Citrus Sinensis ID: 030925

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------17
Protein Sequence
MHSVTIKFPRLGRVFTTLKVTEAVTSSRSLCTVTESRTQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE
Secondary Structure (PSIPRED)
cccccccccccccEEEccccccccccccccccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHccccEEEEEEEccccccccEEEEEEHHcccccHHHHHHHHHHccHHHHccccHHHHHHHHHHHHHcccEEEEc
Secondary Structure Prediction (SSPRO)
ccEEEEccHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHccHHHHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHccEEEEEEEcccHHHHHHHHHHHHHHHcccHHHHHHHHHcccEEEEEEEcHHHHHHHHHHHHHHccEEEEc
Coil and Loop (DISEMBL)
mhsvtikfprlgrVFTTLKVTEAVTssrslctvtESRTQKLERISDELLDLTKLERYDFATLLGCklgldrfgpvvpafpssgpaasgstsaeTKAAEKTAFDVKLEKYDQAAKIKIIKEVKTftglglkeskdLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE
Flexible Loop (DISEMBL)
mhsvtikfprlgrvftTLKVteavtssrslctvtesrtqklerisdelldltklERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKTAFDVKLEKYDQAAKIKIIKEVKtftglglkeskdlvekapavikkgvtkeeadKIVEklkelnaivvle
Low Complexity Region (SEG)
MHSVTIKFPRLGRVFTTLKVTEAVTSSRSLCTVTESRTQKLERISDELLDLTKLERYDFATLLGCKLGLDRFgpvvpafpssgpaasgstsaetkaaektaFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE
Disordered region (IsUnstruct)
****TIKFPRLGRVFTTLKVTEAVTSSRSLCTVTESRTQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPA***********************FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVT****DKIVEKLKELNAIVV**
Disordered Region (DISOPRED)
****************************************LERISDELLDLTKLERYDFATLLGCKLGLDRFGPVV***********************TAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE
Disordered Region (DISEMBL)
MHSVTIKFPRLGRVFTTLKVTEAVTSSRSLCTVTESRTQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPS****************EKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE
Disordered Region (DISPRO)
*HSVTIKFPRLGRVFTTLKV****************RTQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAF*****************AEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MHSVTIKFPRLGRVFTTLKVTEAVTSSRSLCTVTESRTQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE
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	169	2.2.26 [Sep-21-2011]
A6LKB9	129	50S ribosomal protein L7/	yes	no	0.733	0.961	0.443	4e-14
Q1XDE8	129	50S ribosomal protein L12	N/A	no	0.733	0.961	0.380	4e-13
B3EER1	125	50S ribosomal protein L7/	yes	no	0.721	0.976	0.398	1e-12
P53163	194	54S ribosomal protein L12	yes	no	0.520	0.453	0.483	1e-11
Q4L3K1	122	50S ribosomal protein L7/	yes	no	0.414	0.573	0.563	2e-11
A7GK11	119	50S ribosomal protein L7/	yes	no	0.414	0.588	0.577	2e-11
A5FZX2	127	50S ribosomal protein L7/	yes	no	0.733	0.976	0.418	4e-11
Q211D7	123	50S ribosomal protein L7/	yes	no	0.704	0.967	0.429	5e-11
Q2IXS1	123	50S ribosomal protein L7/	yes	no	0.704	0.967	0.421	5e-11
A9BDG4	132	50S ribosomal protein L7/	yes	no	0.414	0.530	0.5	5e-11

>sp|A6LKB9|RL7_THEM4 50S ribosomal protein L7/L12 OS=Thermosipho melanesiensis (strain BI429 / DSM 12029) GN=rplL PE=3 SV=1

 Score = 77.4 bits (189), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 59/133 (44%), Positives = 80/133 (60%), Gaps = 9/133 (6%)

Query: 39  QKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAE 98
           +KLE+I +E+  LT  E  +   +L  K G+    PV+     + P A  +      A E
Sbjct: 2   EKLEQIVNEIEQLTVAELAELVKMLEDKFGVSASAPVM-----AMPVAGAAAGGGAAAEE 56

Query: 99  KTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKA---PAVIKKGVTKEEADKI 155
           KT FDV L+ +  A KI +IK V+  TGLGLKE+KDLVEKA    AVIK+GV K+EA++I
Sbjct: 57  KTEFDVVLKSFG-AKKINVIKVVREITGLGLKEAKDLVEKAGTPDAVIKQGVNKDEAEEI 115

Query: 156 VEKLKELNAIVVL 168
            +KL+E  A V L
Sbjct: 116 KKKLEEAGAEVEL 128

Seems to be the binding site for several of the factors involved in protein synthesis and appears to be essential for accurate translation.
Thermosipho melanesiensis (strain BI429 / DSM 12029) (taxid: 391009)

>sp|Q1XDE8|RK12_PORYE 50S ribosomal protein L12, chloroplastic OS=Porphyra yezoensis GN=rpl12 PE=3 SV=1

 Score = 73.9 bits (180), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 51/134 (38%), Positives = 79/134 (58%), Gaps = 10/134 (7%)

Query: 38  TQKLERISDELLDLTKLERYDFATLLGCKLGLDRF---GPVVPAFPSSGPAASGSTSAET 94
           + K+E I +EL  L  LE  +    +     +D     G ++ A P+S PA     SAE 
Sbjct: 2   STKVENILEELKSLNLLEAAELVNTIEETFDVDASAASGGMMMATPTSAPA-----SAEV 56

Query: 95  KAAEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADK 154
           +  EKT FDV LE+     KI ++K V+  TGLGLKE+KDLVE  P V+K+G +K++A+ 
Sbjct: 57  E--EKTEFDVVLEEVPAPKKISVLKVVRPLTGLGLKEAKDLVESTPKVLKEGASKDDAET 114

Query: 155 IVEKLKELNAIVVL 168
           + ++L++  A V++
Sbjct: 115 MKKQLEDAGATVIV 128

Porphyra yezoensis (taxid: 2788)

>sp|B3EER1|RL7_CHLL2 50S ribosomal protein L7/L12 OS=Chlorobium limicola (strain DSM 245 / NBRC 103803) GN=rplL PE=3 SV=1

 Score = 72.4 bits (176), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 51/128 (39%), Positives = 75/128 (58%), Gaps = 6/128 (4%)

Query: 41  LERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKT 100
           +E + +E+  LT  E  +    L  K G+     +V    S+ PA  G   A+    EKT
Sbjct: 3   IETLVEEIGKLTLTEASELVKALEEKFGVSAAPAIVAGIASAAPA--GDAPAQE---EKT 57

Query: 101 AFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLK 160
            FDV L    ++ KI +IK V+  TGLGLKE+KDLV+ AP  +K+ V+K+EA+KI ++LK
Sbjct: 58  EFDVVLTSAGES-KINVIKVVRALTGLGLKEAKDLVDGAPKTVKEAVSKDEAEKIAKELK 116

Query: 161 ELNAIVVL 168
           ++ A V L
Sbjct: 117 DVGAGVEL 124

Seems to be the binding site for several of the factors involved in protein synthesis and appears to be essential for accurate translation.

Chlorobium limicola (strain DSM 245 / NBRC 103803) (taxid: 290315)

>sp|P53163|MNP1_YEAST 54S ribosomal protein L12, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=MNP1 PE=1 SV=1

 Score = 68.9 bits (167), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 43/89 (48%), Positives = 57/89 (64%), Gaps = 1/89 (1%)

Query: 81  SSGPAASGSTSAETKAAEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAP 140
           S+G A SG+   E K   KT F VKL+ +D   K K+IKEVK   GL L E+K  VE AP
Sbjct: 107 STGEAGSGA-EEEAKPEAKTVFTVKLDSFDTKTKAKVIKEVKGLLGLSLVEAKKFVEAAP 165

Query: 141 AVIKKGVTKEEADKIVEKLKELNAIVVLE 169
            V+K+ V K++A+KI + L++L A V LE
Sbjct: 166 KVLKENVAKDDAEKIKKTLEDLGAKVSLE 194

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q4L3K1|RL7_STAHJ 50S ribosomal protein L7/L12 OS=Staphylococcus haemolyticus (strain JCSC1435) GN=rplL PE=3 SV=1

 Score = 68.9 bits (167), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 40/71 (56%), Positives = 55/71 (77%), Gaps = 1/71 (1%)

Query: 98  EKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVE 157
           EKT FDV+L     ++KIK++K VK  TGLGLK++K+LV+ AP VIK+GV KEEA+K+ E
Sbjct: 52  EKTEFDVELTSAG-SSKIKVVKAVKEATGLGLKDAKELVDNAPKVIKEGVAKEEAEKLKE 110

Query: 158 KLKELNAIVVL 168
           +L+E+ A V L
Sbjct: 111 QLEEVGATVEL 121

Seems to be the binding site for several of the factors involved in protein synthesis and appears to be essential for accurate translation.

Staphylococcus haemolyticus (strain JCSC1435) (taxid: 279808)

>sp|A7GK11|RL7_BACCN 50S ribosomal protein L7/L12 OS=Bacillus cereus subsp. cytotoxis (strain NVH 391-98) GN=rplL PE=3 SV=1

 Score = 68.9 bits (167), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 41/71 (57%), Positives = 53/71 (74%), Gaps = 1/71 (1%)

Query: 96  AAEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKI 155
           AAEKT FDV+L     A KIK+IK V+  TGLGLKE+K+LV+  P VIK+G +KEEA++I
Sbjct: 47  AAEKTEFDVELANAG-AQKIKVIKVVREITGLGLKEAKELVDNTPKVIKEGASKEEAEEI 105

Query: 156 VEKLKELNAIV 166
             KL+E+ A V
Sbjct: 106 KAKLEEVGAAV 116

Seems to be the binding site for several of the factors involved in protein synthesis and appears to be essential for accurate translation.

Bacillus cereus subsp. cytotoxis (strain NVH 391-98) (taxid: 315749)

>sp|A5FZX2|RL7_ACICJ 50S ribosomal protein L7/L12 OS=Acidiphilium cryptum (strain JF-5) GN=rplL PE=3 SV=1

 Score = 67.4 bits (163), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 54/129 (41%), Positives = 75/129 (58%), Gaps = 5/129 (3%)

Query: 41  LERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKT 100
           L  + ++L  LT LE  + + LL  K G+    PV  A  +     + +   E    EKT
Sbjct: 4   LANLVEQLSSLTVLEAAELSKLLEEKWGVSAAAPVAVAAAAPAGGGAAAAPVE----EKT 59

Query: 101 AFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLK 160
            F+V L K     KI +IKE++T TGLGLKE+KDLVE AP  +K+GV K+EA+KI + L+
Sbjct: 60  EFNVIL-KSSGDKKINVIKEIRTITGLGLKEAKDLVEGAPKTVKEGVNKDEAEKIKKVLE 118

Query: 161 ELNAIVVLE 169
           E  A V +E
Sbjct: 119 EQGASVGIE 127

Seems to be the binding site for several of the factors involved in protein synthesis and appears to be essential for accurate translation.

Acidiphilium cryptum (strain JF-5) (taxid: 349163)

>sp|Q211D7|RL7_RHOPB 50S ribosomal protein L7/L12 OS=Rhodopseudomonas palustris (strain BisB18) GN=rplL PE=3 SV=1

 Score = 67.4 bits (163), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 55/128 (42%), Positives = 76/128 (59%), Gaps = 9/128 (7%)

Query: 41  LERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKT 100
           L++I D+L  LT LE  + A LL  K G+        +  ++   A  + +A   A EKT
Sbjct: 4   LQKIVDDLSSLTVLEAAELAKLLEEKWGV--------SAAAAVAVAGPAAAAAAPAEEKT 55

Query: 101 AFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLK 160
            F V L    +  KI++IKEV+  TGLGLKE+KDLVE AP  +K+GV K+EADKI  +L+
Sbjct: 56  EFTVVLAAAGEK-KIEVIKEVRAITGLGLKEAKDLVEGAPKPVKEGVNKDEADKIKAQLE 114

Query: 161 ELNAIVVL 168
           +  A V L
Sbjct: 115 KAGAKVEL 122

Seems to be the binding site for several of the factors involved in protein synthesis and appears to be essential for accurate translation.

Rhodopseudomonas palustris (strain BisB18) (taxid: 316056)

>sp|Q2IXS1|RL7_RHOP2 50S ribosomal protein L7/L12 OS=Rhodopseudomonas palustris (strain HaA2) GN=rplL PE=3 SV=1

 Score = 67.0 bits (162), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 54/128 (42%), Positives = 74/128 (57%), Gaps = 9/128 (7%)

Query: 41  LERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKT 100
           L++I D+L  LT LE  + A LL  K G+        +  ++   A+   +A     EKT
Sbjct: 4   LQKIVDDLSSLTVLEAAELAKLLEEKWGV--------SAAAAVAVAAAPGAAAAAVEEKT 55

Query: 101 AFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLK 160
            F V L       KI++IKEV+  TGLGLKE+KDLVE AP  +K+GV KEEADK+  +L+
Sbjct: 56  EFTVMLAAAGDK-KIEVIKEVRAITGLGLKEAKDLVEGAPKPVKEGVNKEEADKLKAQLE 114

Query: 161 ELNAIVVL 168
           +  A V L
Sbjct: 115 KAGAKVEL 122

Seems to be the binding site for several of the factors involved in protein synthesis and appears to be essential for accurate translation.

Rhodopseudomonas palustris (strain HaA2) (taxid: 316058)

>sp|A9BDG4|RL7_PROM4 50S ribosomal protein L7/L12 OS=Prochlorococcus marinus (strain MIT 9211) GN=rplL PE=3 SV=1

 Score = 67.0 bits (162), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 35/70 (50%), Positives = 50/70 (71%)

Query: 99  KTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEK 158
           KT FDV LE +D AAKIK++KEV+  TGLGL E+K +VE AP  IK+G +KE+A+ + + 
Sbjct: 62  KTEFDVILESFDAAAKIKVLKEVRNATGLGLGEAKAMVEAAPKTIKEGASKEDAEALKKA 121

Query: 159 LKELNAIVVL 168
           ++ +   V L
Sbjct: 122 IEAVGGKVTL 131

Seems to be the binding site for several of the factors involved in protein synthesis and appears to be essential for accurate translation.

