal protein L30	yes	no	0.504	0.9	0.407	2e-05
A8ZV75	65	50S ribosomal protein L30	yes	no	0.542	0.892	0.413	2e-05
P0A0G1	59	50S ribosomal protein L30	yes	no	0.504	0.915	0.425	3e-05

>sp|Q47J85|RL30_DECAR 50S ribosomal protein L30 OS=Dechloromonas aromatica (strain RCB) GN=rpmD PE=3 SV=1

 Score = 51.6 bits (122), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/54 (44%), Positives = 38/54 (70%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          + +TLV+ + GT++ HR T++ L LRK N +    +TP VRGM+Q+V+ LV +E
Sbjct: 6  IKVTLVKSVIGTKQDHRATVKGLGLRKLNSSSELIDTPAVRGMIQKVQYLVKVE 59

Dechloromonas aromatica (strain RCB) (taxid: 159087)

>sp|C3PL27|RL30_CORA7 50S ribosomal protein L30 OS=Corynebacterium aurimucosum (strain ATCC 700975 / DSM 44827 / CN-1) GN=rpmD PE=3 SV=1

 Score = 51.2 bits (121), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 38/54 (70%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          L IT V+G+ GT+  HR  +E+L L++   +V++ +TP +RGM+ +V+ LV +E
Sbjct: 3  LKITQVKGLVGTKPNHRANMESLGLKRIGHSVVKQDTPIIRGMVHKVRHLVTVE 56

Corynebacterium aurimucosum (strain ATCC 700975 / DSM 44827 / CN-1) (taxid: 548476)

>sp|Q8FS51|RL30_COREF 50S ribosomal protein L30 OS=Corynebacterium efficiens (strain DSM 44549 / YS-314 / AJ 12310 / JCM 11189 / NBRC 100395) GN=rpmD PE=3 SV=1

 Score = 50.1 bits (118), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 25/54 (46%), Positives = 37/54 (68%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          L IT V+G  GT+  HR  L +L L++   +V+R +TP VRGM+Q V+ L+V+E
Sbjct: 3  LKITQVKGTIGTKPKHRDNLRSLGLKRIRHSVVRPDTPEVRGMVQAVRHLIVVE 56

Corynebacterium efficiens (strain DSM 44549 / YS-314 / AJ 12310 / JCM 11189 / NBRC 100395) (taxid: 196164)

>sp|A1KB09|RL30_AZOSB 50S ribosomal protein L30 OS=Azoarcus sp. (strain BH72) GN=rpmD PE=3 SV=1

 Score = 48.5 bits (114), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/57 (42%), Positives = 36/57 (63%)

Query: 16 SPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
             + +TLV+ + GT++ HR T+  L LR+ N TV   +TP VRGM+ +V  LV +E
Sbjct: 3  DKKIKVTLVKSVIGTKQSHRATVRGLGLRRLNHTVELVDTPAVRGMVTKVAYLVKVE 59

Azoarcus sp. (strain BH72) (taxid: 62928)

>sp|Q8NSX3|RL30_CORGL 50S ribosomal protein L30 OS=Corynebacterium glutamicum (strain ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025) GN=rpmD PE=3 SV=1

 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/54 (44%), Positives = 36/54 (66%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          L IT ++G  GT+  HR  L +L L++   TV+R +TP VRGM+  V+ L+V+E
Sbjct: 3  LKITQIKGTVGTKPKHRENLRSLGLKRIRHTVIRPDTPEVRGMILAVRHLIVVE 56

Corynebacterium glutamicum (strain ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025) (taxid: 196627)

>sp|A4QBL5|RL30_CORGB 50S ribosomal protein L30 OS=Corynebacterium glutamicum (strain R) GN=rpmD PE=3 SV=1

 Score = 48.1 bits (113), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 24/54 (44%), Positives = 36/54 (66%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          L IT ++G  GT+  HR  L +L L++   TV+R +TP VRGM+  V+ L+V+E
Sbjct: 3  LKITQIKGTVGTKPKHRDNLRSLGLKRIRHTVIRPDTPEVRGMILAVRHLIVVE 56

Corynebacterium glutamicum (strain R) (taxid: 340322)

>sp|Q5HM17|RL30_STAEQ 50S ribosomal protein L30 OS=Staphylococcus epidermidis (strain ATCC 35984 / RP62A) GN=rpmD PE=3 SV=1

 Score = 48.1 bits (113), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 24/56 (42%), Positives = 35/56 (62%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETE 74
          L ITL R + G     R+T+EAL L+K N +V+  + P +RG + +VK L+ IE E
Sbjct: 4  LQITLTRSVIGRPETQRKTVEALGLKKTNSSVVVEDNPAIRGQINKVKHLLTIEEE 59

Staphylococcus epidermidis (strain ATCC 35984 / RP62A) (taxid: 176279)

>sp|Q3A9T4|RL30_CARHZ 50S ribosomal protein L30 OS=Carboxydothermus hydrogenoformans (strain Z-2901 / DSM 6008) GN=rpmD PE=3 SV=1

 Score = 47.8 bits (112), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 37/54 (68%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          L ITLV+ + G     + T+++L LRK N+TV++ +TP +RGM+ +V  L+ +E
Sbjct: 5  LKITLVKSVIGQSERQKATVKSLGLRKLNQTVIKADTPEIRGMINKVSHLLKVE 58

Carboxydothermus hydrogenoformans (strain Z-2901 / DSM 6008) (taxid: 246194)

>sp|A8ZV75|RL30_DESOH 50S ribosomal protein L30 OS=Desulfococcus oleovorans (strain DSM 6200 / Hxd3) GN=rpmD PE=3 SV=2

 Score = 47.8 bits (112), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 24/58 (41%), Positives = 37/58 (63%)

Query: 15 WSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
           S ++ +TL + M G    HR+ L A+ L K NRTV   +TPTV+GM+++V  L+ +E
Sbjct: 1  MSGSIKVTLAKSMIGRPEKHRKVLRAMGLTKVNRTVCLQDTPTVQGMIRKVSHLLRVE 58

Desulfococcus oleovorans (strain DSM 6200 / Hxd3) (taxid: 96561)

>sp|P0A0G1|RL30_STAAW 50S ribosomal protein L30 OS=Staphylococcus aureus (strain MW2) GN=rpmD PE=3 SV=1

 Score = 47.4 bits (111), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 23/54 (42%), Positives = 34/54 (62%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          L ITL R + G     R+T+EAL L+K N +V+  + P +RG + +VK LV +E
Sbjct: 4  LQITLTRSVIGRPETQRKTVEALGLKKTNSSVVVEDNPAIRGQINKVKHLVTVE 57

Staphylococcus aureus (strain MW2) (taxid: 196620)

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	107
449468386	108	PREDICTED: 50S ribosomal protein L30-lik	0.990	0.981	0.849	2e-47
164605530	107	CM0545.370.nc [Lotus japonicus] gi|38851	0.990	0.990	0.867	3e-47
388493864	116	unknown [Lotus japonicus]	0.990	0.913	0.867	3e-47
224068949	106	predicted protein [Populus trichocarpa]	0.990	1.0	0.858	3e-47
351725901	107	uncharacterized protein LOC100306695 [Gl	0.990	0.990	0.849	9e-47
225427633	108	PREDICTED: 50S ribosomal protein L30 iso	1.0	0.990	0.861	1e-46
406352546	108	ribosomal protein L30 family protein [Ni	0.990	0.981	0.830	1e-46
224129014	105	predicted protein [Populus trichocarpa]	0.971	0.990	0.865	2e-46
255568701	107	structural constituent of ribosome, puta	1.0	1.0	0.841	2e-46
359485515	108	PREDICTED: uncharacterized protein LOC10	1.0	0.990	0.851	5e-46

>gi|449468386|ref|XP_004151902.1| PREDICTED: 50S ribosomal protein L30-like [Cucumis sativus] gi|449522520|ref|XP_004168274.1| PREDICTED: 50S ribosomal protein L30-like [Cucumis sativus]

 Score =  192 bits (488), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 90/106 (84%), Positives = 99/106 (93%)

Query: 1   MNAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60
           MNAFKAFKA VPI WS NLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG
Sbjct: 1   MNAFKAFKASVPIAWSTNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60

Query: 61  MLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVINHLPSSTTQS 106
           M+QQVKRLVV+ETEEMYKARK+K+  H+ALRPP+VINHLP+ ++ S
Sbjct: 61  MIQQVKRLVVVETEEMYKARKQKMEQHRALRPPLVINHLPAPSSAS 106

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|164605530|dbj|BAF98596.1| CM0545.370.nc [Lotus japonicus] gi|388518947|gb|AFK47535.1| unknown [Lotus japonicus]

 Score =  192 bits (487), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 92/106 (86%), Positives = 98/106 (92%)

Query: 1   MNAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60
           MNAFKA+KACVPI WSPNLYITLVRG+PGTRRLHRRTLEALRL KCNRTVMRWNTPTVRG
Sbjct: 1   MNAFKAYKACVPIAWSPNLYITLVRGIPGTRRLHRRTLEALRLGKCNRTVMRWNTPTVRG 60

Query: 61  MLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVINHLPSSTTQS 106
           MLQQVKRLVVIETEEMYKARK+K   H+ALRPP+VINH PSS T +
Sbjct: 61  MLQQVKRLVVIETEEMYKARKQKEEAHRALRPPLVINHQPSSATGT 106