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

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	169
225468320	165	PREDICTED: 50S ribosomal protein L12, ch	0.964	0.987	0.625	2e-43
449448220	168	PREDICTED: 50S ribosomal protein L7/L12-	0.840	0.845	0.676	2e-42
147858132	615	hypothetical protein VITISV_035768 [Viti	0.840	0.230	0.689	5e-42
297802186	167	ribosomal protein L12 family protein [Ar	0.875	0.886	0.594	1e-40
224129696	173	predicted protein [Populus trichocarpa]	0.798	0.780	0.637	3e-38
356575048	159	PREDICTED: 50S ribosomal protein L7/L12-	0.792	0.842	0.592	3e-35
356550891	161	PREDICTED: 50S ribosomal protein L7/L12-	0.804	0.844	0.620	3e-34
15235649	167	Ribosomal protein L12/ ATP-dependent Clp	0.875	0.886	0.555	2e-33
296088227	437	unnamed protein product [Vitis vinifera]	0.455	0.176	0.805	2e-25
356502962	199	PREDICTED: 54S ribosomal protein L12, mi	0.781	0.663	0.496	6e-25

>gi|225468320|ref|XP_002271482.1| PREDICTED: 50S ribosomal protein L12, chloroplastic-like [Vitis vinifera]

 Score =  180 bits (457), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 107/171 (62%), Positives = 130/171 (76%), Gaps = 8/171 (4%)

Query: 1   MHSVTIKFPRLGRVFTTLKVTEAVTSSRSLCTVTESRTQKLERISDELLDLTKLERYDFA 60
           MHS+T + P     + TL        SR+LC+ + + TQKLERI+DELLDLTKLERYD++
Sbjct: 1   MHSITTRIP-----YKTLVRPLFFAQSRNLCSASAT-TQKLERIADELLDLTKLERYDYS 54

Query: 61  TLLGCKLGLDRFGPVVPAFPSSGPAASGSTSA--ETKAAEKTAFDVKLEKYDQAAKIKII 118
            L   KLGL+++GP V    S+  A++GS SA  + KAAEKTAFD+KLEK+D AAKIKII
Sbjct: 55  ILFRLKLGLNKYGPAVSGLASADSASAGSGSAPADAKAAEKTAFDIKLEKFDAAAKIKII 114

Query: 119 KEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE 169
           KEV+TFT LGLKE+KDLVEKAP V+KKGVTKEE + IVEKLKEL A VVLE
Sbjct: 115 KEVRTFTDLGLKEAKDLVEKAPVVLKKGVTKEEGNPIVEKLKELGATVVLE 165

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449448220|ref|XP_004141864.1| PREDICTED: 50S ribosomal protein L7/L12-like [Cucumis sativus] gi|449499867|ref|XP_004160938.1| PREDICTED: 50S ribosomal protein L7/L12-like [Cucumis sativus]

 Score =  176 bits (447), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 96/142 (67%), Positives = 116/142 (81%)

Query: 28  RSLCTVTESRTQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAAS 87
           RSL TV E RTQKLERI+DELLDLTK+ER+D+A L   K+GL+++GP V    + G AA+
Sbjct: 27  RSLSTVAEERTQKLERIADELLDLTKIERHDYAILFRYKMGLNKYGPAVSGLSAPGSAAA 86

Query: 88  GSTSAETKAAEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGV 147
           GS +AETK AEKT FD+KLEK+D AAKIKIIKEV+TFT LGLKE+KDLVEK P V+KKGV
Sbjct: 87  GSAAAETKEAEKTVFDIKLEKFDAAAKIKIIKEVRTFTDLGLKEAKDLVEKVPVVLKKGV 146

Query: 148 TKEEADKIVEKLKELNAIVVLE 169
           TK++ + I+EKLKEL A  VLE
Sbjct: 147 TKDQGNPIIEKLKELGATAVLE 168

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147858132|emb|CAN83934.1| hypothetical protein VITISV_035768 [Vitis vinifera]

 Score =  175 bits (444), Expect = 5e-42,   Method: Compositional matrix adjust.
 Identities = 100/145 (68%), Positives = 120/145 (82%), Gaps = 3/145 (2%)

Query: 27  SRSLCTVTESRTQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAA 86
           SR+LC+ + + TQKLERI+DELLDLTKLERYD++ L   KLGL+++GP V    S+  A+
Sbjct: 472 SRNLCSASAT-TQKLERIADELLDLTKLERYDYSILFRLKLGLNKYGPAVSGLASADSAS 530

Query: 87  SGSTSA--ETKAAEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIK 144
           +GS SA  + KAAEKTAFD+KLEK+D AAKIKIIKEV+TFT LGLKE+KDLVEKAP V+K
Sbjct: 531 AGSGSAPADAKAAEKTAFDIKLEKFDAAAKIKIIKEVRTFTDLGLKEAKDLVEKAPVVLK 590

Query: 145 KGVTKEEADKIVEKLKELNAIVVLE 169
           KGVTKEE + IVEKLKEL A VVLE
Sbjct: 591 KGVTKEEGNPIVEKLKELGATVVLE 615

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297802186|ref|XP_002868977.1| ribosomal protein L12 family protein [Arabidopsis lyrata subsp. lyrata] gi|297314813|gb|EFH45236.1| ribosomal protein L12 family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  171 bits (432), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 91/153 (59%), Positives = 119/153 (77%), Gaps = 5/153 (3%)

Query: 19  KVTEAVTSSRSLCTVT--ESRTQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVV 76
           + T   T++R LC V   E+RT+KLERI+D+LL+L ++E YD++ L   KLGL+R+G  V
Sbjct: 18  RTTPLTTATRHLCAVASPEARTKKLERIADDLLNLNRIELYDYSILFSHKLGLNRYGSAV 77

Query: 77  PAFPSSGPAASGSTSAETKAAEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLV 136
               S G A SGST  ETK AEKTAFDVKLEK++ A+KIK+IKE++ FT LGLKE+K+LV
Sbjct: 78  AVAGSDGEA-SGST--ETKTAEKTAFDVKLEKFETASKIKVIKEIRAFTDLGLKEAKELV 134

Query: 137 EKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE 169
           EKAP ++KKG+TKEEA+KI+EKLK + AIV LE
Sbjct: 135 EKAPVIVKKGLTKEEAEKIMEKLKAVGAIVALE 167

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224129696|ref|XP_002328780.1| predicted protein [Populus trichocarpa] gi|222839078|gb|EEE77429.1| predicted protein [Populus trichocarpa]

 Score =  163 bits (412), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 88/138 (63%), Positives = 105/138 (76%), Gaps = 3/138 (2%)

Query: 35  ESRTQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAET 94
           E++TQKLERI+D LLDLTK+ER+D+A L   K+GL R+GP V     SGPAA GS S + 
Sbjct: 36  ETQTQKLERIADVLLDLTKIERHDYAILFRHKMGLGRYGPAVSGAILSGPAAPGSASGDV 95

Query: 95  KAAEKTA---FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEE 151
           K A       FD+KLEK+D AAKIK+IKEV+TFT LGLKE+KDLVEK P V+KKG+TKEE
Sbjct: 96  KTAAAAEKTAFDIKLEKFDAAAKIKVIKEVRTFTDLGLKEAKDLVEKVPVVLKKGLTKEE 155

Query: 152 ADKIVEKLKELNAIVVLE 169
           A  I+EKLK L A VVLE
Sbjct: 156 AGPIIEKLKALGATVVLE 173

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356575048|ref|XP_003555654.1| PREDICTED: 50S ribosomal protein L7/L12-like [Glycine max]

 Score =  152 bits (385), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 80/135 (59%), Positives = 101/135 (74%), Gaps = 1/135 (0%)

Query: 35  ESRTQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAET 94
           E+R QK+ERI+ ELL+L + ER+DF  L   K+GL R+    P    + P+  G+    +
Sbjct: 26  EAREQKVERIATELLNLNRFERHDFTVLWRLKMGLHRYD-AAPVAGVATPSVVGAKVGAS 84

Query: 95  KAAEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADK 154
            A EKTAFD+KLEKYD AAKIKIIKEV++FT LGLKE+K+LVEK P V+KKG+TKEEA+ 
Sbjct: 85  VAVEKTAFDLKLEKYDAAAKIKIIKEVRSFTDLGLKEAKELVEKVPCVLKKGLTKEEANP 144

Query: 155 IVEKLKELNAIVVLE 169
           I+EKLKEL A VVLE
Sbjct: 145 IMEKLKELGAAVVLE 159

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356550891|ref|XP_003543816.1| PREDICTED: 50S ribosomal protein L7/L12-like [Glycine max]

 Score =  150 bits (378), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 85/137 (62%), Positives = 102/137 (74%), Gaps = 1/137 (0%)

Query: 34  TESRTQKLERISDELLDLTKLERYDFATLLGCKLGLDRFG-PVVPAFPSSGPAASGSTSA 92
           TE+R QK+ERI+ ELLDL   ER+DF  L   K+GL R+G PV      S  AA+ + + 
Sbjct: 25  TEARGQKIERIATELLDLNSFERHDFTVLWRLKMGLHRYGAPVAGMTMPSVGAAARAEAG 84

Query: 93  ETKAAEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEA 152
               AEK AFD+KLEKYD AAKIKIIKEV++FT LGLKE+KDLVEK P V+KKG+TKEEA
Sbjct: 85  AAAVAEKMAFDLKLEKYDAAAKIKIIKEVRSFTDLGLKEAKDLVEKVPCVLKKGLTKEEA 144

Query: 153 DKIVEKLKELNAIVVLE 169
           + I+EKLKEL A VVLE
Sbjct: 145 NPIMEKLKELGAAVVLE 161

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15235649|ref|NP_195481.1| Ribosomal protein L12/ ATP-dependent Clp protease adaptor protein [Arabidopsis thaliana] gi|4468991|emb|CAB38305.1| ribosomal-like protein [Arabidopsis thaliana] gi|7270748|emb|CAB80431.1| ribosomal-like protein [Arabidopsis thaliana] gi|18377872|gb|AAL67122.1| AT4g37660/F19F18_150 [Arabidopsis thaliana] gi|20334824|gb|AAM16168.1| AT4g37660/F19F18_150 [Arabidopsis thaliana] gi|21593662|gb|AAM65629.1| ribosomal-like protein [Arabidopsis thaliana] gi|332661421|gb|AEE86821.1| Ribosomal protein L12/ ATP-dependent Clp protease adaptor protein [Arabidopsis thaliana]

 Score =  147 bits (371), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 85/153 (55%), Positives = 113/153 (73%), Gaps = 5/153 (3%)

Query: 19  KVTEAVTSSRSLCTVT--ESRTQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVV 76
           + T   +++R LC V   E+RT+KLERI+D+LL L ++E YD++ L   K+GL+R+G  V
Sbjct: 18  RTTPLSSATRHLCAVASPEARTKKLERIADDLLKLNRIELYDYSLLFSHKIGLNRYGSAV 77

Query: 77  PAFPSSGPAASGSTSAETKAAEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLV 136
               S G A   S S ETK AEKT FDVKLEK++ A+KIK+IKE++ FT LGLKE+K LV
Sbjct: 78  AVTGSVGDA---SASTETKTAEKTTFDVKLEKFEAASKIKVIKEIRAFTDLGLKEAKALV 134

Query: 137 EKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE 169
           EKAP ++K G+TKEEA+KI+EKLK + AIV LE
Sbjct: 135 EKAPVIVKNGLTKEEAEKIMEKLKAVGAIVALE 167

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296088227|emb|CBI35741.3| unnamed protein product [Vitis vinifera]

 Score =  120 bits (301), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 62/77 (80%), Positives = 69/77 (89%)

Query: 93  ETKAAEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEA 152
           + KAAEKTAFD+KLEK+D AAKIKIIKEV+TFT LGLKE+KDLVEKAP V+KKGVTKEE 
Sbjct: 361 DAKAAEKTAFDIKLEKFDAAAKIKIIKEVRTFTDLGLKEAKDLVEKAPVVLKKGVTKEEG 420

Query: 153 DKIVEKLKELNAIVVLE 169
           + IVEKLKEL A VVLE
Sbjct: 421 NPIVEKLKELGATVVLE 437

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356502962|ref|XP_003520283.1| PREDICTED: 54S ribosomal protein L12, mitochondrial-like [Glycine max]

 Score =  119 bits (297), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 71/143 (49%), Positives = 93/143 (65%), Gaps = 11/143 (7%)

Query: 38  TQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSG-----------PAA 86
           ++K+  I DE++ LT LE  D   ++  K G++     +   P  G              
Sbjct: 57  SEKVAAIVDEVMGLTLLEVMDLVEVMREKRGVNELPIAMLMVPGMGVPRGIPRGAAKGGG 116

Query: 87  SGSTSAETKAAEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKG 146
           + +  AE KAAEKTAFDVKLE +D AAKIK+IKEV+TFT LGLKE+KDLVEK PAV+KKG
Sbjct: 117 AATGGAEVKAAEKTAFDVKLEGFDAAAKIKVIKEVRTFTSLGLKEAKDLVEKVPAVLKKG 176

Query: 147 VTKEEADKIVEKLKELNAIVVLE 169
           VTKEEA+ I+ K+KE+ A V +E
Sbjct: 177 VTKEEAESIIAKMKEVGAKVSME 199

Source: Glycine max

Species: Glycine max

Genus: Glycine

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	169
TAIR|locus:2120116	167	AT4G37660 [Arabidopsis thalian	0.875	0.886	0.464	3.3e-31
TAIR|locus:2115385	179	AT4G36420 [Arabidopsis thalian	0.899	0.849	0.387	1.5e-21
TAIR|locus:2080369	186	AT3G06040 [Arabidopsis thalian	0.402	0.365	0.632	2.5e-19
TAIR|locus:2020678	208	AT1G70190 [Arabidopsis thalian	0.402	0.326	0.632	2.8e-18
GENEDB_PFALCIPARUM|PFB0545c	255	PFB0545c "ribosomal protein L7	0.402	0.266	0.470	2e-16
UNIPROTKB|O96202	255	PFB0545c "Mitochondrial riboso	0.402	0.266	0.470	2e-16
ASPGD|ASPL0000042202	184	AN2057 [Emericella nidulans (t	0.402	0.369	0.529	4.1e-16
TAIR|locus:2056921	110	AT2G03130 [Arabidopsis thalian	0.402	0.618	0.558	8.8e-15
TIGR_CMR|CBU_0229	126	CBU_0229 "ribosomal protein L7	0.396	0.531	0.529	4.4e-13
CGD|CAL0006345	174	orf19.2275 [Candida albicans (	0.402	0.390	0.544	3.1e-12

TAIR|locus:2120116 AT4G37660 [Arabidopsis thaliana (taxid:3702)]

 Score = 343 (125.8 bits), Expect = 3.3e-31, P = 3.3e-31
 Identities = 71/153 (46%), Positives = 99/153 (64%)

Query:    19 KVTEAVTSSRSLCTVT--ESRTQKLERISDELLDLTKLERYDFATLLGCKLGLDRFXXXX 76
             + T   +++R LC V   E+RT+KLERI+D+LL L ++E YD++ L   K+GL+R+    
Sbjct:    18 RTTPLSSATRHLCAVASPEARTKKLERIADDLLKLNRIELYDYSLLFSHKIGLNRYGSAV 77

Query:    77 XXXXXXXXXXXXXXXXXXXXXXXXXFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLV 136
                                      FDVKLEK++ A+KIK+IKE++ FT LGLKE+K LV
Sbjct:    78 AVTGSVGDASASTETKTAEKTT---FDVKLEKFEAASKIKVIKEIRAFTDLGLKEAKALV 134

Query:   137 EKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE 169
             EKAP ++K G+TKEEA+KI+EKLK + AIV LE
Sbjct:   135 EKAPVIVKNGLTKEEAEKIMEKLKAVGAIVALE 167

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

GO:0005622 "intracellular" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA;ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

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

TAIR|locus:2115385 AT4G36420 [Arabidopsis thaliana (taxid:3702)]

 Score = 252 (93.8 bits), Expect = 1.5e-21, P = 1.5e-21
 Identities = 64/165 (38%), Positives = 88/165 (53%)

Query:    18 LKVTEAVTSSRSLCTVTE-------SRTQKLERISDELLDLTKLERYDFATLLGCKLGLD 70
             LK TE  +SS  L T+         ++++ + +I +EL +LT LE  D   +L  KL + 
Sbjct:    15 LKSTETRSSSVQLFTIQSRSYSSPATQSENVSKIVNELSNLTLLETMDLTEILRQKLNIS 74

Query:    71 RFXXXXXXX------XXXXXXXXXXXXXXXXXXXXXXFDVKLEKYDQAAKIKIIKEVKTF 124
                                                  FDV L+ YD  +KIK+IKEV+T 
Sbjct:    75 ELPVMAAMMPGMSLPGSGASKSAGGEGKEKKKEAKTAFDVMLQAYDAVSKIKVIKEVRTI 134

Query:   125 TGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE 169
             T LGLKE+KDLVEKAP ++KKGV+KEEA+KI+EKLK + A V +E
Sbjct:   135 TALGLKEAKDLVEKAPTLLKKGVSKEEAEKIIEKLKAVGAKVAME 179

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

GO:0005622 "intracellular" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA;ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

TAIR|locus:2080369 AT3G06040 [Arabidopsis thaliana (taxid:3702)]

 Score = 231 (86.4 bits), Expect = 2.5e-19, P = 2.5e-19
 Identities = 43/68 (63%), Positives = 59/68 (86%)

Query:   102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKE 161
             FDVKLEK++ + KIK+IKEV+TFT LGLKE+K+LVEK PA++K+GVTKEEA++I+ K+K 
Sbjct:   119 FDVKLEKFNASDKIKVIKEVRTFTSLGLKEAKELVEKVPAILKQGVTKEEANEIIAKIKA 178

Query:   162 LNAIVVLE 169
             +  I V+E
Sbjct:   179 VGGIAVME 186

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

GO:0005622 "intracellular" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA;ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

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

TAIR|locus:2020678 AT1G70190 [Arabidopsis thaliana (taxid:3702)]

 Score = 221 (82.9 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 43/68 (63%), Positives = 58/68 (85%)

Query:   102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKE 161
             F++KLE ++ +AKIKIIKE+++FT LGLKE+K LVEK PA++K G++KEE +KI+EKLK 
Sbjct:   141 FEIKLESFEASAKIKIIKELRSFTDLGLKEAKALVEKTPAILKAGLSKEEGEKILEKLKA 200

Query:   162 LNAIVVLE 169
             L A VVLE
Sbjct:   201 LGAKVVLE 208

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

GO:0005622 "intracellular" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA;ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

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

GENEDB_PFALCIPARUM|PFB0545c PFB0545c "ribosomal protein L7/L12, putative" [Plasmodium falciparum (taxid:5833)]

 Score = 168 (64.2 bits), Expect = 2.0e-16, Sum P(2) = 2.0e-16
 Identities = 32/68 (47%), Positives = 49/68 (72%)

Query:   102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKE 161
             F+VKLEK+D   KI  IKE++  T +GLKE+KD+VE AP  I+K V  E+A+++ +  ++
Sbjct:   188 FNVKLEKFDVKNKINTIKEIRKITNVGLKEAKDMVESAPFYIQKSVPSEKAEEMKKSFEQ 247

Query:   162 LNAIVVLE 169
             L A ++LE
Sbjct:   248 LGATIILE 255

GO:0022625 "cytosolic large ribosomal subunit" evidence=ISS

GO:0005739 "mitochondrion" evidence=ISS

GO:0020011 "apicoplast" evidence=RCA

UNIPROTKB|O96202 PFB0545c "Mitochondrial ribosomal protein L12, putative" [Plasmodium falciparum 3D7 (taxid:36329)]

 Score = 168 (64.2 bits), Expect = 2.0e-16, Sum P(2) = 2.0e-16
 Identities = 32/68 (47%), Positives = 49/68 (72%)

Query:   102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKE 161
             F+VKLEK+D   KI  IKE++  T +GLKE+KD+VE AP  I+K V  E+A+++ +  ++
Sbjct:   188 FNVKLEKFDVKNKINTIKEIRKITNVGLKEAKDMVESAPFYIQKSVPSEKAEEMKKSFEQ 247

Query:   162 LNAIVVLE 169
             L A ++LE
Sbjct:   248 LGATIILE 255

GO:0005739 "mitochondrion" evidence=ISS

GO:0020011 "apicoplast" evidence=RCA

GO:0022625 "cytosolic large ribosomal subunit" evidence=ISS

ASPGD|ASPL0000042202 AN2057 [Emericella nidulans (taxid:162425)]

 Score = 176 (67.0 bits), Expect = 4.1e-16, Sum P(2) = 4.1e-16
 Identities = 36/68 (52%), Positives = 47/68 (69%)

Query:   102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKE 161
             F++KLE  D A K K+IKEVKT  GL L +SK  VE  P V+K+ V KEEA+K++E LK 
Sbjct:   117 FNLKLESVDAAQKAKVIKEVKTLLGLSLVDSKKFVESVPKVLKESVPKEEAEKLIETLKA 176

Query:   162 LNAIVVLE 169
             + A  V+E
Sbjct:   177 VGAKAVME 184

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0042645 "mitochondrial nucleoid" evidence=IEA

GO:0009060 "aerobic respiration" evidence=IEA

TAIR|locus:2056921 AT2G03130 [Arabidopsis thaliana (taxid:3702)]

 Score = 188 (71.2 bits), Expect = 8.8e-15, P = 8.8e-15
 Identities = 38/68 (55%), Positives = 51/68 (75%)

Query:   102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKE 161
             F+VKLE ++  AKIKIIKEV+   G+GLKE+  LV KAP V+K G++KEE +++VEKL  
Sbjct:    24 FEVKLESFEARAKIKIIKEVRRIIGVGLKEAMKLVVKAPTVLKTGLSKEEGEEVVEKLNA 83

Query:   162 LNAIVVLE 169
             L A  VL+
Sbjct:    84 LGAEAVLQ 91

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM

GO:0015934 "large ribosomal subunit" evidence=ISS

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

TIGR_CMR|CBU_0229 CBU_0229 "ribosomal protein L7/L12" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 172 (65.6 bits), Expect = 4.4e-13, P = 4.4e-13
 Identities = 36/68 (52%), Positives = 51/68 (75%)

Query:   102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKE 161
             F+VK+  +    KI +IK ++T TGLGLKE+KDLVE  P+V+K+ V+KEEA+KI ++L+E
Sbjct:    60 FNVKMVSFGDN-KIGVIKAIRTITGLGLKEAKDLVESVPSVVKESVSKEEAEKIKKELEE 118

Query:   162 LNAIVVLE 169
               A V LE
Sbjct:   119 AGAKVELE 126

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

CGD|CAL0006345 orf19.2275 [Candida albicans (taxid:5476)]

 Score = 164 (62.8 bits), Expect = 3.1e-12, P = 3.1e-12
 Identities = 37/68 (54%), Positives = 45/68 (66%)

Query:   102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKE 161
             F +KLE +D  +K KIIKEVK   GL L ESK  VE AP V+K+ V KE+A+KI   L+ 
Sbjct:   107 FSIKLESFDAKSKPKIIKEVKGMLGLSLVESKKFVESAPKVLKENVAKEDAEKIKATLEG 166

Query:   162 LNAIVVLE 169
             L A V LE
Sbjct:   167 LGAKVSLE 174

GO:0042645 "mitochondrial nucleoid" evidence=IEA

GO:0009060 "aerobic respiration" evidence=IEA

---

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:
	GSVIVG00004198001	SubName- Full=Chromosome chr7 scaffold_270, whole genome shotgun sequence (Chromosome undetermined scaffold_623, whole genome shotgun sequence); (165 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00028715001	RecName- Full=Ribosomal protein L1; (347 aa)	•			•	•		•		0.917
	GSVIVG00000483001	SubName- Full=Chromosome chr2 scaffold_105, whole genome shotgun sequence; (145 aa)	•			•	•		•		0.900
	GSVIVG00029480001	SubName- Full=Chromosome chr13 scaffold_48, whole genome shotgun sequence; (226 aa)	•				•		•		0.857
	GSVIVG00035271001	SubName- Full=Chromosome chr10 scaffold_76, whole genome shotgun sequence; (140 aa)	•			•	•		•		0.854
	GSVIVG00026943001	SubName- Full=Chromosome chr15 scaffold_40, whole genome shotgun sequence; (265 aa)	•			•	•		•		0.828
	rpoC2	RecName- Full=DNA-directed RNA polymerase; EC=2.7.7.6;; DNA-dependent RNA polymerase catalyzes [...] (692 aa)	•						•		0.816
	GSVIVG00026031001	SubName- Full=Chromosome chr12 scaffold_36, whole genome shotgun sequence; (117 aa)	•			•	•		•		0.802
	GSVIVG00033342001	SubName- Full=Chromosome chr19 scaffold_66, whole genome shotgun sequence; (203 aa)	•			•			•		0.801
	GSVIVG00015322001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (167 aa)	•			•			•		0.796
	rpoB	RecName- Full=DNA-directed RNA polymerase subunit beta; EC=2.7.7.6; AltName- Full=PEP; AltName- [...] (623 aa)	•						•		0.796

---

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	169
cd00387	127	cd00387, Ribosomal_L7_L12, Ribosomal protein L7/L1	7e-37
PRK00157	123	PRK00157, rplL, 50S ribosomal protein L7/L12; Revi	9e-24
COG0222	124	COG0222, RplL, Ribosomal protein L7/L12 [Translati	1e-20
pfam00542	68	pfam00542, Ribosomal_L12, Ribosomal protein L7/L12	3e-20
CHL00083	131	CHL00083, rpl12, ribosomal protein L12	8e-20
TIGR00855	123	TIGR00855, L12, ribosomal protein L7/L12	8e-19

>gnl|CDD|100102 cd00387, Ribosomal_L7_L12, Ribosomal protein L7/L12

 Score =  123 bits (311), Expect = 7e-37
 Identities = 60/129 (46%), Positives = 81/129 (62%), Gaps = 3/129 (2%)

Query: 40  KLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEK 99
           K+E I + L +LT LE  +    L  K G+        A  ++  AA+   +A  +A EK
Sbjct: 2   KVEEIVEALKELTLLEAAELVKALEEKFGVSASAAAAAAAAAAPAAAA---AAAAEAEEK 58

Query: 100 TAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKL 159
           T FDV LE +  A KI +IKEV+  TGLGLKE+KDLVE AP V+K+GV+KEEA++I +KL
Sbjct: 59  TEFDVVLESFGAAKKIAVIKEVREITGLGLKEAKDLVESAPKVLKEGVSKEEAEEIKKKL 118

Query: 160 KELNAIVVL 168
           +E  A V L
Sbjct: 119 EEAGAKVEL 127

Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of the ribosome. The stalk base consists of a portion of the 23S rRNA and ribosomal proteins L11 and L10. An extended C-terminal helix of L10 provides the binding site for L7/L12. L7/L12 consists of two domains joined by a flexible hinge, with the helical N-terminal domain (NTD) forming pairs of homodimers that bind to the extended helix of L10. It is the only multimeric ribosomal component, with either four or six copies per ribosome that occur as two or three dimers bound to the L10 helix. L7/L12 is the only ribosomal protein that does not interact directly with rRNA, but instead has indirect interactions through L10. The globular C-terminal domains of L7/L12 are highly mobile. They are exposed to the cytoplasm and contain binding sites for other molecules. Initiation factors, elongation factors, and release factors are known to interact with the L7/L12 stalk during their GTP-dependent cycles. The binding site for the factors EF-Tu and EF-G comprises L7/L12, L10, L11, the L11-binding region of 23S rRNA, and the sarcin-ricin loop of 23S rRNA. Removal of L7/L12 has minimal effect on factor binding and it has been proposed that L7/L12 induces the catalytically active conformation of EF-Tu and EF-G, thereby stimulating the GTPase activity of both factors. In eukaryotes, the proteins that perform the equivalent function to L7/L12 are called P1 and P2, which do not share sequence similarity with L7/L12. However, a bacterial L7/L12 homolog is found in some eukaryotes, in mitochondria and chloroplasts. In archaea, the protein equivalent to L7/L12 is called aL12 or L12p, but it is closer in sequence to P1 and P2 than to L7/L12. Length = 127

>gnl|CDD|234671 PRK00157, rplL, 50S ribosomal protein L7/L12; Reviewed

 Score = 89.9 bits (224), Expect = 9e-24
 Identities = 56/129 (43%), Positives = 76/129 (58%), Gaps = 10/129 (7%)