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388493864|gb|AFK34998.1| unknown [Lotus japonicus]

 Score =  191 bits (486), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 92/106 (86%), Positives = 98/106 (92%)

Query: 1   MNAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60
           MNAFKA+KACVPI WSPNLYITLVRG+PGTRRLHRRTLEALRL KCNRTVMRWNTPTVRG
Sbjct: 10  MNAFKAYKACVPIAWSPNLYITLVRGIPGTRRLHRRTLEALRLGKCNRTVMRWNTPTVRG 69

Query: 61  MLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVINHLPSSTTQS 106
           MLQQVKRLVVIETEEMYKARK+K   H+ALRPP+VINH PSS T +
Sbjct: 70  MLQQVKRLVVIETEEMYKARKQKEEAHRALRPPLVINHQPSSATGT 115

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224068949|ref|XP_002302864.1| predicted protein [Populus trichocarpa] gi|222844590|gb|EEE82137.1| predicted protein [Populus trichocarpa]

 Score =  191 bits (486), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 91/106 (85%), Positives = 99/106 (93%)

Query: 1   MNAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60
           MNAFKAFKA VPI WSP+LYITLVRG+PGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG
Sbjct: 1   MNAFKAFKAQVPIAWSPHLYITLVRGIPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60

Query: 61  MLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVINHLPSSTTQS 106
           MLQQVKRLVVIETEEMYKARK+   NH+A+RPP+VINHLP+S + S
Sbjct: 61  MLQQVKRLVVIETEEMYKARKQNDVNHRAVRPPLVINHLPASASSS 106

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351725901|ref|NP_001235061.1| uncharacterized protein LOC100306695 [Glycine max] gi|255629303|gb|ACU14996.1| unknown [Glycine max]

 Score =  190 bits (482), Expect = 9e-47,   Method: Compositional matrix adjust.
 Identities = 90/106 (84%), Positives = 98/106 (92%)

Query: 1   MNAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60
           MNAFKA+KACVPI WSPN+YITLVRG+PGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG
Sbjct: 1   MNAFKAYKACVPIAWSPNIYITLVRGIPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60

Query: 61  MLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVINHLPSSTTQS 106
           MLQQVKRLVVIETEEMYKARK+K   H+ALRPP+VI+H P S T +
Sbjct: 61  MLQQVKRLVVIETEEMYKARKQKEEAHRALRPPLVISHKPPSVTDA 106

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225427633|ref|XP_002272724.1| PREDICTED: 50S ribosomal protein L30 isoform 1 [Vitis vinifera] gi|359474731|ref|XP_003631524.1| PREDICTED: 50S ribosomal protein L30 isoform 2 [Vitis vinifera] gi|359474733|ref|XP_003631525.1| PREDICTED: 50S ribosomal protein L30 isoform 3 [Vitis vinifera] gi|296085477|emb|CBI29209.3| unnamed protein product [Vitis vinifera]

 Score =  190 bits (482), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 93/108 (86%), Positives = 98/108 (90%), Gaps = 1/108 (0%)

Query: 1   MNAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60
           MNAFKAFKACVP+ WSPNLYITLVRG+PGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG
Sbjct: 1   MNAFKAFKACVPVAWSPNLYITLVRGIPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60

Query: 61  MLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVINH-LPSSTTQST 107
           MLQQVKRLVVIETEEMYKARK K  NH+ALRPP+VINH LP     S+
Sbjct: 61  MLQQVKRLVVIETEEMYKARKLKETNHRALRPPLVINHVLPPPANDSS 108

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|406352546|gb|AFS33549.1| ribosomal protein L30 family protein [Nicotiana tabacum]

 Score =  190 bits (482), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 88/106 (83%), Positives = 97/106 (91%)

Query: 1   MNAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60
           M+A+ AFKAC PI WSPNLYITLVRG+PGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG
Sbjct: 1   MSAYNAFKACAPISWSPNLYITLVRGIPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60

Query: 61  MLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVINHLPSSTTQS 106
           MLQQVKRLVVIETEEMYKARKEKL++H+ALRPP+V+NH  +    S
Sbjct: 61  MLQQVKRLVVIETEEMYKARKEKLSDHKALRPPLVVNHHAAPAADS 106

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224129014|ref|XP_002320479.1| predicted protein [Populus trichocarpa] gi|222861252|gb|EEE98794.1| predicted protein [Populus trichocarpa]

 Score =  189 bits (479), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 90/104 (86%), Positives = 96/104 (92%)

Query: 1   MNAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60
           MNAFKAFKA VPI WSP+LYITLVRG+PGTRRLHRRTLEALRL KCNRTVMRWNTPT  G
Sbjct: 1   MNAFKAFKAQVPIAWSPHLYITLVRGIPGTRRLHRRTLEALRLHKCNRTVMRWNTPTAMG 60

Query: 61  MLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVINHLPSSTT 104
           MLQQVKRLVVIETEEMYKARK+  ANHQALRPP+VINHLP+S +
Sbjct: 61  MLQQVKRLVVIETEEMYKARKQNEANHQALRPPLVINHLPASAS 104

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255568701|ref|XP_002525322.1| structural constituent of ribosome, putative [Ricinus communis] gi|223535381|gb|EEF37055.1| structural constituent of ribosome, putative [Ricinus communis]

 Score =  189 bits (479), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 90/107 (84%), Positives = 96/107 (89%)

Query: 1   MNAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60
           MNAFKAFKA VPI WSPNLYITLVRGMPGTR+LHRRTLEALRLRKCNRTVMRWNTPTVRG
Sbjct: 1   MNAFKAFKAQVPIAWSPNLYITLVRGMPGTRKLHRRTLEALRLRKCNRTVMRWNTPTVRG 60

Query: 61  MLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVINHLPSSTTQST 107
           MLQQVKRLV IETEEMYKARKE  A H+ALR P+VI HLP+  + S+
Sbjct: 61  MLQQVKRLVAIETEEMYKARKENEAKHRALRSPLVIKHLPAEASSSS 107

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359485515|ref|XP_003633286.1| PREDICTED: uncharacterized protein LOC100260125 [Vitis vinifera] gi|147859664|emb|CAN78893.1| hypothetical protein VITISV_007514 [Vitis vinifera]

 Score =  187 bits (476), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 92/108 (85%), Positives = 98/108 (90%), Gaps = 1/108 (0%)

Query: 1   MNAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60
           MNAFKAFKACVP+ WSPNLYITLVRG+PGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG
Sbjct: 1   MNAFKAFKACVPVAWSPNLYITLVRGIPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60

Query: 61  MLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVINH-LPSSTTQST 107
           MLQQVKRLVVIETEEM+KARK K  NH+ALRPP+VINH LP     S+
Sbjct: 61  MLQQVKRLVVIETEEMHKARKLKETNHRALRPPLVINHVLPPPANDSS 108

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	107
TAIR|locus:2161645	109	AT5G55140 [Arabidopsis thalian	0.990	0.972	0.660	4e-35
TIGR_CMR|CHY_2291	60	CHY_2291 "ribosomal protein L3	0.504	0.9	0.407	1.6e-06
TIGR_CMR|BA_0128	60	BA_0128 "ribosomal protein L30	0.504	0.9	0.425	4.3e-06
TIGR_CMR|GSU_2839	59	GSU_2839 "ribosomal protein L3	0.532	0.966	0.465	4.3e-06
TIGR_CMR|CBU_0256	63	CBU_0256 "ribosomal protein L3	0.523	0.888	0.392	1.5e-05
TIGR_CMR|CPS_0619	61	CPS_0619 "ribosomal protein L3	0.532	0.934	0.385	3.9e-05
UNIPROTKB|Q9KP02	58	rpmD "50S ribosomal protein L3	0.485	0.896	0.403	0.00017
TIGR_CMR|VC_2578	58	VC_2578 "ribosomal protein L30	0.485	0.896	0.403	0.00017
UNIPROTKB|P0AG51	59	rpmD "50S ribosomal subunit pr	0.485	0.881	0.403	0.00027
TIGR_CMR|SO_0249	60	SO_0249 "ribosomal protein L30	0.411	0.733	0.456	0.00093

TAIR|locus:2161645 AT5G55140 [Arabidopsis thaliana (taxid:3702)]

 Score = 380 (138.8 bits), Expect = 4.0e-35, P = 4.0e-35
 Identities = 70/106 (66%), Positives = 89/106 (83%)

Query:     1 MNAFKAFKACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRG 60
             M+ F+AFKA VPIEWS +LYITLVRG+PGTR+LHRRTLEA+ LR+C+RTV+  N  ++RG
Sbjct:     1 MSGFRAFKAQVPIEWSQSLYITLVRGLPGTRKLHRRTLEAMGLRRCHRTVLHSNNSSIRG 60

Query:    61 MLQQVKRLVVIETEEMYKARKEKLANHQALRPPMVINHLPSSTTQS 106
             M+ QVKR+VV+ETEEMY ARKE  ANH+ALRPP+V++H   +T  S
Sbjct:    61 MIDQVKRMVVVETEEMYNARKEAEANHKALRPPLVVSHSSPATDSS 106

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0015934 "large ribosomal subunit" evidence=IEA;ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

GO:0006354 "DNA-dependent transcription, elongation" evidence=RCA

TIGR_CMR|CHY_2291 CHY_2291 "ribosomal protein L30" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 110 (43.8 bits), Expect = 1.6e-06, P = 1.6e-06
 Identities = 22/54 (40%), Positives = 37/54 (68%)

Query:    19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
             L ITLV+ + G     + T+++L LRK N+TV++ +TP +RGM+ +V  L+ +E
Sbjct:     5 LKITLVKSVIGQSERQKATVKSLGLRKLNQTVIKADTPEIRGMINKVSHLLKVE 58

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|BA_0128 BA_0128 "ribosomal protein L30" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 106 (42.4 bits), Expect = 4.3e-06, P = 4.3e-06
 Identities = 23/54 (42%), Positives = 34/54 (62%)

Query:    19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
             L ITL R + G  +  R T+EAL L+K N TV++  TP + GM+ +V  LV ++
Sbjct:     5 LEITLTRSVIGRPQDQRATVEALGLKKLNSTVVKEETPAILGMINKVSHLVTVK 58

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|GSU_2839 GSU_2839 "ribosomal protein L30" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 106 (42.4 bits), Expect = 4.3e-06, P = 4.3e-06
 Identities = 27/58 (46%), Positives = 34/58 (58%)

Query:    16 SPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLV-VIE 72
             S  L ITLVR   GT    R  L  L L K N+TV+  NTP + GM+Q+V  +V V+E
Sbjct:     2 SAELKITLVRSHIGTTSKQRAVLNGLGLTKVNKTVVLKNTPEIVGMVQKVAHMVKVVE 59

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

GO:0006412 "translation" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|CBU_0256 CBU_0256 "ribosomal protein L30p/L7e" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 101 (40.6 bits), Expect = 1.5e-05, P = 1.5e-05
 Identities = 22/56 (39%), Positives = 36/56 (64%)

Query:    19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETE 74
             L +TLV+   G +  HR  +E L LR+ ++TV   +TP  RGM+++V  L++I+ E
Sbjct:     7 LRVTLVKSKYGRKPGHRECIEGLGLRRMHQTVEVTDTPANRGMIEKVSYLLMIDEE 62

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|CPS_0619 CPS_0619 "ribosomal protein L30" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 97 (39.2 bits), Expect = 3.9e-05, P = 3.9e-05
 Identities = 22/57 (38%), Positives = 34/57 (59%)

Query:    16 SPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
             S  + +T ++   G    HR TL+ L LR+ N TV   +TP+VRGM+ +V  +V +E
Sbjct:     4 SKTVKVTQLKSSIGRLPKHRATLKGLGLRRINHTVELEDTPSVRGMINKVYYMVKVE 60

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

GO:0006412 "translation" evidence=ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

UNIPROTKB|Q9KP02 rpmD "50S ribosomal protein L30" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 91 (37.1 bits), Expect = 0.00017, P = 0.00017
 Identities = 21/52 (40%), Positives = 29/52 (55%)

Query:    21 ITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
             +T  +   G    H+ TL  L LRK N TV   +TP VRGM+ +V  +V +E
Sbjct:     6 VTQTKSSIGRLPKHKATLRGLGLRKINHTVELEDTPCVRGMINKVYYMVKVE 57

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|VC_2578 VC_2578 "ribosomal protein L30" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 91 (37.1 bits), Expect = 0.00017, P = 0.00017
 Identities = 21/52 (40%), Positives = 29/52 (55%)

Query:    21 ITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
             +T  +   G    H+ TL  L LRK N TV   +TP VRGM+ +V  +V +E
Sbjct:     6 VTQTKSSIGRLPKHKATLRGLGLRKINHTVELEDTPCVRGMINKVYYMVKVE 57

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

GO:0006412 "translation" evidence=ISS

UNIPROTKB|P0AG51 rpmD "50S ribosomal subunit protein L30" [Escherichia coli K-12 (taxid:83333)]

 Score = 89 (36.4 bits), Expect = 0.00027, P = 0.00027
 Identities = 21/52 (40%), Positives = 28/52 (53%)

Query:    21 ITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
             IT  R   G    H+ TL  L LR+   TV R +TP +RGM+  V  +V +E
Sbjct:     7 ITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVE 58

GO:0015934 "large ribosomal subunit" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

TIGR_CMR|SO_0249 SO_0249 "ribosomal protein L30" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 84 (34.6 bits), Expect = 0.00093, P = 0.00093
 Identities = 21/46 (45%), Positives = 28/46 (60%)

Query:    29 GTRRL--HRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
             G  RL  HR TL  L LR+   TV   +TP+VRGM+ +V  +V +E
Sbjct:    14 GIGRLPKHRATLTGLGLRRIGHTVELEDTPSVRGMINKVYYMVKVE 59


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        0.323   0.132   0.402    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      107       107   0.00091  102 3  11 22  0.37    30
                                                     29  0.40    32


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:  10
  No. of states in DFA:  554 (59 KB)
  Total size of DFA:  121 KB (2079 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:  11.36u 0.14s 11.50t   Elapsed:  00:00:00
  Total cpu time:  11.36u 0.14s 11.50t   Elapsed:  00:00:00
  Start:  Fri May 10 09:39:10 2013   End:  Fri May 10 09:39:10 2013

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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.00002063 hypothetical protein (106 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	107
cd01658	54	cd01658, Ribosomal_L30, Ribosomal protein L30, whi	1e-15
TIGR01308	55	TIGR01308, rpmD_bact, ribosomal protein L30, bacte	2e-15
pfam00327	52	pfam00327, Ribosomal_L30, Ribosomal protein L30p/L	7e-15
cd00355	53	cd00355, Ribosomal_L30_like, Ribosomal protein L30	3e-14
COG1841	55	COG1841, RpmD, Ribosomal protein L30/L7E [Translat	2e-13
PRK05611	59	PRK05611, rpmD, 50S ribosomal protein L30; Reviewe	2e-12
PRK06049	154	PRK06049, rpl30p, 50S ribosomal protein L30P; Revi	6e-07
TIGR01309	152	TIGR01309, L30P_arch, 50S ribosomal protein L30P,	4e-06
cd01657	159	cd01657, Ribosomal_L7_archeal_euk, Ribosomal prote	2e-04

>gnl|CDD|100100 cd01658, Ribosomal_L30, Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa

 Score = 64.7 bits (159), Expect = 1e-15
 Identities = 26/54 (48%), Positives = 39/54 (72%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          L ITLV+ + G  +  R TL+AL L+K N+TV+  +TP++RGM+ +VK LV +E
Sbjct: 1  LKITLVKSLIGRPKKQRATLKALGLKKINQTVVHKDTPSIRGMINKVKHLVKVE 54

L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome. The eukaryotic L30 members have N- and/or C-terminal extensions not found in their prokaryotic orthologs. L30 is closely related to the ribosomal L7 protein found in eukaryotes and archaea. Length = 54

>gnl|CDD|130375 TIGR01308, rpmD_bact, ribosomal protein L30, bacterial/organelle

 Score = 64.3 bits (157), Expect = 2e-15
 Identities = 24/54 (44%), Positives = 36/54 (66%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          + +TLVR + G  +  R+TL+AL LRK  R V+  + P +RGM+ +VK LV +E
Sbjct: 1  IKVTLVRSLIGRPKKQRKTLKALGLRKIGRQVVLEDNPAIRGMVNKVKHLVKVE 54

This model describes bacterial (and organellar) 50S ribosomal protein L30. Homologous ribosomal proteins of the eukaryotic cytosol and of the archaea differ substantially in architecture, from bacterial L30 and also from each other, and are described by separate models [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 55

>gnl|CDD|201157 pfam00327, Ribosomal_L30, Ribosomal protein L30p/L7e

 Score = 62.5 bits (153), Expect = 7e-15
 Identities = 24/52 (46%), Positives = 34/52 (65%)

Query: 18 NLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLV 69
           L IT +R + G     ++TL+ L LRK N+TV   +TP +RGML++VK LV
Sbjct: 1  LLKITRIRSIIGRPPKQKKTLKLLGLRKINQTVFVKDTPAIRGMLRKVKHLV 52

This family includes prokaryotic L30 and eukaryotic L7. Length = 52

>gnl|CDD|100098 cd00355, Ribosomal_L30_like, Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa

 Score = 60.9 bits (149), Expect = 3e-14
 Identities = 25/52 (48%), Positives = 36/52 (69%)

Query: 21 ITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          +T VR + G     R+TL+AL LRK N+TV   +TP++RGML++VK LV + 
Sbjct: 2  VTRVRSLIGRPPKQRKTLKALGLRKINQTVFVKDTPSIRGMLRKVKHLVTVG 53

L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome. The eukaryotic L30 members have N- and/or C-terminal extensions not found in their prokaryotic orthologs. L30 is closely related to the ribosomal L7 protein found in eukaryotes and archaea. Length = 53

>gnl|CDD|224754 COG1841, RpmD, Ribosomal protein L30/L7E [Translation, ribosomal structure and biogenesis]

 Score = 59.1 bits (144), Expect = 2e-13
 Identities = 26/55 (47%), Positives = 33/55 (60%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIET 73
          L +TL+R   G     R+TL  L LRK N TV+  +TP VRGML +VK LV +  
Sbjct: 1  LKVTLIRSPIGRPPKIRKTLRLLGLRKINHTVIVEDTPAVRGMLNKVKHLVTVGE 55