Query: 41  LERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKT 100
            E+I + L ++T LE  +    L  K G+    PV  A  ++  AA         A EKT
Sbjct: 5   KEQIIEALKEMTVLELSELVKALEEKFGVSAAAPVAAAAAAAAAAA---------AEEKT 55

Query: 101 AFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLK 160
            FDV L+      KI +IK V+  TGLGLKE+KDLVE AP V+K+GV+KEEA++I +KL+
Sbjct: 56  EFDVVLKSAG-DKKIAVIKAVREITGLGLKEAKDLVEGAPKVVKEGVSKEEAEEIKKKLE 114

Query: 161 ELNAIVVLE 169
           E  A V L+
Sbjct: 115 EAGAKVELK 123

Length = 123

>gnl|CDD|223300 COG0222, RplL, Ribosomal protein L7/L12 [Translation, ribosomal structure and biogenesis]

 Score = 82.0 bits (203), Expect = 1e-20
 Identities = 45/86 (52%), Positives = 59/86 (68%), Gaps = 1/86 (1%)

Query: 84  PAASGSTSAETKAAEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVI 143
            AA+   +A   A EKT FDV L+      KI +IK V+  TGLGLKE+KDLVE AP V+
Sbjct: 40  AAAAAGAAAAEAAEEKTEFDVVLKS-AGGKKIAVIKVVRELTGLGLKEAKDLVEGAPKVL 98

Query: 144 KKGVTKEEADKIVEKLKELNAIVVLE 169
           K+GV+KEEA++I +KL+E  A V L+
Sbjct: 99  KEGVSKEEAEEIKKKLEEAGAKVELK 124

Length = 124

>gnl|CDD|201294 pfam00542, Ribosomal_L12, Ribosomal protein L7/L12 C-terminal domain

 Score = 79.1 bits (196), Expect = 3e-20
 Identities = 38/68 (55%), Positives = 48/68 (70%), Gaps = 1/68 (1%)

Query: 102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKE 161
           FDV L       KI +IK V+  TGLGLKE+KDLVE AP  IK+GV+KEEA++I +KL+E
Sbjct: 2   FDVVLTSAG-DKKIAVIKVVREITGLGLKEAKDLVEGAPKTIKEGVSKEEAEEIKKKLEE 60

Query: 162 LNAIVVLE 169
             A V L+
Sbjct: 61  AGAKVELK 68

Length = 68

>gnl|CDD|214358 CHL00083, rpl12, ribosomal protein L12

 Score = 79.6 bits (197), Expect = 8e-20
 Identities = 49/131 (37%), Positives = 76/131 (58%), Gaps = 2/131 (1%)

Query: 38  TQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAA 97
           + K+  I +EL  LT LE  +    +    G+D   PV     S+  AA+       +  
Sbjct: 2   STKINEIIEELKSLTLLEAAELVKQIEETFGVDASAPVGGGMMSAPAAAAAQA--AEEVE 59

Query: 98  EKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVE 157
           EKT FDV LE+     +I ++K V++ TGLGLKE+K+LVE  P  IK+G++KEEA++  +
Sbjct: 60  EKTEFDVILEEVPADKRIAVLKVVRSLTGLGLKEAKELVESLPKTIKEGISKEEAEEAKK 119

Query: 158 KLKELNAIVVL 168
           +L+E  A V++
Sbjct: 120 QLEEAGAKVII 130

Length = 131

>gnl|CDD|233152 TIGR00855, L12, ribosomal protein L7/L12

 Score = 77.1 bits (190), Expect = 8e-19
 Identities = 54/128 (42%), Positives = 75/128 (58%), Gaps = 8/128 (6%)

Query: 41  LERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKT 100
            E+I + L ++T LE  +    L  K G       V A       A+G+ +A   A EKT
Sbjct: 3   KEQIIEALKEMTVLELSELVKALEEKFG-------VSAAAPVAAGAAGAAAAAAAAEEKT 55

Query: 101 AFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLK 160
            FDV L+      KI +IK V+  TGLGLKE+KDLVE AP V+K+GV+KEEA+++ +KL+
Sbjct: 56  EFDVILKGA-GDNKIAVIKVVREITGLGLKEAKDLVEGAPKVLKEGVSKEEAEELKKKLE 114

Query: 161 ELNAIVVL 168
           E  A V +
Sbjct: 115 EAGAKVEV 122

Ribosomal proteins L7 and L12 are synonymous except for post-translational modification of the N-terminal amino acid. THis model resembles pfam00542 but matches the full length of prokaryotic and organellar proteins rather than just the C-terminus [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 123

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	169
CHL00083	131	rpl12 ribosomal protein L12	100.0
KOG1715	187	consensus Mitochondrial/chloroplast ribosomal prot	100.0
cd00387	127	Ribosomal_L7_L12 Ribosomal protein L7/L12. Ribosom	100.0
TIGR00855	126	L12 ribosomal protein L7/L12. THis model resembles	100.0
PRK00157	123	rplL 50S ribosomal protein L7/L12; Reviewed	100.0
COG0222	124	RplL Ribosomal protein L7/L12 [Translation, riboso	100.0
PF00542	68	Ribosomal_L12: Ribosomal protein L7/L12 C-terminal	99.91
PRK06771	93	hypothetical protein; Provisional	97.85
PF02617	82	ClpS: ATP-dependent Clp protease adaptor protein C	89.1

>CHL00083 rpl12 ribosomal protein L12

Probab=100.00  E-value=3.4e-42  Score=270.10  Aligned_cols=130  Identities=39%  Similarity=0.595  Sum_probs=112.2

Q ss_pred             ChhHHHHHHHHhcCCHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCCCCCCCchhhhhhhcceeeEEEeecCcchhHHH
Q 030925           38 TQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKTAFDVKLEKYDQAAKIKI  117 (169)
Q Consensus        38 s~kv~~Ivd~I~~LtLlE~seLv~~leekfgv~~~a~~~~~~~~~~~aa~~~~~~~~~~~EKt~f~V~L~~~~~~kKi~v  117 (169)
                      |+++++|+|+|++|||+|++||++.|+++|||++.++++++++ +++++++ +.++++.+|||+|||+|++||+++||+|
T Consensus         2 s~k~~~ivd~i~~LTllE~~eLv~~le~~fgv~~~~~~a~~~~-~~~a~~~-~~~~~~~~EKT~F~V~L~~~~~~~Ki~v   79 (131)
T CHL00083          2 STKINEIIEELKSLTLLEAAELVKQIEETFGVDASAPVGGGMM-SAPAAAA-AQAAEEVEEKTEFDVILEEVPADKRIAV   79 (131)
T ss_pred             CchHHHHHHHHHhCCHHHHHHHHHHHHHHcCCCccchhhhhhc-cccCccc-ccccchhhhcceeeEEEeecCCcchHHH
Confidence            7899999999999999999999999999999998765432211 1111111 1123457899999999999988999999


Q ss_pred             HHHHHHhhCCChhHHHHHHhhcchhhhcCCCHHHHHHHHHHHHHcCcEEEeC
Q 030925          118 IKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE  169 (169)
Q Consensus       118 IK~VR~it~LgLkEAK~lVe~~P~~IKe~vsKeeAE~ik~kLe~aGA~veiE  169 (169)
                      ||+||++|||||+|||+|||++|++||+|++|+|||+||++|+++||+|+|.
T Consensus        80 IK~vr~it~lgLkeaK~lVe~~P~~ike~v~KeeAe~ik~~le~~Ga~v~lk  131 (131)
T CHL00083         80 LKVVRSLTGLGLKEAKELVESLPKTIKEGISKEEAEEAKKQLEEAGAKVIIK  131 (131)
T ss_pred             HHHHHHHcCCCHHHHHHHHHhCCHHHHhCCCHHHHHHHHHHHHHcCCEEEeC
Confidence            9999999999999999999999999999999999999999999999999983

>KOG1715 consensus Mitochondrial/chloroplast ribosomal protein L12 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=4.5e-42  Score=282.08  Aligned_cols=135  Identities=47%  Similarity=0.651  Sum_probs=116.9

Q ss_pred             cccCChhHHHHHHHHhcCCHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCCCCCCCchhhhhhhcceeeEEEeecCcch
Q 030925           34 TESRTQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKTAFDVKLEKYDQAA  113 (169)
Q Consensus        34 ~~~~s~kv~~Ivd~I~~LtLlE~seLv~~leekfgv~~~a~~~~~~~~~~~aa~~~~~~~~~~~EKt~f~V~L~~~~~~k  113 (169)
                      +...++||.+|+|+|++|||+|.+||+++|+++|||+..+.++++++.+++.. +++..++.++|+|.|||+|++||+..
T Consensus        53 ~~~~~~KI~~iv~eIssLtLlE~s~L~~~Lk~kl~i~e~~~~~a~~~g~~~~~-~~~a~ee~k~ekt~FdVkL~~fda~~  131 (187)
T KOG1715|consen   53 AVPPPPKISKIVDEISSLTLLETSDLVDLLKKKLNIPELPLAPAAAAGAAAPD-AGGAEEEAKKEKTTFDVKLEKFDASS  131 (187)
T ss_pred             ccCCCHHHHHHHHHHHhcCHHHHHHHHHHHHHHcCCCcccchhhccccCCCCC-cccccccchhhcceEEEEEeecCccc
Confidence            37789999999999999999999999999999999998865443222212111 12224566778888999999999999


Q ss_pred             hHHHHHHHHHhhCCChhHHHHHHhhcchhhhcCCCHHHHHHHHHHHHHcCcEEEeC
Q 030925          114 KIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE  169 (169)
Q Consensus       114 Ki~vIK~VR~it~LgLkEAK~lVe~~P~~IKe~vsKeeAE~ik~kLe~aGA~veiE  169 (169)
                      ||+|||+||.+|||||+|||+|||++|+.+|+|++|||||+||++|+++||+|+||
T Consensus       132 KIkVIKEVR~~tgL~LkeAKklVE~aP~ilKegvtKeEAEkik~kLea~GakV~le  187 (187)
T KOG1715|consen  132 KIKVIKEVRALTGLGLKEAKKLVEKAPKILKEGVTKEEAEEIKEKLEAAGAKVVLE  187 (187)
T ss_pred             hhHHHHHHHHhccccHHHHHHHHHhccHHHHcCCCHHHHHHHHHHHHHcCCeEeeC
Confidence            99999999999999999999999999999999999999999999999999999997

>cd00387 Ribosomal_L7_L12 Ribosomal protein L7/L12

Probab=100.00  E-value=1.1e-41  Score=265.58  Aligned_cols=127  Identities=48%  Similarity=0.662  Sum_probs=107.9

Q ss_pred             hhHHHHHHHHhcCCHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCCCCCCCchhhhhhhcceeeEEEeecCcchhHHHH
Q 030925           39 QKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKTAFDVKLEKYDQAAKIKII  118 (169)
Q Consensus        39 ~kv~~Ivd~I~~LtLlE~seLv~~leekfgv~~~a~~~~~~~~~~~aa~~~~~~~~~~~EKt~f~V~L~~~~~~kKi~vI  118 (169)
                      +++++|+|+|++|||+|++||++.|+++|||++.+++++++ +++|+++  ..++++.+|||+|||+|++||+++||+||
T Consensus         1 ~~~~~i~d~i~~LtllE~~eLv~~le~~~gv~~~~~~~~~~-~~a~~~~--~~~~~~~~EKt~F~V~L~~~~~~~Ki~vI   77 (127)
T cd00387           1 LKVEEIVEALKELTLLEAAELVKALEEKFGVSASAAAAAAA-AAAPAAA--AAAAAEAEEKTEFDVVLESFGAAKKIAVI   77 (127)
T ss_pred             CcHHHHHHHHHhCCHHHHHHHHHHHHHHhCCCccccccccc-ccCcccc--cccccchhhcceEEEEEeeCCchhhHHHH
Confidence            36899999999999999999999999999999763222111 1112211  11223367999999999999988999999


Q ss_pred             HHHHHhhCCChhHHHHHHhhcchhhhcCCCHHHHHHHHHHHHHcCcEEEe
Q 030925          119 KEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVL  168 (169)
Q Consensus       119 K~VR~it~LgLkEAK~lVe~~P~~IKe~vsKeeAE~ik~kLe~aGA~vei  168 (169)
                      |+||++|||||+|||+|||++|++||+|+||+|||+||++|+++||+|+|
T Consensus        78 K~VR~it~LgLkEAK~lVe~~P~~iKe~vsKeeAE~ik~kLe~aGA~Vel  127 (127)
T cd00387          78 KEVREITGLGLKEAKDLVESAPKVLKEGVSKEEAEEIKKKLEEAGAKVEL  127 (127)
T ss_pred             HHHHHHhCCChHHHHHHHHhCcHHHHhCCCHHHHHHHHHHHHHcCCEEeC
Confidence            99999999999999999999999999999999999999999999999986

Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of the ribosome. The stalk base consists of a portion of the 23S rRNA and ribosomal proteins L11 and L10. An extended C-terminal helix of L10 provides the binding site for L7/L12. L7/L12 consists of two domains joined by a flexible hinge, with the helical N-terminal domain (NTD) forming pairs of homodimers that bind to the extended helix of L10. It is the only multimeric ribosomal component, with either four or six copies per ribosome that occur as two or three dimers bound to the L10 helix. L7/L12 is the only ribosomal protein that does not interact directly with rRNA, but instead has indirect interactions through L10. The globular C-terminal domains of L7/L12 are highly mobile. They are exposed to the cytoplasm and

>TIGR00855 L12 ribosomal protein L7/L12

Probab=100.00  E-value=1.8e-39  Score=253.32  Aligned_cols=122  Identities=43%  Similarity=0.596  Sum_probs=106.2

Q ss_pred             hHHHHHHHHhcCCHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCCCCCCCchhhhhhhcceeeEEEeecCcchhHHHHH
Q 030925           40 KLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKTAFDVKLEKYDQAAKIKIIK  119 (169)
Q Consensus        40 kv~~Ivd~I~~LtLlE~seLv~~leekfgv~~~a~~~~~~~~~~~aa~~~~~~~~~~~EKt~f~V~L~~~~~~kKi~vIK  119 (169)
                      +.++|+|+|++|||+|++||++.|+++|||++.++++++.  +  +++ +  ++++.+|||+|||+|+.++ ++||+|||
T Consensus         5 ~~~~ive~i~~LTllE~~eLv~~lee~fgV~a~a~~a~~~--a--~~~-~--~~~~~eEKt~f~V~L~~~~-~~Ki~vIK   76 (126)
T TIGR00855         5 SKEQIIEALKEMTVLELSELVKALEEKFGVSAAAPVAAGA--A--GAA-A--AAAAAEEKTEFDVILKGAG-DNKIAVIK   76 (126)
T ss_pred             cHHHHHHHHHhCCHHHHHHHHHHHHHhcCCCccchhhhcc--c--ccc-c--ccccccccceeeEEEecCC-cchhHHHH
Confidence            4689999999999999999999999999999876543211  1  111 1  1234679999999999886 68999999


Q ss_pred             HHHHhhCCChhHHHHHHhhcchhhhcCCCHHHHHHHHHHHHHcCcEEEeC
Q 030925          120 EVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE  169 (169)
Q Consensus       120 ~VR~it~LgLkEAK~lVe~~P~~IKe~vsKeeAE~ik~kLe~aGA~veiE  169 (169)
                      +||++|||||+|||+|||++|++||+|++|+|||++|++|+++||+|+|.
T Consensus        77 ~vR~itgLgLkEAK~lVe~~P~~ike~vsKeeAe~ik~~Le~aGa~veik  126 (126)
T TIGR00855        77 VVREITGLGLKEAKDLVEGAPKVLKEGVSKEEAEELKKKLEEAGAKVEVK  126 (126)
T ss_pred             HHHHHcCCcHHHHHHHHHhCcHHHHhCCCHHHHHHHHHHHHHcCCEEEeC
Confidence            99999999999999999999999999999999999999999999999983

THis model resembles Pfam model pfam00542 but matches the full length of prokaryotic and organellar proteins rather than just the C-terminus.