Length = 55

>gnl|CDD|180163 PRK05611, rpmD, 50S ribosomal protein L30; Reviewed

 Score = 56.3 bits (137), Expect = 2e-12
 Identities = 24/52 (46%), Positives = 32/52 (61%)

Query: 21 ITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          ITLV+ + G +   R TL  L LRK N TV   +TP +RGM+ +V  LV +E
Sbjct: 6  ITLVKSLIGRKPKQRATLRGLGLRKINSTVELEDTPAIRGMINKVSHLVKVE 57

Length = 59

>gnl|CDD|235683 PRK06049, rpl30p, 50S ribosomal protein L30P; Reviewed

 Score = 44.4 bits (106), Expect = 6e-07
 Identities = 18/43 (41%), Positives = 25/43 (58%)

Query: 24 VRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVK 66
          +RG     R    TL+ LRL + N  V+   TP+ +GMLQ+VK
Sbjct: 8  IRGRVNVPRDIADTLKMLRLHRVNHCVLVPETPSYKGMLQKVK 50

Length = 154

>gnl|CDD|130376 TIGR01309, L30P_arch, 50S ribosomal protein L30P, archaeal

 Score = 42.4 bits (100), Expect = 4e-06
 Identities = 20/43 (46%), Positives = 24/43 (55%)

Query: 24 VRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVK 66
          +RG     R    TLE LRL + N  V+   TPT  GMLQ+VK
Sbjct: 6  IRGTVDVPRDIADTLEMLRLHRVNHCVLYPETPTYLGMLQKVK 48

This model represents the archaeal ribosomal protein similar to longer (~ 250 residue) eukaryotic 60S ribosomal protein L7 and to the much shorter (~ 60 residue) bacterial 50S ribosomal protein L30. Protein naming follows the SwissProt designation as L30P, while the gene symbol rpmD follows TIGR usage [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 152

>gnl|CDD|100099 cd01657, Ribosomal_L7_archeal_euk, Ribosomal protein L7, which is found in archaea and eukaryotes but not in prokaryotes, binds domain II of the 23S rRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome

 Score = 37.9 bits (89), Expect = 2e-04
 Identities = 17/43 (39%), Positives = 25/43 (58%)

Query: 24 VRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVK 66
          +RG+ G     R+TL+ LRLR+ N  V    T    GML++V+
Sbjct: 7  IRGIVGVPPKIRKTLQLLRLRRINNAVFVKLTKATIGMLKKVE 49

The eukaryotic L7 members have an N-terminal extension not found in the archeal L7 orthologs. L7 is closely related to the ribosomal L30 protein found in eukaryotes and prokaryotes. Length = 159

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	107
PRK05611	59	rpmD 50S ribosomal protein L30; Reviewed	99.93
TIGR01308	55	rpmD_bact ribosomal protein L30, bacterial/organel	99.92
COG1841	55	RpmD Ribosomal protein L30/L7E [Translation, ribos	99.91
cd01658	54	Ribosomal_L30 Ribosomal protein L30, which is foun	99.91
cd00355	53	Ribosomal_L30_like Ribosomal protein L30, which is	99.87
PF00327	52	Ribosomal_L30: Ribosomal protein L30p/L7e; InterPr	99.83
PRK06049	154	rpl30p 50S ribosomal protein L30P; Reviewed	99.8
TIGR01309	152	L30P_arch 50S ribosomal protein L30P, archaeal. Th	99.78
cd01657	159	Ribosomal_L7_archeal_euk Ribosomal protein L7, whi	99.74
TIGR01310	235	L7 60S ribosomal protein L7, eukaryotic. Members o	99.46
KOG4799	182	consensus Mitochondrial ribosomal protein L30 [Tra	98.86
KOG3184	235	consensus 60S ribosomal protein L7 [Translation, r	97.48

>PRK05611 rpmD 50S ribosomal protein L30; Reviewed

Probab=99.93  E-value=3e-26  Score=146.70  Aligned_cols=59  Identities=42%  Similarity=0.579  Sum_probs=56.9

Q ss_pred             CCeEEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEec
Q 033963           16 SPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETE   74 (107)
Q Consensus        16 ~~~l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~veei   74 (107)
                      |++|+|+|+||.||+++++++||++|||+|+|++|+++|||+++|||+||+|||+|||+
T Consensus         1 m~~~~I~~vRs~ig~~~~~r~tl~~LgL~k~~~~v~~~dtp~~rGmi~kV~~lV~vee~   59 (59)
T PRK05611          1 MKTLKITLVKSLIGRKPKQRATLRGLGLRKINSTVELEDTPAIRGMINKVSHLVKVEEV   59 (59)
T ss_pred             CCcEEEEEeecCCCCCHHHHHHHHHcCCCcCCCEEEecCCHHHHHHHHHhHhhEEEEeC
Confidence            35799999999999999999999999999999999999999999999999999999985

>TIGR01308 rpmD_bact ribosomal protein L30, bacterial/organelle

Probab=99.92  E-value=2.2e-25  Score=140.98  Aligned_cols=55  Identities=44%  Similarity=0.693  Sum_probs=53.9

Q ss_pred             EEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEe
Q 033963           19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIET   73 (107)
Q Consensus        19 l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~vee   73 (107)
                      ++|+|+||.||+++++++||++|||+|+|++|+++|||+++|||+||+|||+|||
T Consensus         1 lkItlvrs~ig~~~~~r~tl~~LgL~k~~~~v~~~dtp~irGMi~kV~~lV~vee   55 (55)
T TIGR01308         1 IKVTLVRSLIGRPKKQRKTLKALGLRKIGRQVVLEDNPAIRGMVNKVKHLVKVEE   55 (55)
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHcCCCcCCCEEEecCCHHHHHHHHHhHheEEEeC
Confidence            5899999999999999999999999999999999999999999999999999986

This model describes bacterial (and organellar) 50S ribosomal protein L30. Homologous ribosomal proteins of the eukaryotic cytosol and of the archaea differ substantially in architecture, from bacterial L30 and also from each other, and are described by separate models.

>COG1841 RpmD Ribosomal protein L30/L7E [Translation, ribosomal structure and biogenesis]

Probab=99.91  E-value=6.4e-25  Score=139.43  Aligned_cols=55  Identities=47%  Similarity=0.627  Sum_probs=53.7

Q ss_pred             EEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEe
Q 033963           19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIET   73 (107)
Q Consensus        19 l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~vee   73 (107)
                      ++|+|+||+||+|++|++||++|||+|+|++|+++|||+++|||+||+|||+|||
T Consensus         1 ~~V~~iRs~ig~~~~~r~tl~~LgL~kin~~v~~~dtp~irGMi~kV~~lV~v~e   55 (55)
T COG1841           1 LKVTLIRSPIGRPPKIRKTLRLLGLRKINHTVIVEDTPAVRGMLNKVKHLVTVGE   55 (55)
T ss_pred             CeEEEEeccCCCChHHHHHHHHhCCCccCCEEEEcCCHHHHHHHHHHHhheEecC
Confidence            5899999999999999999999999999999999999999999999999999986

>cd01658 Ribosomal_L30 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa

Probab=99.91  E-value=1.7e-24  Score=136.16  Aligned_cols=54  Identities=48%  Similarity=0.737  Sum_probs=52.8

Q ss_pred             EEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEE
Q 033963           19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE   72 (107)
Q Consensus        19 l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~ve   72 (107)
                      ++|+|+||.||.++++++||++|||+|+|++|+++|||+++|||+||+|||+||
T Consensus         1 ~~i~~iRs~ig~~~~~r~tl~~LgL~k~~~~v~~~~tp~~~Gml~kV~~lV~ve   54 (54)
T cd01658           1 LKITLVKSLIGRPKKQRATLKALGLKKINQTVVHKDTPSIRGMINKVKHLVKVE   54 (54)
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHcCCCcCCCEEEecCCHHHHHHHHHHhheEEeC
Confidence            589999999999999999999999999999999999999999999999999986

L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome. The eukaryotic L30 members have N- and/or C-terminal extensions not found in their prokaryotic orthologs. L30 is closely related to the ribosomal L7 protein found in eukaryotes and archaea.

>cd00355 Ribosomal_L30_like Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa

Probab=99.87  E-value=3e-22  Score=124.70  Aligned_cols=53  Identities=47%  Similarity=0.684  Sum_probs=51.8

Q ss_pred             EEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEE
Q 033963           20 YITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE   72 (107)
Q Consensus        20 ~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~ve   72 (107)
                      +|+|+||.+|+++++++||++|||+|+|++|+++|||+++|||++|+|||+||
T Consensus         1 ~V~~irs~ig~~~~~~~tl~~LgL~k~~~~v~~~~tp~~~gml~kV~~lV~~~   53 (53)
T cd00355           1 KVTRVRSLIGRPPKQRKTLKALGLRKINQTVFVKDTPSIRGMLRKVKHLVTVG   53 (53)
T ss_pred             CEEEecCCCCCCHHHHHHHHHcCCCcCCCEEEEeCCHHHHHHHHhccceEEEC
Confidence            48999999999999999999999999999999999999999999999999996

L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome. The eukaryotic L30 members have N- and/or C-terminal extensions not found in their prokaryotic orthologs. L30 is closely related to the ribosomal L7 protein found in eukaryotes and archaea.

>PF00327 Ribosomal_L30: Ribosomal protein L30p/L7e; InterPro: IPR016082 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.83  E-value=9.8e-21  Score=117.35  Aligned_cols=52  Identities=48%  Similarity=0.682  Sum_probs=48.7

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccce
Q 033963           18 NLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLV   69 (107)
Q Consensus        18 ~l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV   69 (107)
                      .++|+|+||.+|.++++++||++|||+|+|++|+++|||+++|||++|+|||
T Consensus         1 ~l~V~~irs~~g~~~~~~~tl~~LgL~k~~~~v~~~~t~~~~gml~kV~~lV   52 (52)
T PF00327_consen    1 LLFVTRIRSPIGAPPKVRKTLKALGLRKINQAVFVKNTPSIRGMLKKVKHLV   52 (52)
T ss_dssp             EEEEEESS-STTSSHHHHHHHHHTT-SSTTEEEEEESSHHHHHHHHHTGCGE
T ss_pred             CEEEEEeCCCCCCCHHHHHHHHHcCCCcCCCEEEEECCHHHHHHHHHHHhhC
Confidence            4789999999999999999999999999999999999999999999999997

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 L30 is one of the proteins from the large ribosomal subunit. L30 belongs to a family of ribosomal proteins which, on the basis of sequence similarities [], groups bacteria and archaea L30, yeast mitochondrial L33, and Drosophila melanogaster, Dictyostelium discoideum (Slime mold), fungal and mammalian L7 ribosomal proteins. L30 from bacteria are small proteins of about 60 residues, those from archaea are proteins of about 150 residues, and eukaryotic L7 are proteins of about 250 to 270 residues. This entry represents a domain with a ferredoxin-like fold, with a core structure consisting of core: beta-alpha-beta-alpha-beta. This domain is found in prokaryotic ribosomal protein L30 (short-chain member of the family), as well as in archaeal L30 (L30a) (long-chain member of the family), the later containing an additional C-terminal (sub)domain).; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3DF2_Y 3DF4_Y 3O5H_G 3O58_G 1S1I_F 3IZS_e 1M1K_X 1M90_X 1QVG_V 1YIT_W ....

>PRK06049 rpl30p 50S ribosomal protein L30P; Reviewed

Probab=99.80  E-value=1e-19  Score=135.32  Aligned_cols=68  Identities=28%  Similarity=0.289  Sum_probs=63.2

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEecccHHHHHHHHH
Q 033963           18 NLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARKEKLA   85 (107)
Q Consensus        18 ~l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~veei~~~~~r~~~~~   85 (107)
                      .+.|+|+||.+|+++++++||++|||+|+|++|+++|||+++|||++|+|||+|+|++.+..++-...
T Consensus         2 ~~~ViriRg~ig~~~~~r~tL~~LgL~ki~~~V~v~~tp~~~GML~kV~~~V~~ge~~~~tv~~Li~k   69 (154)
T PRK06049          2 MYAVIRIRGRVNVPRDIADTLKMLRLHRVNHCVLVPETPSYKGMLQKVKDYVTWGEIDADTLAELLRK   69 (154)
T ss_pred             cEEEEEecCCCCCCHHHHHHHHHcCCCcCCCEEEEeCCHHHHHHHHhhhceeEEeeCchHHHHHHHHH
Confidence            47899999999999999999999999999999999999999999999999999999998887664433

>TIGR01309 L30P_arch 50S ribosomal protein L30P, archaeal

Probab=99.78  E-value=4.4e-19  Score=131.69  Aligned_cols=67  Identities=33%  Similarity=0.304  Sum_probs=62.9

Q ss_pred             EEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEecccHHHHHHHHH
Q 033963           19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARKEKLA   85 (107)
Q Consensus        19 l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~veei~~~~~r~~~~~   85 (107)
                      +.|+|+||.+|.++++++||++|||+|+|++|++++||+++|||++|+|||+|+|++.+..++....
T Consensus         1 ~~ViriRg~ig~~~~~r~tL~~LrL~ri~~~V~v~~tp~~~gML~kV~~yV~~ge~~~~tv~~Li~k   67 (152)
T TIGR01309         1 LAVIRIRGTVDVPRDIADTLEMLRLHRVNHCVLYPETPTYLGMLQKVKDYVTWGEIDEDTLELLIRK   67 (152)
T ss_pred             CeEEEecCcCCCCHHHHHHHHHcCCCcCCCEEEEeCCHHHHHHHHHhHhheeEecCCHHHHHHHHHH
Confidence            4699999999999999999999999999999999999999999999999999999999987775544

This model represents the archaeal ribosomal protein similar to longer (~ 250 residue) eukaryotic 60S ribosomal protein L7 and to the much shorter (~ 60 residue) bacterial 50S ribosomal protein L30. Protein naming follows the SwissProt designation as L30P, while the gene symbol rpmD follows TIGR usage.

>cd01657 Ribosomal_L7_archeal_euk Ribosomal protein L7, which is found in archaea and eukaryotes but not in prokaryotes, binds domain II of the 23S rRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome

Probab=99.74  E-value=5.1e-18  Score=126.24  Aligned_cols=67  Identities=28%  Similarity=0.356  Sum_probs=63.1

Q ss_pred             EEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEecccHHHHHHHHH
Q 033963           19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARKEKLA   85 (107)
Q Consensus        19 l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~veei~~~~~r~~~~~   85 (107)
                      +.|+|+||.+|.++++++||++|||+|+|++|++++||+++|||++|+|||+|++++.+..++....
T Consensus         2 ~~Virirg~~g~~~~~r~tL~~LgL~k~~~~v~~~~t~~~~gmL~kV~~~V~~ge~~~~tv~~Li~k   68 (159)
T cd01657           2 YAVVRIRGIVGVPPKIRKTLQLLRLRRINNAVFVKLTKATIGMLKKVEPYVTWGEPNLETLRELIYK   68 (159)
T ss_pred             EEEEEecCcCCCCHHHHHHHHHcCCCcCCCEEEEeCCHHHHHHHHHhhhheEeccCcHHHHHHHHHH
Confidence            6899999999999999999999999999999999999999999999999999999999987775444

The eukaryotic L7 members have an N-terminal extension not found in the archeal L7 orthologs. L7 is closely related to the ribosomal L30 protein found in eukaryotes and prokaryotes.

>TIGR01310 L7 60S ribosomal protein L7, eukaryotic

Probab=99.46  E-value=2.5e-13  Score=106.98  Aligned_cols=75  Identities=23%  Similarity=0.313  Sum_probs=68.0

Q ss_pred             cCCCCCCCeEEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEecccHHHHHHHHH
Q 033963           10 CVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARKEKLA   85 (107)
Q Consensus        10 ~~p~~~~~~l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~veei~~~~~r~~~~~   85 (107)
                      ++|++ .+.+.|+++||..|.+|++++||+.|+|+++|++|++++||++.|||++|++||+|++++.+..++....
T Consensus        67 ~~~~e-~kl~fVIRirG~~~v~p~v~k~L~lLRL~~in~~Vfvk~~~~~~~ML~~VepYVt~G~p~l~tvr~Li~K  141 (235)
T TIGR01310        67 YVPAE-HKLLFVIRIKGINGIPPKPRKVLRLLRLKQVHNGVFVKVNKATLQMLRIVEPYVAYGYPNLKSVRELIYK  141 (235)
T ss_pred             CCCCC-CeEEEEEEeCCCCCCCHHHHHHHHHhCCCccceEEEEECCHHHHHHHHhcCCeEEEecCCHHHHHHHHHH
Confidence            44544 6889999999999999999999999999999999999999999999999999999999999987764433

Members of this family average ~ 250 residues in length, somewhat longer than the archaeal L30P/L7E homolog (~ 155 residues) and much longer than the related bacterial/organellar form (~ 60 residues).

>KOG4799 consensus Mitochondrial ribosomal protein L30 [Translation, ribosomal structure and biogenesis]

Probab=98.86  E-value=5.1e-09  Score=79.59  Aligned_cols=64  Identities=19%  Similarity=0.234  Sum_probs=60.4

Q ss_pred             CCCCCCeEEEEEecCCCCCCHHHHHHHHHhCCCCCCc-eEEecCChhhHhHHhccccceEEEecc
Q 033963           12 PIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNR-TVMRWNTPTVRGMLQQVKRLVVIETEE   75 (107)
Q Consensus        12 p~~~~~~l~ItliRS~ig~~~~~r~TLk~LGL~K~~~-~Vi~~dtP~irGMI~KVkhLV~veei~   75 (107)
                      |..+++...|+++||+-+.|+|.++++++|||.+... .-+++|+|+++..|++|||||++.++.
T Consensus        53 P~~p~KL~~v~rik~t~~~PyWek~iik~lGld~k~t~~qV~kNip~vNakLwkIKHLI~~~pv~  117 (182)
T KOG4799|consen   53 PQNPHKLHIVTRIKSTRRRPYWEKDIIKMLGLDKKHTRPQVHKNIPSVNAKLWKIKHLIRLRPVE  117 (182)
T ss_pred             CCCccceEEEEEeccccCCcchHHHHHHHhCcccccCCceEeecccchhhHHHHhhheeEEEeec
Confidence            6777999999999999999999999999999998887 889999999999999999999998884

>KOG3184 consensus 60S ribosomal protein L7 [Translation, ribosomal structure and biogenesis]

Probab=97.48  E-value=0.00021  Score=56.67  Aligned_cols=69  Identities=16%  Similarity=0.202  Sum_probs=63.5