>PRK00157 rplL 50S ribosomal protein L7/L12; Reviewed

Probab=100.00  E-value=4.2e-39  Score=250.39  Aligned_cols=122  Identities=47%  Similarity=0.621  Sum_probs=107.3

Q ss_pred             ChhHHHHHHHHhcCCHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCCCCCCCchhhhhhhcceeeEEEeecCcchhHHH
Q 030925           38 TQKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKTAFDVKLEKYDQAAKIKI  117 (169)
Q Consensus        38 s~kv~~Ivd~I~~LtLlE~seLv~~leekfgv~~~a~~~~~~~~~~~aa~~~~~~~~~~~EKt~f~V~L~~~~~~kKi~v  117 (169)
                      +-++++|+|+|++|||+|++||++.|+++|||++.++++++     ++++    .++..+|||+|||+|++| +++||+|
T Consensus         2 ~~~~~~i~e~i~~LtllE~~eLv~~lee~fgv~a~~~~~~~-----~~~~----~~~~~eEkt~f~V~L~~~-~~kKi~v   71 (123)
T PRK00157          2 ALTKEQIIEALKEMTVLELSELVKALEEKFGVSAAAPVAAA-----AAAA----AAAAAEEKTEFDVVLKSA-GDKKIAV   71 (123)
T ss_pred             CccHHHHHHHHHhCCHHHHHHHHHHHHHHcCCCccchhccc-----cccc----cccccccccceeEEEecc-chhhHHH
Confidence            34689999999999999999999999999999987653221     1111    123467999999999999 5799999


Q ss_pred             HHHHHHhhCCChhHHHHHHhhcchhhhcCCCHHHHHHHHHHHHHcCcEEEeC
Q 030925          118 IKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE  169 (169)
Q Consensus       118 IK~VR~it~LgLkEAK~lVe~~P~~IKe~vsKeeAE~ik~kLe~aGA~veiE  169 (169)
                      ||+||++|||||+|||+|||++|++||+|++|+|||++|++|+++||+|+|.
T Consensus        72 IK~vR~itgLgLkEAK~lVe~~P~~ike~v~keeAe~ik~~Le~aGa~velk  123 (123)
T PRK00157         72 IKAVREITGLGLKEAKDLVEGAPKVVKEGVSKEEAEEIKKKLEEAGAKVELK  123 (123)
T ss_pred             HHHHHHHhCCCHHHHHHHHHhCCHHHHhCCCHHHHHHHHHHHHHcCCEEeeC
Confidence            9999999999999999999999999999999999999999999999999984

>COG0222 RplL Ribosomal protein L7/L12 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.3e-38  Score=247.23  Aligned_cols=122  Identities=48%  Similarity=0.626  Sum_probs=107.5

Q ss_pred             hhHHHHHHHHhcCCHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCCCCCCCchhhhhhhcceeeEEEeecCcchhHHHH
Q 030925           39 QKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKTAFDVKLEKYDQAAKIKII  118 (169)
Q Consensus        39 ~kv~~Ivd~I~~LtLlE~seLv~~leekfgv~~~a~~~~~~~~~~~aa~~~~~~~~~~~EKt~f~V~L~~~~~~kKi~vI  118 (169)
                      ..+++|++.|++||++|+++|++.++++|||++.+|++.++  ++  ++    .++..+|||+|||+|.++ +++||+||
T Consensus         3 ~~~e~iie~i~~~svlel~eLvk~~eekfgVsaaa~va~a~--~~--a~----a~~aaeEktefdVvL~~~-g~kKI~VI   73 (124)
T COG0222           3 LTKEQIIEALKELTVLELSELVKALEEKFGVTAAAPVAAAA--AG--AA----AAEAAEEKTEFDVVLKSA-GGKKIAVI   73 (124)
T ss_pred             CcHHHHHHHHHHhhHHHHHHHHHHHHHHhCCccchhhhhcc--cc--cc----ccccccccceeEEEeccc-CCcchhHH
Confidence            35789999999999999999999999999999887744321  11  11    123367999999999999 58999999


Q ss_pred             HHHHHhhCCChhHHHHHHhhcchhhhcCCCHHHHHHHHHHHHHcCcEEEeC
Q 030925          119 KEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE  169 (169)
Q Consensus       119 K~VR~it~LgLkEAK~lVe~~P~~IKe~vsKeeAE~ik~kLe~aGA~veiE  169 (169)
                      |+||++|||||||||++||++|++||+|++|+|||++|++|+++||+|++.
T Consensus        74 K~vR~itGLGLKEAKdlVe~aP~~~KE~v~k~eAe~~kkkleeaGa~V~~k  124 (124)
T COG0222          74 KVVRELTGLGLKEAKDLVEGAPKVLKEGVSKEEAEEIKKKLEEAGAKVELK  124 (124)
T ss_pred             HHHHHHhcccHHHHHHHHHhCcHHHHccCCHHHHHHHHHHHHHcCCeEeeC
Confidence            999999999999999999999999999999999999999999999999984

>PF00542 Ribosomal_L12: Ribosomal protein L7/L12 C-terminal domain; InterPro: IPR013823 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.91  E-value=5.9e-25  Score=155.18  Aligned_cols=68  Identities=54%  Similarity=0.800  Sum_probs=60.3

Q ss_pred             eeeEEEeecCcchhHHHHHHHHHhhCCChhHHHHHHhhcchhhhcCCCHHHHHHHHHHHHHcCcEEEeC
Q 030925          101 AFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE  169 (169)
Q Consensus       101 ~f~V~L~~~~~~kKi~vIK~VR~it~LgLkEAK~lVe~~P~~IKe~vsKeeAE~ik~kLe~aGA~veiE  169 (169)
                      +|||+|+++ +++||++||.||++|||||+|||++||++|++|+++++++|||+++++|+++||+|+|+
T Consensus         1 ef~V~L~~~-~~~ki~vIK~vR~~tgl~L~eAK~~vd~~p~~ik~~v~keeAe~ik~~Le~aGa~v~l~   68 (68)
T PF00542_consen    1 EFDVVLKSF-GEKKIKVIKEVREITGLGLKEAKKLVDSLPKVIKEGVSKEEAEEIKKKLEAAGAKVELK   68 (68)
T ss_dssp             SEEEEEEE--TTGHHHHHHHHHHHC---HHHHHHHHCTTTEEEEEEE-HHHHHHHHHHHHCCT-EEEEE
T ss_pred             CeEEEEeec-ccchHHHHHHHHHHhCCcHHHHHHHHHhCCHHHHcCCCHHHHHHHHHHHHHcCCEEEeC
Confidence            699999999 78999999999999999999999999999999999999999999999999999999985

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 [, ]. This entry represents the C-terminal domain of the large subunit ribosomal proteins, known as the L7/L12 family. L7/L12 is present in each 50S subunit in four copies organised as two dimers. The L8 protein complex consisting of two dimers of L7/L12 and L10 in Escherichia coli ribosomes is assembled on the conserved region of 23 S rRNA termed the GTPase-associated domain []. The L7/L12 dimer probably interacts with EF-Tu. L7 and L12 only differ in a single post translational modification of the addition of an acetyl group to the N terminus of L7.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1DD4_B 1DD3_A 1RQU_B 2GYA_5 2GYC_5 1RQS_A 1RQV_A 1CTF_A 2XUX_L.

>PRK06771 hypothetical protein; Provisional

Probab=97.85  E-value=1.2e-05  Score=60.54  Aligned_cols=29  Identities=28%  Similarity=0.466  Sum_probs=27.1

Q ss_pred             cchhHHHHHHHHHhhCCChhHHHHHHhhc
Q 030925          111 QAAKIKIIKEVKTFTGLGLKESKDLVEKA  139 (169)
Q Consensus       111 ~~kKi~vIK~VR~it~LgLkEAK~lVe~~  139 (169)
                      ..+||+.||.+|+.||+||+|||++||++
T Consensus        65 ~Gkki~AIK~~Re~tG~~L~eAK~yVD~L   93 (93)
T PRK06771         65 EGQTVTAVKRVREAFGFSLLEAKQYVDKL   93 (93)
T ss_pred             cCCchHHHHHHHHHcCCCHHHHHHHHhcC
Confidence            36999999999999999999999999975

>PF02617 ClpS: ATP-dependent Clp protease adaptor protein ClpS; InterPro: IPR003769 In the bacterial cytosol, ATP-dependent protein degradation is performed by several different chaperone-protease pairs, including ClpAP

Probab=89.10  E-value=1.1  Score=31.82  Aligned_cols=65  Identities=20%  Similarity=0.288  Sum_probs=48.2

Q ss_pred             hcceeeEEEeecCcchhHHHHHHHHHhhCCChhHHHHHHhhcc----hhhhcCCCHHHHHHHHHHHHHcC
Q 030925           98 EKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAP----AVIKKGVTKEEADKIVEKLKELN  163 (169)
Q Consensus        98 EKt~f~V~L~~~~~~kKi~vIK~VR~it~LgLkEAK~lVe~~P----~~IKe~vsKeeAE~ik~kLe~aG  163 (169)
                      +...|.|+|-+-+-..--.||..++...|+...+|.++...+-    .+|.. -++++||....+|...|
T Consensus         3 ~~~~~~vvL~NDe~ht~~~Vi~~L~~~~~~s~~~A~~~a~~v~~~G~avv~~-~~~e~ae~~~~~l~~~g   71 (82)
T PF02617_consen    3 EPDMYRVVLWNDEVHTFEQVIDVLRRVFGCSEEQARQIAMEVHREGRAVVGT-GSREEAEEYAEKLQRAG   71 (82)
T ss_dssp             S--EEEEEEE--SSSBHHHHHHHHHHHC---HHHHHHHHHHHHHHSEEEEEE-EEHHHHHHHHHHHHHHH
T ss_pred             CCCceEEEEEcCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHhHcCCEeeee-CCHHHHHHHHHHHHHHh
Confidence            4567899997655556779999999999999999999887553    35544 59999999999999998

ClpS directly influences the ClpAP machine by binding to the N-terminal domain of the chaperone ClpA. The degradation of ClpAP substrates, both SsrA-tagged proteins and ClpA itself, is specifically inhibited by ClpS. ClpS modifies ClpA substrate specificity, potentially redirecting degradation by ClpAP toward aggregated proteins []. ClpS is a small alpha/beta protein that consists of three alpha-helices connected to three antiparallel beta-strands []. The protein has a globular shape, with a curved layer of three antiparallel alpha-helices over a twisted antiparallel beta-sheet. Dimerization of ClpS may occur through its N-terminal domain. This short extended N-terminal region in ClpS is followed by the central seven-residue beta-strand, which is flanked by two other beta-strands in a small beta-sheet. ; GO: 0030163 protein catabolic process; PDB: 3O2O_B 1MBU_D 3O2B_C 2WA9_D 3O1F_A 2W9R_A 1MG9_A 1MBX_C 2WA8_C 1R6O_D ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	169
2xtg_L	121	Trna Tranlocation On The 70s Ribosome: The Pre- Tra		1e-09
1rqu_A	120	Nmr Structure Of L7 Dimer From E.Coli Length = 120		1e-09
2bcw_B	68	Coordinates Of The N-Terminal Domain Of Ribosomal P		1e-09
1rqs_A	74	Nmr Structure Of C-Terminal Domain Of Ribosomal Pro		1e-09
2gya_3	119	Structure Of The 50s Subunit Of A Pre-Translocation		1e-09
2j01_M	125	Structure Of The Thermus Thermophilus 70s Ribosome		1e-08
2zjq_5	122	Interaction Of L7 With L11 Induced By Microccocin B		2e-07
1dd3_A	128	Crystal Structure Of Ribosomal Protein L12 From The		1e-06
2ftc_E	137	Structural Model For The Large Subunit Of The Mamma		2e-05

>pdb|2XTG|L Chain L, Trna Tranlocation On The 70s Ribosome: The Pre- Translocational Translocation Intermediate Ti(Pre) Length = 121

Iteration: 1
 Score = 58.9 bits (141), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 33/63 (52%), Positives = 46/63 (73%), Gaps = 1/63 (1%)
Query: 102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKE 161
           FDV L K   A K+ +IK V+  TGLGLKE+KDLVE APA +K+GV+K++A+ + + L+E
Sbjct: 55  FDVIL-KAAGANKVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEE 113
Query: 162 LNA 164
             A
Sbjct: 114 AGA 116

>pdb|1RQU|A Chain A, Nmr Structure Of L7 Dimer From E.Coli Length = 120

Iteration: 1
 Score = 58.9 bits (141), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 33/63 (52%), Positives = 46/63 (73%), Gaps = 1/63 (1%)
Query: 102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKE 161
           FDV L K   A K+ +IK V+  TGLGLKE+KDLVE APA +K+GV+K++A+ + + L+E
Sbjct: 54  FDVIL-KAAGANKVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEE 112
Query: 162 LNA 164
             A
Sbjct: 113 AGA 115