Q ss_pred             CCCCCeEEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEecccHHHHH
Q 033963           13 IEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARK   81 (107)
Q Consensus        13 ~~~~~~l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~veei~~~~~r~   81 (107)
                      |++.+...|.++||..|.+++.+++|..|.|+.++..+++..|++..-||.-|..||+|+-.+-...++
T Consensus        70 ~~e~~l~fvvri~gin~v~pk~~k~l~lLrL~~If~g~fVKlnk~~~~mLriVepYVa~G~pnlksv~e  138 (235)
T KOG3184|consen   70 PAEPKLAFVIRIRGVNGVEPKSRKVLQLLRLKQIFNGTFVKLNKATVNMLRIVEPYIAWGYPNLKSVSE  138 (235)
T ss_pred             ccccccceeeecccccccCchHHHHHHHHHhhccccceeEEechhhhhhHhhcccceeeccCcHHHHHH
Confidence            444677899999999999999999999999999999999999999999999999999999988777555

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	107
3r8s_Z	58	50S ribosomal protein L30; protein biosynthesis, R	2e-13
2zjr_W	55	50S ribosomal protein L30; ribosome, large ribosom	3e-13
1bxy_A	60	Protein (ribosomal protein L30); X-RAY crystallogr	8e-13
1vq8_W	154	50S ribosomal protein L30P; ribosome 50S, protein-	8e-10

>3r8s_Z 50S ribosomal protein L30; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_X 1p86_X 2awb_Y 2aw4_Y 2i2v_Z 2j28_Y 2i2t_Z* 2qao_Y* 2qba_Y* 2qbc_Y* 2qbe_Y 2qbg_Y 2qbi_Y* 2qbk_Y* 2qov_Y 2qox_Y 2qoz_Y* 2qp1_Y* 2rdo_Y 2vhm_Y ... Length = 58

 Score = 58.7 bits (143), Expect = 2e-13
 Identities = 21/54 (38%), Positives = 29/54 (53%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          + IT  R   G    H+ TL  L LR+   TV R +TP +RGM+  V  +V +E
Sbjct: 4  IKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVE 57

>2zjr_W 50S ribosomal protein L30; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.59.1.1 PDB: 1nwx_X* 1nwy_X* 1pnu_X 1pny_X 1sm1_X* 1vor_Z 1vou_Z 1vow_Z 1voy_Z 1vp0_Z 1xbp_X* 2zjp_W* 2zjq_W 1nkw_X 3cf5_W* 3dll_W* 3pio_W* 3pip_W* Length = 55

 Score = 57.9 bits (141), Expect = 3e-13
 Identities = 20/54 (37%), Positives = 32/54 (59%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          + I LVR + G      +T++AL LRK   +    +TP VRGM++ VK L+ ++
Sbjct: 1  MKIKLVRSVIGRPGNQVKTVQALGLRKIGDSREVSDTPAVRGMVKTVKHLLEVQ 54

>1bxy_A Protein (ribosomal protein L30); X-RAY crystallography, conformational changes, ribosome; 1.90A {Thermus thermophilus} SCOP: d.59.1.1 PDB: 1giy_X 1ml5_x* 1vsa_X 1vsp_X 1yl3_X 2b66_3 2b9n_3 2b9p_3 2hgj_2 2hgq_2 2hgu_2 2j01_3 2j03_3 2jl6_3 2jl8_3 2v47_3 2v49_3 2wdi_3 2wdj_3 2wdl_3 ... Length = 60

 Score = 57.1 bits (139), Expect = 8e-13
 Identities = 17/54 (31%), Positives = 31/54 (57%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          L + LV+   G  +  +  L+AL LR+  +  +  +TP +RG +++V  LV +E
Sbjct: 4  LKVKLVKSPIGYPKDQKAALKALGLRRLQQERVLEDTPAIRGNVEKVAHLVRVE 57

>1vq8_W 50S ribosomal protein L30P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: d.59.1.1 PDB: 1jj2_V 1k73_X* 1k8a_X* 1k9m_X* 1kc8_X* 1kd1_X* 1kqs_V* 1m1k_X* 1m90_X* 1n8r_X* 1nji_X* 1q7y_X* 1q81_X* 1q82_X* 1q86_X* 1qvf_V 1qvg_V 1s72_W* 1vq4_W* 1vq5_W* ... Length = 154

 Score = 51.8 bits (124), Expect = 8e-10
 Identities = 16/87 (18%), Positives = 28/87 (32%), Gaps = 2/87 (2%)

Query: 19  LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE--TEEM 76
             +  +RG        + TLE L +   N   +   T   RGM+ +V   V     ++E 
Sbjct: 2   HALVQLRGEVNMHTDIQDTLEMLNIHHVNHCTLVPETDAYRGMVAKVNDFVAFGEPSQET 61

Query: 77  YKARKEKLANHQALRPPMVINHLPSST 103
            +      A        +    +   T
Sbjct: 62  LETVLATRAEPLEGDADVDDEWVAEHT 88

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	107
1bxy_A	60	Protein (ribosomal protein L30); X-RAY crystallogr	99.95
3r8s_Z	58	50S ribosomal protein L30; protein biosynthesis, R	99.94
2zjr_W	55	50S ribosomal protein L30; ribosome, large ribosom	99.93
3j21_Y	155	50S ribosomal protein L30P; archaea, archaeal, KIN	99.82
1vq8_W	154	50S ribosomal protein L30P; ribosome 50S, protein-	99.79
3iz5_e	244	60S ribosomal protein L7 (L30P); eukaryotic riboso	99.73
4a17_V	239	RPL7, 60S ribosomal protein L7; eukaryotic ribosom	99.72
3izc_e	244	60S ribosomal protein RPL7 (L30P); eukaryotic ribo	99.72
2zkr_w	270	60S ribosomal protein L7; protein-RNA complex, 60S	99.7
3jyw_F	213	60S ribosomal protein L7(A); eukaryotic ribosome,	98.49

>1bxy_A Protein (ribosomal protein L30); X-RAY crystallography, conformational changes, ribosome; 1.90A {Thermus thermophilus} SCOP: d.59.1.1 PDB: 1giy_X 1ml5_x* 1vsa_X 1vsp_X 1yl3_X 2b66_3 2b9n_3 2b9p_3 2hgj_2 2hgq_2 2hgu_2 2j01_3 2j03_3 2jl6_3 2jl8_3 2v47_3 2v49_3 2wdi_3 2wdj_3 2wdl_3 ...

Probab=99.95  E-value=3.1e-28  Score=155.77  Aligned_cols=60  Identities=32%  Similarity=0.483  Sum_probs=57.8

Q ss_pred             CCeEEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEecc
Q 033963           16 SPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEE   75 (107)
Q Consensus        16 ~~~l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~veei~   75 (107)
                      |++++|||+||.||++++|++||++|||+|+|++|+++|||+++|||+||+|||+|||+|
T Consensus         1 m~~~kItlvrS~ig~~~~~r~tl~~LGL~k~~~~v~~~dtp~irGMI~kV~hlV~veev~   60 (60)
T 1bxy_A            1 MPRLKVKLVKSPIGYPKDQKAALKALGLRRLQQERVLEDTPAIRGNVEKVAHLVRVEVVE   60 (60)
T ss_dssp             CCEEEEEECSCCTTCCHHHHHHHHHHTCCSTTCEEEEECCHHHHHHHHHTTTTEEEEEEC
T ss_pred             CCcEEEEEeecCCCCCHHHHHHHHHhCCCCCCCEEEecCCHHHHhHHHHhHheEEEEecC
Confidence            456999999999999999999999999999999999999999999999999999999985

>3r8s_Z 50S ribosomal protein L30; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_X 1p86_X 2awb_Y 2aw4_Y 2i2v_Z 2j28_Y 2i2t_Z* 2qao_Y* 2qba_Y* 2qbc_Y* 2qbe_Y 2qbg_Y 2qbi_Y* 2qbk_Y* 2qov_Y 2qox_Y 2qoz_Y* 2qp1_Y* 2rdo_Y 2vhm_Y ...