>pdb|2BCW|B Chain B, Coordinates Of The N-Terminal Domain Of Ribosomal Protein L11,C-Terminal Domain Of Ribosomal Protein L7L12 AND A Portion Of The G' Domain Of Elongation Factor G, As Fitted Into Cryo-Em Map Of An Escherichia Coli 70sEf- GGdpFusidic Acid Complex Length = 68

Iteration: 1
 Score = 58.9 bits (141), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 34/65 (52%), Positives = 47/65 (72%), Gaps = 1/65 (1%)
Query: 102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKE 161
           FDV L K   A K+ +IK V+  TGLGLKE+KDLVE APA +K+GV+K++A+ + + L+E
Sbjct: 2   FDVIL-KAAGANKVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEE 60
Query: 162 LNAIV 166
             A V
Sbjct: 61  AGAEV 65

>pdb|1RQS|A Chain A, Nmr Structure Of C-Terminal Domain Of Ribosomal Protein L7 From E.Coli Length = 74

Iteration: 1
 Score = 58.9 bits (141), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 34/65 (52%), Positives = 47/65 (72%), Gaps = 1/65 (1%)
Query: 102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKE 161
           FDV L K   A K+ +IK V+  TGLGLKE+KDLVE APA +K+GV+K++A+ + + L+E
Sbjct: 8   FDVIL-KAAGANKVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEE 66
Query: 162 LNAIV 166
             A V
Sbjct: 67  AGAEV 71

>pdb|2GYA|3 Chain 3, Structure Of The 50s Subunit Of A Pre-Translocational E. Coli Ribosome Obtained By Fitting Atomic Models For Rna And Protein Components Into Cryo-Em Map Emd-1056 Length = 119

Iteration: 1
 Score = 58.9 bits (141), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 33/63 (52%), Positives = 46/63 (73%), Gaps = 1/63 (1%)
Query: 102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKE 161
           FDV L K   A K+ +IK V+  TGLGLKE+KDLVE APA +K+GV+K++A+ + + L+E
Sbjct: 53  FDVIL-KAAGANKVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEE 111
Query: 162 LNA 164
             A
Sbjct: 112 AGA 114

>pdb|2ZJQ|5 Chain 5, Interaction Of L7 With L11 Induced By Microccocin Binding To The Deinococcus Radiodurans 50s Subunit Length = 122

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 29/57 (50%), Positives = 42/57 (73%), Gaps = 1/57 (1%)
Query: 112 AAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVL 168
           A+KI +IKE++  TGLGLKE+KD+ EK   V+K+GV K+EA+K+  +L+   A V L
Sbjct: 66  ASKINVIKEIRGITGLGLKEAKDMSEKG-GVLKEGVAKDEAEKMKAQLEAAGARVEL 121

>pdb|1DD3|A Chain A, Crystal Structure Of Ribosomal Protein L12 From Thermotoga Maritima Length = 128

Iteration: 1
 Score = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 30/50 (60%), Positives = 37/50 (74%), Gaps = 4/50 (8%)
Query: 102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAP---AVIKKGVT 148
           FDV L+ + Q  KI++IK V+  TGLGLKE+KDLVEKA    AVIK GV+
Sbjct: 59  FDVVLKSFGQN-KIQVIKVVREITGLGLKEAKDLVEKAGSPDAVIKSGVS 107

>pdb|2FTC|E Chain E, Structural Model For The Large Subunit Of The Mammalian Mitochondrial Ribosome Length = 137

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 29/69 (42%), Positives = 41/69 (59%), Gaps = 1/69 (1%)
Query: 102 FDVKLEKYDQAAKIKIIKEVKTFT-GLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLK 160
           F V+L +     K+K+IKE+K +  G+ L ++K LVE  P  IK  V K EA+KI   L+
Sbjct: 69  FTVRLTEAKPVDKVKLIKEIKNYVQGINLVQAKKLVESLPQEIKANVAKAEAEKIKAALE 128
Query: 161 ELNAIVVLE 169
            +   VVLE
Sbjct: 129 AVGGTVVLE 137

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	169
2ftc_E	137	L12MT, MRP-L12, 39S ribosomal protein L12, mitocho	1e-30
2j01_L	125	50S ribosomal protein L7; ribosome, tRNA, paromomy	8e-22
3sgf_J	121	50S ribosomal protein L7/L12; typeii release facto	4e-21
1dd3_A	128	50S ribosomal protein L7/L12; dimer formation, fle	1e-20
2zjq_5	122	50S ribosomal protein L7/L12; ribosome, ribosomal	3e-20
1ctf_A	74	Ribosomal protein L7/L12; 1.70A {Escherichia coli}	4e-18
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-04

>2ftc_E L12MT, MRP-L12, 39S ribosomal protein L12, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} Length = 137

 Score =  107 bits (268), Expect = 1e-30
 Identities = 44/136 (32%), Positives = 67/136 (49%), Gaps = 6/136 (4%)

Query: 40  KLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVV-----PAFPSSGPAASGSTSAET 94
           K++++  ++  LT LE  D   LL   L +   G +      P    +  A   +     
Sbjct: 2   KIQQLVQDIASLTLLEISDLNELLKKTLKIQDVGLMPMGGMVPGAAPAPTAPEAAEEDVP 61

Query: 95  KAAEKTAFDVKLEKYDQAAKIKIIKEVKTF-TGLGLKESKDLVEKAPAVIKKGVTKEEAD 153
           K  E+T F V+L +     K+K+IKE+K +  G+ L ++K LVE  P  IK  V K EA+
Sbjct: 62  KQKERTHFTVRLTEAKPVDKVKLIKEIKNYVQGINLVQAKKLVESLPQEIKANVAKAEAE 121

Query: 154 KIVEKLKELNAIVVLE 169
           KI   L+ +   VVLE
Sbjct: 122 KIKAALEAVGGTVVLE 137

>3sgf_J 50S ribosomal protein L7/L12; typeii release factor binding with ribosome, ribosome-antibi complex; 3.20A {Escherichia coli} PDB: 2xtg_L 2xux_L 3uos_J 1rqu_A 1rqv_A 2gya_3 2gyc_3 1rqt_A Length = 121

 Score = 82.1 bits (203), Expect = 4e-21
 Identities = 42/129 (32%), Positives = 69/129 (53%), Gaps = 12/129 (9%)

Query: 40  KLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEK 99
             ++I + +  ++ ++  +  + +  K G+     V  A      A            EK
Sbjct: 4   TKDQIIEAVAAMSVMDVVELISAMEEKFGVSAAAAVAVAAGPVEAAE-----------EK 52

Query: 100 TAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKL 159
           T FDV L+    A K+ +IK V+  TGLGLKE+KDLVE APA +K+GV+K++A+ + + L
Sbjct: 53  TEFDVILKAAG-ANKVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKAL 111

Query: 160 KELNAIVVL 168
           +E  A V +
Sbjct: 112 EEAGAEVEV 120

>1dd3_A 50S ribosomal protein L7/L12; dimer formation, flexibility, hinge region, four-helix-bundl helix- bundle, alpha-beta structure; 2.00A {Thermotoga maritima} SCOP: a.108.1.1 d.45.1.1 PDB: 1dd4_A* 1giy_I 1yl3_I Length = 128

 Score = 81.4 bits (201), Expect = 1e-20
 Identities = 55/131 (41%), Positives = 73/131 (55%), Gaps = 9/131 (6%)

Query: 41  LERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKT 100
           ++ I + +  LT  E  +    L  K G+    PV  A      A     +A     EKT
Sbjct: 3   IDEIIEAIEKLTVSELAELVKKLEDKFGVTAAAPVAVA-----AAPVAGAAAGAAQEEKT 57

Query: 101 AFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAP---AVIKKGVTKEEADKIVE 157
            FDV L+ +    KI++IK V+  TGLGLKE+KDLVEKA    AVIK GV+KEEA++I +
Sbjct: 58  EFDVVLKSFG-QNKIQVIKVVREITGLGLKEAKDLVEKAGSPDAVIKSGVSKEEAEEIKK 116

Query: 158 KLKELNAIVVL 168
           KL+E  A V L
Sbjct: 117 KLEEAGAEVEL 127

>2zjq_5 50S ribosomal protein L7/L12; ribosome, ribosomal subunit, thiopeptide antibiotics, complex, translational regulation, molecular switch; 3.30A {Deinococcus radiodurans} SCOP: d.45.1.1 Length = 122

 Score = 80.1 bits (198), Expect = 3e-20
 Identities = 46/130 (35%), Positives = 66/130 (50%), Gaps = 11/130 (8%)

Query: 40  KLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEK 99
             + + D+L  LT +E  D    L    G+     V      +   A         A EK
Sbjct: 4   DKQALIDQLGQLTIMELADLIDGLKETWGVTAAVAVSGGGAGAASPA---------AEEK 54

Query: 100 TAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKL 159
           T FDV L     A+KI +IKE++  TGLGLKE+KD+ EK    +K+GV K+EA+K+  +L
Sbjct: 55  TEFDVVLIDAG-ASKINVIKEIRGITGLGLKEAKDMSEKGGV-LKEGVAKDEAEKMKAQL 112

Query: 160 KELNAIVVLE 169
           +   A V L+
Sbjct: 113 EAAGARVELK 122

>1ctf_A Ribosomal protein L7/L12; 1.70A {Escherichia coli} SCOP: d.45.1.1 PDB: 1rqs_A 2bcw_B Length = 74

 Score = 73.2 bits (180), Expect = 4e-18
 Identities = 37/74 (50%), Positives = 53/74 (71%), Gaps = 1/74 (1%)

Query: 96  AAEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKI 155
           A EKT FDV L+    A K+ +IK V+  TGLGLKE+KDLVE APA +K+GV+K++A+ +
Sbjct: 2   AEEKTEFDVILKAAG-ANKVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEAL 60

Query: 156 VEKLKELNAIVVLE 169
            + L+E  A V ++
Sbjct: 61  KKALEEAGAEVEVK 74

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 39.1 bits (90), Expect = 4e-04
 Identities = 30/216 (13%), Positives = 57/216 (26%), Gaps = 61/216 (28%)

Query: 2   HSVTIKFP------RLGRVFTTLKVTEAVTS--------SRSLCTVTESRTQKLERISDE 47
           + V  K         L    +   V E +            S    + +   ++  I  E
Sbjct: 174 YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE 233

Query: 48  LLDLTKLERYDFATL---------------LGCKLGL---------DRFGPVVPAFPSSG 83
           L  L K + Y+   L               L CK+ L         D          S  
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKI-LLTTRFKQVTDFLSAATTTHISLD 292

Query: 84  PAASGSTSAETKAAEKTAFDVKLEKY-DQAAK-----IKIIKEVKTFTGLGLKESKD--- 134
             +   T  E K+      D + +    +        + II E        +++      
Sbjct: 293 HHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAES-------IRDGLATWD 345

Query: 135 -----LVEKAPAVIKKGVTKEEADKIVEKLKELNAI 165
                  +K   +I+  +   E  +  +    L ++
Sbjct: 346 NWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRL-SV 380

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	169
2ftc_E	137	L12MT, MRP-L12, 39S ribosomal protein L12, mitocho	100.0
2j01_L	125	50S ribosomal protein L7; ribosome, tRNA, paromomy	100.0
2zjq_5	122	50S ribosomal protein L7/L12; ribosome, ribosomal	100.0
1dd3_A	128	50S ribosomal protein L7/L12; dimer formation, fle	100.0
3sgf_J	121	50S ribosomal protein L7/L12; typeii release facto	100.0
1ctf_A	74	Ribosomal protein L7/L12; 1.70A {Escherichia coli}	99.96
1dd4_C	40	50S ribosomal protein L7/L12; dimer formation, fle	99.14
1zav_U	30	50S ribosomal protein L7/L12; ribosome structure a	98.57
2cp9_A	64	EF-TS, EF-TSMT, elongation factor TS, mitochondria	83.65

>2ftc_E L12MT, MRP-L12, 39S ribosomal protein L12, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus}

Probab=100.00  E-value=6.9e-45  Score=286.00  Aligned_cols=131  Identities=34%  Similarity=0.486  Sum_probs=110.8

Q ss_pred             hhHHHHHHHHhcCCHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCC--CCCCCC---chhhhhhhcceeeEEEeecCcch
Q 030925           39 QKLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGP--AASGST---SAETKAAEKTAFDVKLEKYDQAA  113 (169)
Q Consensus        39 ~kv~~Ivd~I~~LtLlE~seLv~~leekfgv~~~a~~~~~~~~~~~--aa~~~~---~~~~~~~EKt~f~V~L~~~~~~k  113 (169)
                      +|+++|+|+|++|||+|++||++.|+++|||++.++++++++++++  ++++++   .++++.+|||+|||+|++||+++
T Consensus         1 ~kv~~ive~i~~LtllE~~eLv~~leekfgv~aaa~~~~~~~~~~~~~~a~a~~~~~~~a~~~eEKteFdV~L~~~~a~~   80 (137)
T 2ftc_E            1 PKIQQLVQDIASLTLLEISDLNELLKKTLKIQDVGLMPMGGMVPGAAPAPTAPEAAEEDVPKQKERTHFTVRLTEAKPVD   80 (137)
T ss_pred             CcHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcccccccccccccCCCCccccccccccccccccCCeeEEEeeccCccc
Confidence            5899999999999999999999999999999987654333211111  111101   11233579999999999999899


Q ss_pred             hHHHHHHHHHh-hCCChhHHHHHHhhcchhhhcCCCHHHHHHHHHHHHHcCcEEEeC
Q 030925          114 KIKIIKEVKTF-TGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVLE  169 (169)
Q Consensus       114 Ki~vIK~VR~i-t~LgLkEAK~lVe~~P~~IKe~vsKeeAE~ik~kLe~aGA~veiE  169 (169)
                      ||+|||+||++ |||||||||+|||++|++||+|+||+|||+||++|+++||+|+||
T Consensus        81 KI~VIK~VR~i~TgLgLkEAK~lVe~aP~~iKe~vsKeeAE~iK~kLe~aGA~Vele  137 (137)
T 2ftc_E           81 KVKLIKEIKNYVQGINLVQAKKLVESLPQEIKANVAKAEAEKIKAALEAVGGTVVLE  137 (137)
T ss_pred             hhHHHHHHHHhccCCChHHHHHHHHhCCHHHHcCCCHHHHHHHHHHHHHcCCEEEeC
Confidence            99999999997 999999999999999999999999999999999999999999997