Probab=99.94  E-value=1.2e-27  Score=152.20  Aligned_cols=58  Identities=36%  Similarity=0.500  Sum_probs=56.4

Q ss_pred             CCeEEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEe
Q 033963           16 SPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIET   73 (107)
Q Consensus        16 ~~~l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~vee   73 (107)
                      +++|+|||+||.||++++|++||++|||+|+|++|+++|||+++|||+||+|||+|||
T Consensus         1 ~~~lkItlvrS~ig~~~~~r~tl~~LGL~k~~~~v~~~dtp~irGMI~kV~hLV~vee   58 (58)
T 3r8s_Z            1 AKTIKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVEE   58 (58)
T ss_dssp             CCEEEEEECSCSTTCCHHHHHHHHHHTCCSTTCCCEEECCHHHHHHHHHTGGGEEEEC
T ss_pred             CCeEEEEEeecCCCCCHHHHHHHHHcCCCCCCCEEEecCCHHHHHHHHHHHheEEEeC
Confidence            4689999999999999999999999999999999999999999999999999999996

>2zjr_W 50S ribosomal protein L30; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.59.1.1 PDB: 1nwx_X* 1nwy_X* 1pnu_X 1pny_X 1sm1_X* 1vor_Z 1vou_Z 1vow_Z 1voy_Z 1vp0_Z 1xbp_X* 2zjp_W* 2zjq_W 1nkw_X 3cf5_W* 3dll_W* 3pio_W* 3pip_W*

Probab=99.93  E-value=6.2e-27  Score=147.49  Aligned_cols=55  Identities=36%  Similarity=0.517  Sum_probs=53.8

Q ss_pred             EEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEe
Q 033963           19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIET   73 (107)
Q Consensus        19 l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~vee   73 (107)
                      ++|||+||.||++++|++||++|||+|+|++|+++|||+++|||+||+|||+|||
T Consensus         1 ~kIt~vrS~ig~~~~~r~tl~~LGL~k~~~~v~~~dtp~irGMI~kV~hlV~vee   55 (55)
T 2zjr_W            1 MKIKLVRSVIGRPGNQVKTVQALGLRKIGDSREVSDTPAVRGMVKTVKHLLEVQE   55 (55)
T ss_dssp             CEEEBCSCSTTSCHHHHHHHHHTTCCSTTCEEECCCSHHHHHHHHHTGGGBCCCC
T ss_pred             CEEEEEecCCCCCHHHHHHHHHhCCCCCCCEEEecCCHHHHHHHHHhHhhEEEeC
Confidence            5899999999999999999999999999999999999999999999999999986

>3j21_Y 50S ribosomal protein L30P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=99.82  E-value=2.3e-20  Score=137.49  Aligned_cols=69  Identities=29%  Similarity=0.326  Sum_probs=64.2

Q ss_pred             CCeEEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEecccHHHHHHHH
Q 033963           16 SPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARKEKL   84 (107)
Q Consensus        16 ~~~l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~veei~~~~~r~~~~   84 (107)
                      |++++|+|+||.+|+++++++||++|||+|+|++|+++|||+++|||++|+|||+||+++....++-..
T Consensus         1 m~~~~V~~irs~ig~~~~~r~tL~~LgL~ki~~~v~~~~tp~~~gMl~kV~~lV~vgep~~ksv~eLi~   69 (155)
T 3j21_Y            1 MAKLAVIRIRGRVNVKRPVRDTLAMLRLHRVNHCVIVDDTPSYLGMLQKAKDYITWGEINAETLAKLIR   69 (155)
T ss_dssp             CCEEEEEECSCSTTCCHHHHHHHHHTTCCSTTEEEEEECCHHHHHHHHHHTTTEEEEECCHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCCCHHHHHHHHHcCCCcCCCEEEEcCCHHHHHHHHhhhcceEEEcCCHHHHHHHHH
Confidence            567999999999999999999999999999999999999999999999999999999999877665433

>1vq8_W 50S ribosomal protein L30P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: d.59.1.1 PDB: 1jj2_V 1k73_X* 1k8a_X* 1k9m_X* 1kc8_X* 1kd1_X* 1kqs_V* 1m1k_X* 1m90_X* 1n8r_X* 1nji_X* 1q7y_X* 1q81_X* 1q82_X* 1q86_X* 1qvf_V 1qvg_V 1s72_W* 1vq4_W* 1vq5_W* ...

Probab=99.79  E-value=2.8e-19  Score=131.64  Aligned_cols=67  Identities=19%  Similarity=0.202  Sum_probs=62.3

Q ss_pred             EEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEecccHHHHHHHHH
Q 033963           19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARKEKLA   85 (107)
Q Consensus        19 l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~veei~~~~~r~~~~~   85 (107)
                      +.|+|+||.+|+++++++||++|||+|+|++|+++|||+++|||++|+|||+||+++.+..++-...
T Consensus         2 ~fV~rirs~ig~~~~~r~tL~~LgL~ki~~~v~~~~tp~~~gMl~kV~~~V~vge~~l~sv~~Li~K   68 (154)
T 1vq8_W            2 HALVQLRGEVNMHTDIQDTLEMLNIHHVNHCTLVPETDAYRGMVAKVNDFVAFGEPSQETLETVLAT   68 (154)
T ss_dssp             EEEEECSCSTTSCHHHHHHHHHTTCCSTTEEEEECCCHHHHHHHHHSGGGEEEECCCHHHHHHHHHH
T ss_pred             EEEEEeCCcCCCCHHHHHHHHHcCCCcCCCEEEEeCCHHHHHHHHhhCceEEEecCchhhHHHHHHh
Confidence            5899999999999999999999999999999999999999999999999999999998876664443

>4a17_V RPL7, 60S ribosomal protein L7; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_V 4a1c_V 4a1e_V

Probab=99.72  E-value=7.2e-18  Score=131.67  Aligned_cols=75  Identities=17%  Similarity=0.199  Sum_probs=68.9

Q ss_pred             cCCCCCCCeEEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEecccHHHHHHHHH
Q 033963           10 CVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARKEKLA   85 (107)
Q Consensus        10 ~~p~~~~~~l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~veei~~~~~r~~~~~   85 (107)
                      ++|++ .+.+.|+++||.+|.++++++||++|||+++|++|++++||+++|||++|+|||+|++++....++-...
T Consensus        73 ~~~~e-~kl~fVirIRg~ig~~~~~rktL~~LgL~ki~~~Vfvk~npa~~gMLr~V~pyV~~G~pnlksv~eLi~K  147 (239)
T 4a17_V           73 YVPAE-AKVAFAIRIRGVNQLHPDVKRVLRLFRLRQLHNGAFFRVNKASLNMIKRVLPFITFGYPTRNTISKLIYK  147 (239)
T ss_dssp             EECCC-CCEEEEEECSCSSSCCHHHHHHHHHTTCCBTTEEEEEECCHHHHHTTGGGGGGEEEECCCHHHHHHHHHH
T ss_pred             CCCCC-ceEEEEEEecccCCCCHHHHHHHHHcCCCccCCeEEEeCCHHHHHHHHHhhhceeeecCCHHHHHHHHHh
Confidence            56666 7789999999999999999999999999999999999999999999999999999999999887764443

>2zkr_w 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=99.70  E-value=2.6e-18  Score=136.19  Aligned_cols=75  Identities=20%  Similarity=0.250  Sum_probs=63.7

Q ss_pred             cCCCCCCCeEEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEecccHHHHHHHHH
Q 033963           10 CVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARKEKLA   85 (107)
Q Consensus        10 ~~p~~~~~~l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~veei~~~~~r~~~~~   85 (107)
                      ++|++ .+.++|+|+||.+|+++++++||++|||+++|++|+++|||+++|||++|.|||+||+++....++-...
T Consensus       104 yvp~e-~kl~~V~rirs~ig~~~~~rktL~~LgLrki~~~V~v~dtpa~rgML~kV~~~V~vgepnlksv~eLi~K  178 (270)
T 2zkr_w          104 YVPAE-PKLAFVIRIRGINGVSPKVRKVLQLLRLRQIFNGTFVKLNKASINMLRIVEPYIAWGYPNLKSVNELIYK  178 (270)
T ss_dssp             --------CEEEECCSCSSSSCTTSSSHHHHTCCCSSSEEEEECCCHHHHHTTTSSTTSCBCCCCCTTTHHHHHHH
T ss_pred             cccCC-CceeEEEEeCCcCCCCHHHHHHHHHcCCCcCCCeEEEeCCHHHHHHHHhcccceeEecCCHHHHHHHHHh
Confidence            45666 5789999999999999999999999999999999999999999999999999999999998876664433

>3jyw_F 60S ribosomal protein L7(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_F

Probab=98.49  E-value=5e-08  Score=74.30  Aligned_cols=75  Identities=16%  Similarity=0.201  Sum_probs=65.7

Q ss_pred             hcCCCCCCCeEEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEecccHHHHHHHH
Q 033963            9 ACVPIEWSPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARKEKL   84 (107)
Q Consensus         9 ~~~p~~~~~~l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~veei~~~~~r~~~~   84 (107)
                      ..+|.. .+.+.+.++|+..+.+++.+++++.|+|+++++.++++.|+++.+||++|+.||+|++++..-.++-..
T Consensus        44 ~Svp~e-~kL~fVIRIrGin~ispk~rkvLqLLRL~rInsgvfvk~~k~t~~mL~~VepyV~~G~p~l~tv~eLi~  118 (213)
T 3jyw_F           44 AAAAAA-AGLVFVVRIKGINKIPPKPRKVLQLLRLTRINSGTFVKVTKATLELLKLIEPYVAYGYPSYSTIRQLVY  118 (213)
T ss_dssp             HTCSCC-CCCCCCCCCSCSSCCCHHHHHHHGGGCCCSSSCBCCCCCSSTTTTHHHHTTTTSCEECCCSSTTTSHHH
T ss_pred             hhCccc-CccceeeeecCccCCCCchHHHHHHcccceecceEEecCCHHHHHHHhhccchheeecCCHHHHHHHHH
Confidence            344444 556778999999999999999999999999999999999999999999999999999999877665433

---

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	107
d1bxya_	60	d.59.1.1 (A:) Prokaryotic ribosomal protein L30 {T	2e-16
d2gycx1	56	d.59.1.1 (X:3-58) Prokaryotic ribosomal protein L3	4e-16
d2zjrw1	55	d.59.1.1 (W:1-55) Prokaryotic ribosomal protein L3	4e-16
d1vqow1	154	d.59.1.1 (W:1-154) Archaeal L30 (L30a) {Archaeon H	9e-13