>2zjq_5 50S ribosomal protein L7/L12; ribosome, ribosomal subunit, thiopeptide antibiotics, complex, translational regulation, molecular switch; 3.30A {Deinococcus radiodurans} SCOP: d.45.1.1

Probab=100.00  E-value=3.8e-40  Score=254.82  Aligned_cols=118  Identities=41%  Similarity=0.525  Sum_probs=104.4

Q ss_pred             hHHHHHHHHhcCCHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCCCCCCCchhhhhhhcceeeEEEeecCcchhHHHHH
Q 030925           40 KLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKTAFDVKLEKYDQAAKIKIIK  119 (169)
Q Consensus        40 kv~~Ivd~I~~LtLlE~seLv~~leekfgv~~~a~~~~~~~~~~~aa~~~~~~~~~~~EKt~f~V~L~~~~~~kKi~vIK  119 (169)
                      ++++|+|+|++||++|++||++.|+++|||++.+|++++    +|+++     .++.+|||+|||+|++|+ ++||+|||
T Consensus         4 ~~~~i~e~i~~ltllE~~eLv~~lee~fgv~aaap~a~a----~~~a~-----a~a~eEKteFdV~L~~~~-~~KI~VIK   73 (122)
T 2zjq_5            4 DKQALIDQLGQLTIMELADLIDGLKETWGVTAAVAVSGG----GAGAA-----SPAAEEKTEFDVVLIDAG-ASKINVIK   73 (122)
T ss_pred             cHHHHHHHHHcCCHHHHHHHHHHHHHHcCCCCccccccc----CCCcc-----cccccccceeEEEEecCC-cchHHHHH
Confidence            468999999999999999999999999999987653321    12111     123479999999999996 79999999


Q ss_pred             HHHHhhCCChhHHHHHHhhcchhhhcCCCHHHHHHHHHHHHHcCcEEEe
Q 030925          120 EVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVL  168 (169)
Q Consensus       120 ~VR~it~LgLkEAK~lVe~~P~~IKe~vsKeeAE~ik~kLe~aGA~vei  168 (169)
                      +||++|||||||||+|||++ ++||+|++|+|||+||++|+++||+|+|
T Consensus        74 ~VR~itgLgLkEAK~lVe~a-~~iKe~vsKeeAE~iK~kLe~aGA~Vel  121 (122)
T 2zjq_5           74 EIRGITGLGLKEAKDMSEKG-GVLKEGVAKDEAEKMKAQLEAAGARVEL  121 (122)
T ss_pred             HHHHhcCCCHHHHHHHHHHH-HHHHhcCCHHHHHHHHHHHHHcCCEEEe
Confidence            99999999999999999999 9999999999999999999999999997

>1dd3_A 50S ribosomal protein L7/L12; dimer formation, flexibility, hinge region, four-helix-bundl helix- bundle, alpha-beta structure; 2.00A {Thermotoga maritima} SCOP: a.108.1.1 d.45.1.1 PDB: 1dd4_A* 1giy_I 1yl3_I

Probab=100.00  E-value=1.8e-41  Score=263.98  Aligned_cols=122  Identities=45%  Similarity=0.616  Sum_probs=105.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCCCCCCCchhhhhhhcceeeEEEeecCcchhHHHHHH
Q 030925           41 LERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKTAFDVKLEKYDQAAKIKIIKE  120 (169)
Q Consensus        41 v~~Ivd~I~~LtLlE~seLv~~leekfgv~~~a~~~~~~~~~~~aa~~~~~~~~~~~EKt~f~V~L~~~~~~kKi~vIK~  120 (169)
                      +++|+|+|++||++|++||++.|+++|||++.+|++++   ++|++++  ..+++.+|||+|||+|++|+ ++||+|||+
T Consensus         3 ~~~ive~i~~ltllE~~eLv~~lee~fgv~aaapva~~---~~~~~~~--a~~~a~eEKteFdV~L~~~~-~~KI~VIK~   76 (128)
T 1dd3_A            3 IDEIIEAIEKLTVSELAELVKKLEDKFGVTAAAPVAVA---AAPVAGA--AAGAAQEEKTEFDVVLKSFG-QNKIQVIKV   76 (128)
T ss_dssp             HHHHHHHHTTSCHHHHHHHHHHHHHHHCHHHHHHHHHH---HHHHHHH--HHHHHHHTTSSEEEEEEECT-TCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHhCCCCcchhhcc---ccccccc--cccccccccceeeEEEecCC-cchHHHHHH
Confidence            68999999999999999999999999999976543221   0110110  01234679999999999996 799999999


Q ss_pred             HHHhhCCChhHHHHHHhhcch---hhhcCCCHHHHHHHHHHHHHcCcEEEe
Q 030925          121 VKTFTGLGLKESKDLVEKAPA---VIKKGVTKEEADKIVEKLKELNAIVVL  168 (169)
Q Consensus       121 VR~it~LgLkEAK~lVe~~P~---~IKe~vsKeeAE~ik~kLe~aGA~vei  168 (169)
                      ||++|||||||||+|||++|+   +||+|+||+|||+||++|+++||+|+|
T Consensus        77 VR~itgLgLKEAK~lVe~aP~~~~~iKe~vsKeeAE~iK~kLe~aGA~Vel  127 (128)
T 1dd3_A           77 VREITGLGLKEAKDLVEKAGSPDAVIKSGVSKEEAEEIKKKLEEAGAEVEL  127 (128)
T ss_dssp             HHHHHCCCHHHHHHHHTTTTSTTCEEEEEECHHHHHHHHHHHHHTTCEEEE
T ss_pred             HHHhcCCCHHHHHHHHHhCCccchHHHcCCCHHHHHHHHHHHHHcCCEEEe
Confidence            999999999999999999999   999999999999999999999999997

>3sgf_J 50S ribosomal protein L7/L12; typeii release factor binding with ribosome, ribosome-antibi complex; 3.20A {Escherichia coli} PDB: 2xtg_L 2xux_L 3uos_J 1rqu_A 1rqv_A 2gya_3 2gyc_3 1rqt_A

Probab=100.00  E-value=4.4e-41  Score=259.74  Aligned_cols=117  Identities=36%  Similarity=0.529  Sum_probs=27.1

Q ss_pred             hHHHHHHHHhcCCHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCCCCCCCchhhhhhhcceeeEEEeecCcchhHHHHH
Q 030925           40 KLERISDELLDLTKLERYDFATLLGCKLGLDRFGPVVPAFPSSGPAASGSTSAETKAAEKTAFDVKLEKYDQAAKIKIIK  119 (169)
Q Consensus        40 kv~~Ivd~I~~LtLlE~seLv~~leekfgv~~~a~~~~~~~~~~~aa~~~~~~~~~~~EKt~f~V~L~~~~~~kKi~vIK  119 (169)
                      .+++|+|+|++||++|++||++.|+++|||++.++++      +|++     ++++.+|||+|||+|++++ ++||+|||
T Consensus         4 ~~~~ive~i~~ltllE~~eLv~~lee~fgVsaaa~~a------~~a~-----~a~a~eEKteFdV~L~~~g-~~Ki~VIK   71 (121)
T 3sgf_J            4 TKDQIIEAVAAMSVMDVVELISAMEEKFGVSAAAAVA------VAAG-----PVEAAEEKTEFDVILKAAG-ANKVAVIK   71 (121)
T ss_dssp             CHHHHHHGGGGCHHHHHHHHHTTTCSCC----------------------------------------------------
T ss_pred             cHHHHHHHHHcCCHHHHHHHHHHHHHHcCCCcccccc------cccc-----ccccccccceeEEEEecCc-hhhHHHHH
Confidence            5789999999999999999999999999999765431      1111     1234579999999999995 79999999


Q ss_pred             HHHHhhCCChhHHHHHHhhcchhhhcCCCHHHHHHHHHHHHHcCcEEEe
Q 030925          120 EVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVL  168 (169)
Q Consensus       120 ~VR~it~LgLkEAK~lVe~~P~~IKe~vsKeeAE~ik~kLe~aGA~vei  168 (169)
                      +||++|||||||||+|||++|++||+|++|+|||+||++|+++||+|+|
T Consensus        72 ~VR~itgLgLkEAK~lVe~aP~~iKe~vsKeeAE~ik~kLe~aGA~Vel  120 (121)
T 3sgf_J           72 AVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEEAGAEVEV  120 (121)
T ss_dssp             -------------------------------------------------
T ss_pred             HHHHhcCCCHHHHHHHHHhCCHHHHcCCCHHHHHHHHHHHHHcCCEEee
Confidence            9999999999999999999999999999999999999999999999987

>1ctf_A Ribosomal protein L7/L12; 1.70A {Escherichia coli} SCOP: d.45.1.1 PDB: 1rqs_A 2bcw_B

Probab=99.96  E-value=3.3e-30  Score=184.41  Aligned_cols=71  Identities=51%  Similarity=0.723  Sum_probs=65.9

Q ss_pred             hhcceeeEEEeecCcchhHHHHHHHHHhhCCChhHHHHHHhhcchhhhcCCCHHHHHHHHHHHHHcCcEEEe
Q 030925           97 AEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVL  168 (169)
Q Consensus        97 ~EKt~f~V~L~~~~~~kKi~vIK~VR~it~LgLkEAK~lVe~~P~~IKe~vsKeeAE~ik~kLe~aGA~vei  168 (169)
                      +|||+|||+|++++ ++||+|||+||++|||||+|||+|||++|++||+|++|+|||+||++|+++||+|+|
T Consensus         3 eEkteFdV~L~~~~-~~Ki~vIK~VR~itgLgLkEAK~lVe~~P~~iKe~vsKeeAe~ik~~Le~aGA~Vel   73 (74)
T 1ctf_A            3 EEKTEFDVILKAAG-ANKVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEEAGAEVEV   73 (74)
T ss_dssp             ----CEEEEEEECG-GGHHHHHHHHHHHHCCCHHHHHHHHHTCSEEEEEEECHHHHHHHHHHHHHHTCEEEE
T ss_pred             cccceeEEEEeeCC-cchhHHHHHHHHHcCCCHHHHHHHHHhCcHHHHcCCCHHHHHHHHHHHHHcCCEEEe
Confidence            68999999999996 799999999999999999999999999999999999999999999999999999997

>1dd4_C 50S ribosomal protein L7/L12; dimer formation, flexibility, hinge region, four-helix- bundle, five-helix- bundle, alpha-beta structure; HET: TBR; 2.40A {Thermotoga maritima} SCOP: a.108.1.1

Probab=99.14  E-value=5.5e-11  Score=75.89  Aligned_cols=35  Identities=23%  Similarity=0.334  Sum_probs=31.5

Q ss_pred             hHHHHHHHHhcCCHHHHHHHHHHHHHHhCCCCCCC
Q 030925           40 KLERISDELLDLTKLERYDFATLLGCKLGLDRFGP   74 (169)
Q Consensus        40 kv~~Ivd~I~~LtLlE~seLv~~leekfgv~~~a~   74 (169)
                      ++++|+|+|++||++|++||++.||++|||++.++
T Consensus         2 ~~~~iie~i~~lTvlE~~eLvk~leekfGVsaaa~   36 (40)
T 1dd4_C            2 TIDEIIEAIEKLTVSELAELVKKLEDKFGVTAAAP   36 (40)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHHHHHTCCCSCC-
T ss_pred             CHHHHHHHHHhCcHHHHHHHHHHHHHHHCCCcccc
Confidence            47899999999999999999999999999997544

>1zav_U 50S ribosomal protein L7/L12; ribosome structure and function, L10-L12 complex structure, L10E structure, L7/12 ribosomal stalk; 1.90A {Thermotoga maritima} SCOP: a.108.1.1 PDB: 1zaw_U 1zax_U 1dd3_C

Probab=98.57  E-value=4.5e-08  Score=58.87  Aligned_cols=28  Identities=25%  Similarity=0.332  Sum_probs=27.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 030925           41 LERISDELLDLTKLERYDFATLLGCKLG   68 (169)
Q Consensus        41 v~~Ivd~I~~LtLlE~seLv~~leekfg   68 (169)
                      +++|+|+|++||++|++||++.|+++||
T Consensus         3 ~~~iie~i~~lTvlEl~eLvk~lEe~fG   30 (30)
T 1zav_U            3 IDEIIEAIEKLTVSELAELVKKLEDKFG   30 (30)
T ss_dssp             HHHHHHHHHHSBHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHHhC
Confidence            5799999999999999999999999998

>2cp9_A EF-TS, EF-TSMT, elongation factor TS, mitochondrial; UBA, structural genomics, human, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.2

Probab=83.65  E-value=0.82  Score=31.27  Aligned_cols=27  Identities=15%  Similarity=0.294  Sum_probs=22.9

Q ss_pred             HHHHHHHHHhhCCChhHHHHHHhhcch
Q 030925          115 IKIIKEVKTFTGLGLKESKDLVEKAPA  141 (169)
Q Consensus       115 i~vIK~VR~it~LgLkEAK~lVe~~P~  141 (169)
                      ...||++|+.||.|.+|+|+..+.+-.
T Consensus        10 ~~~Vk~LRe~TGag~~dcKkAL~e~~G   36 (64)
T 2cp9_A           10 KELLMKLRRKTGYSFVNCKKALETCGG   36 (64)
T ss_dssp             CHHHHHHHHHHCCCHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCC
Confidence            378999999999999999997766543

---

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	169
d1dd3a2	71	d.45.1.1 (A:58-128) Ribosomal protein L7/12, C-ter	3e-17
d1ctfa_	68	d.45.1.1 (A:) Ribosomal protein L7/12, C-terminal	5e-17

>d1dd3a2 d.45.1.1 (A:58-128) Ribosomal protein L7/12, C-terminal domain {Thermotoga maritima [TaxId: 2336]} Length = 71

class: Alpha and beta proteins (a+b)
fold: ClpS-like
superfamily: ClpS-like
family: Ribosomal protein L7/12, C-terminal domain
domain: Ribosomal protein L7/12, C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 70.0 bits (172), Expect = 3e-17
 Identities = 40/70 (57%), Positives = 51/70 (72%), Gaps = 4/70 (5%)