>d1bxya_ d.59.1.1 (A:) Prokaryotic ribosomal protein L30 {Thermus thermophilus [TaxId: 274]} Length = 60

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L30p/L7e
superfamily: Ribosomal protein L30p/L7e
family: Ribosomal protein L30p/L7e
domain: Prokaryotic ribosomal protein L30
species: Thermus thermophilus [TaxId: 274]

 Score = 65.3 bits (160), Expect = 2e-16
 Identities = 19/59 (32%), Positives = 33/59 (55%)

Query: 17 PNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEE 75
          P L + LV+   G  +  +  L+AL LR+  +  +  +TP +RG +++V  LV +E  E
Sbjct: 2  PRLKVKLVKSPIGYPKDQKAALKALGLRRLQQERVLEDTPAIRGNVEKVAHLVRVEVVE 60

>d2gycx1 d.59.1.1 (X:3-58) Prokaryotic ribosomal protein L30 {Escherichia coli [TaxId: 562]} Length = 56

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L30p/L7e
superfamily: Ribosomal protein L30p/L7e
family: Ribosomal protein L30p/L7e
domain: Prokaryotic ribosomal protein L30
species: Escherichia coli [TaxId: 562]

 Score = 64.5 bits (158), Expect = 4e-16
 Identities = 21/54 (38%), Positives = 29/54 (53%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          + IT  R   G    H+ TL  L LR+   TV R +TP +RGM+  V  +V +E
Sbjct: 2  IKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVE 55

>d2zjrw1 d.59.1.1 (W:1-55) Prokaryotic ribosomal protein L30 {Deinococcus radiodurans [TaxId: 1299]} Length = 55

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L30p/L7e
superfamily: Ribosomal protein L30p/L7e
family: Ribosomal protein L30p/L7e
domain: Prokaryotic ribosomal protein L30
species: Deinococcus radiodurans [TaxId: 1299]

 Score = 64.2 bits (157), Expect = 4e-16
 Identities = 20/54 (37%), Positives = 32/54 (59%)

Query: 19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIE 72
          + I LVR + G      +T++AL LRK   +    +TP VRGM++ VK L+ ++
Sbjct: 1  MKIKLVRSVIGRPGNQVKTVQALGLRKIGDSREVSDTPAVRGMVKTVKHLLEVQ 54

>d1vqow1 d.59.1.1 (W:1-154) Archaeal L30 (L30a) {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 154

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L30p/L7e
superfamily: Ribosomal protein L30p/L7e
family: Ribosomal protein L30p/L7e
domain: Archaeal L30 (L30a)
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score = 58.3 bits (141), Expect = 9e-13
 Identities = 13/61 (21%), Positives = 20/61 (32%)

Query: 21 ITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKAR 80
          +  +RG        + TLE L +   N   +   T   RGM+ +V   V           
Sbjct: 4  LVQLRGEVNMHTDIQDTLEMLNIHHVNHCTLVPETDAYRGMVAKVNDFVAFGEPSQETLE 63

Query: 81 K 81
           
Sbjct: 64 T 64

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	107
d1bxya_	60	Prokaryotic ribosomal protein L30 {Thermus thermop	99.94
d2gycx1	56	Prokaryotic ribosomal protein L30 {Escherichia col	99.93
d2zjrw1	55	Prokaryotic ribosomal protein L30 {Deinococcus rad	99.92
d1vqow1	154	Archaeal L30 (L30a) {Archaeon Haloarcula marismort	99.76

>d1bxya_ d.59.1.1 (A:) Prokaryotic ribosomal protein L30 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L30p/L7e
superfamily: Ribosomal protein L30p/L7e
family: Ribosomal protein L30p/L7e
domain: Prokaryotic ribosomal protein L30
species: Thermus thermophilus [TaxId: 274]

Probab=99.94  E-value=9e-28  Score=152.01  Aligned_cols=60  Identities=32%  Similarity=0.483  Sum_probs=58.4

Q ss_pred             CCeEEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEecc
Q 033963           16 SPNLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEE   75 (107)
Q Consensus        16 ~~~l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~veei~   75 (107)
                      |.+|+|||+||.||+++++++||++|||+|+|++|+++|||+++|||+||+|||+|||++
T Consensus         1 MaklkIt~vrS~iG~~~~~k~tl~~LGL~k~~~~v~~~~tp~i~Gmi~kVkhLV~Veev~   60 (60)
T d1bxya_           1 MPRLKVKLVKSPIGYPKDQKAALKALGLRRLQQERVLEDTPAIRGNVEKVAHLVRVEVVE   60 (60)
T ss_dssp             CCEEEEEECSCCTTCCHHHHHHHHHHTCCSTTCEEEEECCHHHHHHHHHTTTTEEEEEEC
T ss_pred             CCcEEEEEecCCCCCCHHHHHHHHHcCCCCCCCEEEeCCCHHHHHHHHhhhheeEEEEcC
Confidence            567999999999999999999999999999999999999999999999999999999986

>d2gycx1 d.59.1.1 (X:3-58) Prokaryotic ribosomal protein L30 {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L30p/L7e
superfamily: Ribosomal protein L30p/L7e
family: Ribosomal protein L30p/L7e
domain: Prokaryotic ribosomal protein L30
species: Escherichia coli [TaxId: 562]

Probab=99.93  E-value=1.1e-26  Score=145.23  Aligned_cols=56  Identities=38%  Similarity=0.515  Sum_probs=54.7

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEe
Q 033963           18 NLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIET   73 (107)
Q Consensus        18 ~l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~vee   73 (107)
                      .|+|+|+||.||+++++++||++|||+|+|++|+++|||+++|||+||+|||+|||
T Consensus         1 tikItlvrS~ig~~~~~r~tl~~LGL~k~~~~v~~~dtp~irGmi~kVkhLV~veE   56 (56)
T d2gycx1           1 TIKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVEE   56 (56)
T ss_dssp             CEEEEECSCSSSCCTTHHHHHHHHTCCSTTCEEEECCCTTHHHHHHHTTTTEECCC
T ss_pred             CEEEEEecCCCCCCHHHHHHHHHhCCCCCCCEEEeCCCHHHHHHHHhhhheeEEeC
Confidence            47999999999999999999999999999999999999999999999999999987

>d2zjrw1 d.59.1.1 (W:1-55) Prokaryotic ribosomal protein L30 {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L30p/L7e
superfamily: Ribosomal protein L30p/L7e
family: Ribosomal protein L30p/L7e
domain: Prokaryotic ribosomal protein L30
species: Deinococcus radiodurans [TaxId: 1299]

Probab=99.92  E-value=1.4e-26  Score=144.53  Aligned_cols=55  Identities=36%  Similarity=0.517  Sum_probs=53.9

Q ss_pred             EEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEe
Q 033963           19 LYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIET   73 (107)
Q Consensus        19 l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~vee   73 (107)
                      ++|||+||.||+++++++||++|||+|+|++|+++|||+++|||+||+|||+|||
T Consensus         1 lkItlvrS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtp~irGmi~kV~hLV~VeE   55 (55)
T d2zjrw1           1 MKIKLVRSVIGRPGNQVKTVQALGLRKIGDSREVSDTPAVRGMVKTVKHLLEVQE   55 (55)
T ss_dssp             CEEEBCSCSTTSCHHHHHHHHHTTCCSTTCEEECCCSHHHHHHHHHTGGGBCCCC
T ss_pred             CeEEEEcCCCCCCHHHHHHHHHhCCCCCCCEEEeCCCHHHHHHHHhhhheEEEeC
Confidence            5899999999999999999999999999999999999999999999999999987

>d1vqow1 d.59.1.1 (W:1-154) Archaeal L30 (L30a) {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L30p/L7e
superfamily: Ribosomal protein L30p/L7e
family: Ribosomal protein L30p/L7e
domain: Archaeal L30 (L30a)
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=99.76  E-value=1.4e-18  Score=126.01  Aligned_cols=69  Identities=19%  Similarity=0.187  Sum_probs=64.2

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHHhCCCCCCceEEecCChhhHhHHhccccceEEEecccHHHHHHHHHh
Q 033963           18 NLYITLVRGMPGTRRLHRRTLEALRLRKCNRTVMRWNTPTVRGMLQQVKRLVVIETEEMYKARKEKLAN   86 (107)
Q Consensus        18 ~l~ItliRS~ig~~~~~r~TLk~LGL~K~~~~Vi~~dtP~irGMI~KVkhLV~veei~~~~~r~~~~~~   86 (107)
                      .+.|+|+||.+|.++++++||++|||+++|++|++++||+++|||++|+|||+|++++.+..++.....
T Consensus         1 m~aViRIRg~ig~~~~~r~tL~~LrL~k~~~~V~~~~tp~~~gML~kVk~yVt~G~~~~~tv~~Li~kR   69 (154)
T d1vqow1           1 MHALVQLRGEVNMHTDIQDTLEMLNIHHVNHCTLVPETDAYRGMVAKVNDFVAFGEPSQETLETVLATR   69 (154)
T ss_dssp             CEEEEECSCSTTSCHHHHHHHHHTTCCSTTEEEEECCCHHHHHHHHHSTTSEEEECCCHHHHHHHHHHH
T ss_pred             CeeEEEecCCCCCCHHHHHHHHHcCCCcCCCEEEecCCHHHHHHHHhhccceeEecCCHHHHHHHHHHh
Confidence            368999999999999999999999999999999999999999999999999999999999887755543