Query: 102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAP---AVIKKGVTKEEADKIVEK 158
           FDV L+ +    KI++IK V+  TGLGLKE+KDLVEKA    AVIK GV+KEEA++I +K
Sbjct: 2   FDVVLKSFG-QNKIQVIKVVREITGLGLKEAKDLVEKAGSPDAVIKSGVSKEEAEEIKKK 60

Query: 159 LKELNAIVVL 168
           L+E  A V L
Sbjct: 61  LEEAGAEVEL 70

>d1ctfa_ d.45.1.1 (A:) Ribosomal protein L7/12, C-terminal domain {Escherichia coli [TaxId: 562]} Length = 68

class: Alpha and beta proteins (a+b)
fold: ClpS-like
superfamily: ClpS-like
family: Ribosomal protein L7/12, C-terminal domain
domain: Ribosomal protein L7/12, C-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 68.9 bits (169), Expect = 5e-17
 Identities = 33/67 (49%), Positives = 48/67 (71%), Gaps = 1/67 (1%)

Query: 102 FDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKE 161
           FDV L+    A K+ +IK V+  TGLGLKE+KDLVE APA +K+GV+K++A+ + + L+E
Sbjct: 2   FDVILKAAG-ANKVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEE 60

Query: 162 LNAIVVL 168
             A V +
Sbjct: 61  AGAEVEV 67

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	169
d2zjq51	71	Ribosomal protein L7/12, C-terminal domain {Deinoc	99.95
d1ctfa_	68	Ribosomal protein L7/12, C-terminal domain {Escher	99.94
d1dd3a2	71	Ribosomal protein L7/12, C-terminal domain {Thermo	99.93
d1dd3a1	57	Ribosomal protein L7/12, oligomerisation (N-termin	98.89
d2gyc31	47	Ribosomal protein L7/12, oligomerisation (N-termin	98.28
d1zavu1	30	Ribosomal protein L7/12, oligomerisation (N-termin	97.93
d1aipc1	52	Elongation factor Ts (EF-Ts), N-terminal domain {T	93.09
d1efub3	54	Elongation factor Ts (EF-Ts), N-terminal domain {E	90.32
d1xb2b1	56	Elongation factor Ts (EF-Ts), N-terminal domain {C	89.35

>d2zjq51 d.45.1.1 (5:52-122) Ribosomal protein L7/12, C-terminal domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a+b)
fold: ClpS-like
superfamily: ClpS-like
family: Ribosomal protein L7/12, C-terminal domain
domain: Ribosomal protein L7/12, C-terminal domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=99.95  E-value=7e-29  Score=174.63  Aligned_cols=70  Identities=51%  Similarity=0.723  Sum_probs=67.1

Q ss_pred             hhcceeeEEEeecCcchhHHHHHHHHHhhCCChhHHHHHHhhcchhhhcCCCHHHHHHHHHHHHHcCcEEEe
Q 030925           97 AEKTAFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVL  168 (169)
Q Consensus        97 ~EKt~f~V~L~~~~~~kKi~vIK~VR~it~LgLkEAK~lVe~~P~~IKe~vsKeeAE~ik~kLe~aGA~vei  168 (169)
                      +|||+|||+|+++| ++||+|||+||++|||||+|||+|||+ |.+||+|++|+|||++|++|+++||+|+|
T Consensus         1 EEKt~F~V~L~~~~-~~Ki~vIK~VR~it~LgLkeAK~lVe~-p~~ike~vsKeeAE~~k~~Le~aGA~Vel   70 (71)
T d2zjq51           1 EEKTEFDVVLIDAG-ASKINVIKEIRGITGLGLKEAKDMSEK-GGVLKEGVAKDEAEKMKAQLEAAGARVEL   70 (71)
T ss_pred             CCCcEEEEEEeeCC-cchhhHHHHHHHhcCCCHHHHHhhccC-chHhhcCCCHHHHHHHHHHHHHcCCEEEe
Confidence            48999999999998 589999999999999999999999998 77999999999999999999999999987

>d1ctfa_ d.45.1.1 (A:) Ribosomal protein L7/12, C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: ClpS-like
superfamily: ClpS-like
family: Ribosomal protein L7/12, C-terminal domain
domain: Ribosomal protein L7/12, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.94  E-value=3.8e-28  Score=169.63  Aligned_cols=67  Identities=49%  Similarity=0.720  Sum_probs=65.1

Q ss_pred             eeeEEEeecCcchhHHHHHHHHHhhCCChhHHHHHHhhcchhhhcCCCHHHHHHHHHHHHHcCcEEEe
Q 030925          101 AFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIVEKLKELNAIVVL  168 (169)
Q Consensus       101 ~f~V~L~~~~~~kKi~vIK~VR~it~LgLkEAK~lVe~~P~~IKe~vsKeeAE~ik~kLe~aGA~vei  168 (169)
                      +|||+|+++| ++||+|||+||++|||||+|||+|||++|++||+|+||+|||++|++|+++||+|+|
T Consensus         1 EF~V~L~~~~-~~Ki~vIK~VR~it~lgLkEAK~lVe~~P~~ike~vskeeAE~ik~~Le~aGA~Vel   67 (68)
T d1ctfa_           1 EFDVILKAAG-ANKVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEEAGAEVEV   67 (68)
T ss_dssp             CEEEEEEECG-GGHHHHHHHHHHHHCCCHHHHHHHHHTCSEEEEEEECHHHHHHHHHHHHHHTCEEEE
T ss_pred             CeEEEEccCC-cchhHHHHHHHHhcCCCHHHHHHHHHcCCHHHHcCCCHHHHHHHHHHHHHcCCEEEe
Confidence            6999999997 589999999999999999999999999999999999999999999999999999987

>d1dd3a2 d.45.1.1 (A:58-128) Ribosomal protein L7/12, C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: ClpS-like
superfamily: ClpS-like
family: Ribosomal protein L7/12, C-terminal domain
domain: Ribosomal protein L7/12, C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.93  E-value=4.7e-27  Score=165.24  Aligned_cols=67  Identities=58%  Similarity=0.805  Sum_probs=64.1

Q ss_pred             eeeEEEeecCcchhHHHHHHHHHhhCCChhHHHHHHhhcch---hhhcCCCHHHHHHHHHHHHHcCcEEEe
Q 030925          101 AFDVKLEKYDQAAKIKIIKEVKTFTGLGLKESKDLVEKAPA---VIKKGVTKEEADKIVEKLKELNAIVVL  168 (169)
Q Consensus       101 ~f~V~L~~~~~~kKi~vIK~VR~it~LgLkEAK~lVe~~P~---~IKe~vsKeeAE~ik~kLe~aGA~vei  168 (169)
                      +|||+|++|+ ++||+|||+||++|||||+|||+|||++|.   +||+|++|+|||++|++|+++||+|+|
T Consensus         1 EF~V~L~~~~-~~KI~vIK~VR~it~lgLkEAK~lVe~~p~~~~vike~v~KeeAE~~K~~Le~aGA~V~l   70 (71)
T d1dd3a2           1 EFDVVLKSFG-QNKIQVIKVVREITGLGLKEAKDLVEKAGSPDAVIKSGVSKEEAEEIKKKLEEAGAEVEL   70 (71)
T ss_dssp             SEEEEEEECT-TCHHHHHHHHHHHHCCCHHHHHHHHTTTTSTTCEEEEEECHHHHHHHHHHHHHTTCEEEE
T ss_pred             CeEEEEcccC-ccchhHHHHHHHhcCCCHHHHHHHHHhcCCchHHHhcCCCHHHHHHHHHHHHHcCCEEEe
Confidence            6999999996 689999999999999999999999998885   799999999999999999999999987

>d1dd3a1 a.108.1.1 (A:1-57) Ribosomal protein L7/12, oligomerisation (N-terminal) domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: Ribosomal protein L7/12, oligomerisation (N-terminal) domain
superfamily: Ribosomal protein L7/12, oligomerisation (N-terminal) domain
family: Ribosomal protein L7/12, oligomerisation (N-terminal) domain
domain: Ribosomal protein L7/12, oligomerisation (N-terminal) domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.89  E-value=9.9e-12  Score=82.79  Aligned_cols=36  Identities=25%  Similarity=0.356  Sum_probs=33.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHhCCCCCCCCC
Q 030925           41 LERISDELLDLTKLERYDFATLLGCKLGLDRFGPVV   76 (169)
Q Consensus        41 v~~Ivd~I~~LtLlE~seLv~~leekfgv~~~a~~~   76 (169)
                      +++|++.|.+||++|++||++.|+++|||++++|++
T Consensus         3 ~e~iie~I~~~tv~El~ELvKalEekfGVsAaaPV~   38 (57)
T d1dd3a1           3 IDEIIEAIEKLTVSELAELVKKLEDKFGVTAAAPVA   38 (57)
T ss_dssp             HHHHHHHHTTSCHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHHhCcccchhHH
Confidence            689999999999999999999999999999877654

>d2gyc31 a.108.1.1 (3:2-48) Ribosomal protein L7/12, oligomerisation (N-terminal) domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Ribosomal protein L7/12, oligomerisation (N-terminal) domain
superfamily: Ribosomal protein L7/12, oligomerisation (N-terminal) domain
family: Ribosomal protein L7/12, oligomerisation (N-terminal) domain
domain: Ribosomal protein L7/12, oligomerisation (N-terminal) domain
species: Escherichia coli [TaxId: 562]

Probab=98.28  E-value=1.1e-07  Score=60.73  Aligned_cols=34  Identities=9%  Similarity=0.271  Sum_probs=31.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHhCCCCCCC
Q 030925           41 LERISDELLDLTKLERYDFATLLGCKLGLDRFGP   74 (169)
Q Consensus        41 v~~Ivd~I~~LtLlE~seLv~~leekfgv~~~a~   74 (169)
                      -++|++.|.+||++|+.||++.+|+||||++.++
T Consensus         3 ke~Ileaia~MSVmdvveLi~amEEKFGVsaaa~   36 (47)
T d2gyc31           3 KDQIIEAVAAMSVMDVVELISAMEEKFGVSAAAA   36 (47)
T ss_dssp             HHHHHHHHHHSCHHHHHHHHHHHHHHTCTTTTHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHhCcchhcc
Confidence            4789999999999999999999999999997654

>d1zavu1 a.108.1.1 (U:1-30) Ribosomal protein L7/12, oligomerisation (N-terminal) domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: Ribosomal protein L7/12, oligomerisation (N-terminal) domain
superfamily: Ribosomal protein L7/12, oligomerisation (N-terminal) domain
family: Ribosomal protein L7/12, oligomerisation (N-terminal) domain
domain: Ribosomal protein L7/12, oligomerisation (N-terminal) domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.93  E-value=3.9e-06  Score=48.52  Aligned_cols=29  Identities=24%  Similarity=0.322  Sum_probs=27.7

Q ss_pred             hHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 030925           40 KLERISDELLDLTKLERYDFATLLGCKLG   68 (169)
Q Consensus        40 kv~~Ivd~I~~LtLlE~seLv~~leekfg   68 (169)
                      .+++|++.|..||+-|+++||+.|+++||
T Consensus         2 ~~eeiv~aiekltvaelaelvk~ledkfg   30 (30)
T d1zavu1           2 TIDEIIEAIEKLTVSELAELVKKLEDKFG   30 (30)
T ss_dssp             CHHHHHHHHHHSBHHHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHhhHHHHHHHHHHHHhhcC
Confidence            37899999999999999999999999998

>d1aipc1 a.5.2.2 (C:2-53) Elongation factor Ts (EF-Ts), N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=93.09  E-value=0.039  Score=35.03  Aligned_cols=37  Identities=27%  Similarity=0.483  Sum_probs=28.9

Q ss_pred             hHHHHHHHHHhhCCChhHHHHHHhhcchhhhcCCCHHHHHHHH
Q 030925          114 KIKIIKEVKTFTGLGLKESKDLVEKAPAVIKKGVTKEEADKIV  156 (169)
Q Consensus       114 Ki~vIK~VR~it~LgLkEAK~lVe~~P~~IKe~vsKeeAE~ik  156 (169)
                      ++..||.+|+.||.|+.+.|+.++..-      -..|.|.++-
T Consensus         2 ~~elvK~LR~~Tga~~~dcKkAL~e~~------gD~ekA~e~L   38 (52)
T d1aipc1           2 QMELIKKLREATGAGMMDVKRALEDAG------WDEEKAVQLL   38 (52)
T ss_dssp             HHHHHHHHHHHHCCCHHHHHHHHHHTT------TCHHHHHHHH
T ss_pred             hHHHHHHHHHHhCCCHHHHHHHHHHcC------CCHHHHHHHH
Confidence            688999999999999999999887543      3455555543

>d1efub3 a.5.2.2 (B:1-54) Elongation factor Ts (EF-Ts), N-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=90.32  E-value=0.12  Score=32.90  Aligned_cols=26  Identities=27%  Similarity=0.498  Sum_probs=22.7

Q ss_pred             HHHHHHHHHhhCCChhHHHHHHhhcc
Q 030925          115 IKIIKEVKTFTGLGLKESKDLVEKAP  140 (169)
Q Consensus       115 i~vIK~VR~it~LgLkEAK~lVe~~P  140 (169)
                      ...||.+|+.||.|+++.|+.++..-
T Consensus         5 ~~~iK~LR~~Tgag~~dCKkAL~e~~   30 (54)
T d1efub3           5 ASLVKELRERTGAGMMDCKKALTEAN   30 (54)
T ss_dssp             HHHHHHHHHHHCCCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcC
Confidence            47899999999999999999877543

>d1xb2b1 a.5.2.2 (B:56-111) Elongation factor Ts (EF-Ts), N-terminal domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=89.35  E-value=0.16  Score=32.56  Aligned_cols=26  Identities=15%  Similarity=0.294  Sum_probs=23.0

Q ss_pred             HHHHHHHHHhhCCChhHHHHHHhhcc
Q 030925          115 IKIIKEVKTFTGLGLKESKDLVEKAP  140 (169)
Q Consensus       115 i~vIK~VR~it~LgLkEAK~lVe~~P  140 (169)
                      ..+||++|+.||.|+.+.|+.++..-
T Consensus         5 ~~lvk~LRe~Tga~~~dcKkAL~e~~   30 (56)
T d1xb2b1           5 KELLMKLRRKTGYSFINCKKALETCG   30 (56)
T ss_dssp             HHHHHHHHHHHCCCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcC
Confidence            57899999999999999999887643